Comparative genomic analysis of the human gut microbiome reveals a broad distribution of metabolic pathways for the degradation of host-synthetized mucin glycans
Comparative genomic analysis of the human gut microbiome reveals a broad distribution of metabolic pathways for the degradation of host-synthetized mucin glycans
Dmitry A. Ravcheev , Ines Thiele Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg * Correspondence:
Corresponding Author: University of Luxembourg, Campus Belval, 7, Avenue des Hauts-Fourneaux, L-4362, Esch-sur-Alzette [email protected]
Keywords: Human gut microbiome, Comparative genomics, Mucin glycans, Carbohydrate utilization, Metabolism reconstruction Abstract
The colonic mucus layer is a dynamic and complex structure formed by secreted and transmembrane mucins, which are high-molecular-weight and heavily glycosylated proteins. Colonic mucus consists of a loose outer layer and a dense epithelium-attached layer. The outer layer is inhabited by various representatives of the human gut microbiota (HGM). Glycans of the colonic mucus can be used by the HGM as a source of carbon and energy when dietary fibers are not sufficiently available. Both commensals and pathogens can utilize mucin glycans. Commensals are mostly involved in the cleavage of glycans, while pathogens mostly utilize monosaccharides released by commensals. This HGM-derived degradation of the mucus layer increases pathogen susceptibility and causes many other health disorders. Here, we analyzed 397 individual HGM genomes to identify pathways for the cleavage of host-synthetized mucin glycans to monosaccharides as well as for the catabolism of the derived monosaccharides. Our key results are as follows: (i) Genes for the cleavage of mucin glycans were found in 86% of the analyzed genomes, whereas genes for the catabolism of derived monosaccharides were found in 89% of the analyzed genomes. (ii) Comparative genomic analysis identified four alternative forms of the monosaccharide-catabolizing enzymes and four alternative forms of monosaccharide transporters. (iii) Eighty-five percent of the analyzed genomes may be involved in exchange pathways for the monosaccharides derived from cleaved mucin glycans. (iv) The analyzed genomes demonstrated different abilities to degrade known mucin glycans. Generally, the ability to degrade at least one type of mucin glycan was predicted for 81% of the analyzed genomes. (v) Eighty-two percent of the analyzed genomes can form mutualistic pairs that are able to degrade mucin glycans and are not degradable by any of the paired organisms alone. Taken together, these findings provide further insight into the inter-microbial communications of the HGM as well as into host-HGM interactions. Introduction
The colonic mucus layer is a dynamic and complex structure that is mainly composed of the glycoprotein mucin-2 (MUC2) (Johansson et al., 2008). MUC2 is characterized by abundant
Degradation of mucin glycans by HGM This is a provisional file, not the final typeset article glycosylation. Highly variable glycan structures are O-linked to serine or threonine residues that are concentrated in so-called PTS (proline, threonine, and serine) domains. The mass of the glycosylated MUC2 protein is approximately 2.5 MDa, and more than 80% of this mass comes from carbohydrates (Lang et al., 2007). Glycosylated MUC2 can form a gel-like structure due to its N- and C-terminal domains that form numerous cross-links between cysteine residues (Johansson et al., 2013). Due to these cross-links, MUC2 forms a mucus structure. The colonic mucus consists of two layers, a loose outer layer and a dense epithelium-attached layer (Johansson et al., 2011). The inner layer acts as a physical barrier preventing bacteria from accessing the epithelium, whereas the outer layer is densely populated by various commensal microbes (Johansson et al., 2011;Johansson et al., 2015;Li et al., 2015). Interactions between the human gut microbiota (HMG) and colonic mucus are not limited to the HGM members inhabiting the outer layer of mucus. Thus, once in the outer mucus layer, gut microbes not only avoid washout by the contents flowing through the colon but also are able to access mucin glycans that can be used as sources of carbon and energy. Both commensal and pathogenic microbes are able to degrade mucin glycans. The commensal microbes are usually able to cleave glycans with secreted glycosyl hydrolases (GHs) and lyases and further catabolize the derived monosaccharides, whereas most intestinal pathogens use monosaccharides released by commensal-secreted enzymes (Martens et al., 2008;Koropatkin et al., 2012;Marcobal et al., 2013;Cameron and Sperandio, 2015;Pacheco and Sperandio, 2015). Being both an environmental niche and a food source, the mucus layer plays a key role in shaping the HGM composition (Koropatkin et al., 2012;Johansson et al., 2015). In turn, the HGM is able to modulate mucus chemical composition via the degradation of glycans and peptides and the local release of bioactive factors that can change the expression patterns of the mucin-producing host cells (Deplancke and Gaskins, 2001). The degradation of mucin glycans is highly dependent on the host diet. Thus, decreased levels of fibers in the diet force the HGM to degrade more mucin glycans, resulting in the thinning and depletion of the mucus layer, which subsequently enhances host susceptibility to pathogens (Marcobal et al., 2013;Tailford et al., 2015;Desai et al., 2016). Additionally, depletion of the colonic mucus is associated with such disorders as Crohn’s disease, celiac disease, colonic ischemia, compound exocytosis, and ulcerative colitis (Png et al., 2010;Joossens et al., 2011;Parmar et al., 2012;Johansson et al., 2013;Arike and Hansson, 2016;Cockburn and Koropatkin, 2016). Because of the significant mucus-microbiota interaction, multiple HGM organisms have been analyzed for their abilities to degrade mucin glycans. To date, more than 50 mucus-degrading bacterial strains, generally belonging to
Akkermansia muciniphila , Bacteroides spp.,
Barnesiella intestinihominis , Bifidobacterium spp.,
Eubacterium spp., and
Ruminococcus spp. (Derrien et al., 2004;Martens et al., 2008;Png et al., 2010;Kiyohara et al., 2012;Pudlo et al., 2015;Tailford et al., 2015;Desai et al., 2016), have been identified. In this study, we analyzed the degradation of mucin glycans by the HGM using comparative genomic analysis. The comparative genomic analysis of sugar utilization by microbes is a recent but actively developing research area. There are several approaches to the genome-based computational analysis of sugar metabolism. The first approach is a pathway-centric one. In this approach, a certain pathway, for example, utilization of N-acetylgalactosamine, is analyzed in a large number of related genomes (Rodionov et al., 2000;Yang et al., 2006;Suvorova et al., 2011;Leyn et al., 2012;Zhang et al., 2015). The second approach is a regulator-centric one in which the family of proteins that are transcriptional regulators of sugar metabolism is analyzed in multiple genomes, and regulated metabolic pathways are reconstructed (Ravcheev et al., 2012;Rodionova et al., 2012;Kazanov et al., 2013;Ravcheev et al., 2014;Suvorova et al., 2015). The third approach is a taxonomy-centric one. In this approach, a set of genomes belonging to a certain taxon is selected, and all possible pathways for
HGM Mucin Glycans carbohydrate metabolism are reconstructed (Rodionov et al., 2010;Rodionov et al., 2011;Ravcheev et al., 2013;Rodionov et al., 2013;Khoroshkin et al., 2016). Another approach for the computational analysis of metabolic pathways is a community-centric one. In this approach, metabolic pathways are reconstructed for microorganisms cohabiting a certain environment such as the human intestine. Unlike functional analysis of metagenomes, community-centric analysis is based on a reconstruction of metabolic pathways in individual genomes of microbes found in the studied environmental community and further prediction of interactions between different microorganisms. However, this approach has not previously been used for the detailed analysis of sugar utilization. It has been repeatedly used to reconstruct other metabolic pathways, including respiration (Ravcheev and Thiele, 2014), biosynthesis of B-vitamins (Magnusdottir et al., 2015) and quinones (Ravcheev and Thiele, 2016), as well central carbon metabolism and biosynthesis of amino acids and nucleotides (Magnusdottir et al., 2017), in multiple HGM genomes. Here, we used a microbiome-centric approach to analyze the degradation of mucin glycans in HGM genomes. This analysis includes metabolic pathways for cleavage of mucin glycans to monosaccharides as well for utilization of these monosaccharides as carbon and energy sources. Additionally, we predicted exchange pathways for mucin glycan-derived monosaccharides, the specificity of various HGM strains for different types of mucin glycans, and mutualistic relationships for the cleavage of mucin glycans by different HGM organisms. Materials and methods 2.1. Analyzed genomes
The PubSEED platform was used to annotate the genes responsible for the degradation of mucin glycans. To avoid misannotation, all of the proteins with the same function were checked for orthology. Orthologs were defined as the best bidirectional hits that have a similar genomic context. To search for the best bidirectional hits, a BLAST algorithm (Altschul et al., 1997) was implemented in PubSEED and the IMG platform (cutoff = e -20 ). Additionally, in the search for orthologs, the GenomeExplorer program package (Mironov et al., 2000) was used, and orthologs were determined as the best bidirectional hits with protein identity no less than 20%. To analyze genomic context and gene occurrence, we used PubSEED and STRING v9.1 (Franceschini et al., 2013) along with phylogenetic trees for protein domains in MicrobesOnline (Dehal et al., 2010). To analyze protein domain structure, we searched the Pfam (Finn et al., 2014) and CDD (Marchler-Bauer et al., 2013) databases and the “Domains & Families” option of the MicrobesOnline platform. Additionally, functional annotations of
Degradation of mucin glycans by HGM Results 3.1. Repertoire of enzymes for the degradation of mucin glycans
Mucin glycans are complex polysaccharides that contain five different monosaccharides, L-fucose (Fuc), D-galactose (Gal), N-acetyl-D-galactosamine (GalNAc), N-acetyl-D-glucosamine (GlcNAc), and N-acetylneuraminic acid (Neu5Ac), and can form various glycosidic bonds (Podolsky, 1985;Tailford et al., 2015). Evidently, degradation of such complex structures requires a large number of bacterial proteins interacting with the mucin glycans. Because of this complexity and the variability of mucin glycans, systematization of bacterial proteins for the degradation of mucin glycans became the first goal of this study. All bacterial proteins involved in the degradation of mucin glycans were divided into two groups: (1) GHs, which split glycans to oligo- and monosaccharides as well separating glycans from mucin proteins, and (2) enzymes required for the catabolism of the derived monosaccharides. This division was made based on the following aspects of mucin glycan degradation by the HGM. First, splitting of glycans and catabolism of the derived monosaccharides are spatially separated; the first process occurs outside of the microbial cell, while the second process occurs in the cell cytoplasm. Such spatial separation is important for the metabolic modeling of HGM-host metabolism. Second, some HGM organisms have only glycan-cleaving hydrolases or only monosaccharide-catabolizing enzymes. For example,
Bacteroides thetaiotaomicron encodes only sialidases that can release Neu5Ac from mucin glycans but not genes for the catabolism of this compound (Marcobal et al., 2011). On the other hand,
Clostridium difficile encodes only genes for the catabolism of N-acetylneuraminic acid but not sialidases (Sebaihia et al., 2006). Such differentiation of the enzymes provides for the cross-talk of the HGM organisms, as was shown for
B. thetaiotaomicron releasing Neu5Ac and
Salmonella typhimurium consuming it (Ng et al., 2013). Thus, the distribution of the monosaccharide-releasing enzymes and monosaccharide catabolic pathways (CPs) should be analyzed separately. To identify all the GHs for mucin glycan degradation, we first identified all the glycosyl bonds previously detected in mucin glycans of the human intestine (Podolsky, 1985;Larsson et al., 2009;Tailford et al., 2015), which resulted in a collection of 21 different glycosyl bonds (Figure 1A and Supplementary Table S8). Then, we searched for all the enzymes able to hydrolase such bonds
HGM Mucin Glycans using the KEGG (Kanehisa et al., 2012) and MetaCyc (Caspi et al., 2014) databases. Briefly, we searched the databases for both of the monosaccharides that form the bond after the reactions connected to this monosaccharide were filtered by EC number to identify all the glycoside hydrolases (i.e., enzymes with EC 3.2.-.-) for which this monosaccharide can be a substrate or product. After that, all the identified glycoside hydrolases were manually checked for the corresponding analyzed bond. Finally, we collected 9 types of GHs (Supplementary Table S8). For further information on these enzymes, such as protein families and experimentally analyzed representatives, we carried out a search by EC number in the CAZy database (Cantarel et al., 2012). Pathways for catabolism of the derived monosaccharides were identified here as sets of reactions necessary to convert the monosaccharides into any intermediates of central metabolism. The pathway data were extracted from the KEGG (Kanehisa et al., 2012) and MetaCyc (Caspi et al., 2014) databases as well as previous publications. For the two monosaccharides GalNAc and GlcNAc, only one pathway per monosaccharide has been described (Figure 1B). GalNAc is catabolized through tagatose 6-phosphate to glyceraldehyde 3-phosphate and dihydroxyacetone phosphate (Leyn et al., 2012;Bidart et al., 2014), whereas GlcNAc is converted into fructose 6-phosphate (Afzal et al., 2015a;Plumbridge, 2015;Uhde et al., 2016). For Fuc, Gal, and Neu5Ac, two alternative pathways for the catabolism of each monosaccharide have been described. Thus, Fuc may be catabolized through fuculose 1-phosphate to lactaldehyde and dihydroxyacetone phosphate or through fucolactone to lactate and pyruvate (Yew et al., 2006;Hobbs et al., 2013). For the genes encoding enzymes of the latter pathway, no four-letter abbreviations have been designated. Thus, for these genes, we introduced the designation fclABCDE (from fucolactone; the last letter corresponds to the order of catalyzed reactions in the pathway). Gal catabolism can also occur through two alternative pathways: galactose 1-phosphate and UDP galactose (the Leloir pathway) (Bettenbrock and Alpert, 1998;Afzal et al., 2015b) and galactose 6-phosphate and tagatose 6-phosphate (Zeng et al., 2010). The last two steps of the second pathway, phosphorylation and aldol splitting, are shared with the pathway for GalNAc catabolism. Neu5Ac is converted to fructose 6-phosphate by two pathways, through GlcNAc or GlcNAc 6-phosphate (Vimr et al., 2004;Brigham et al., 2009). Therefore, these pathways overlap with GlcNAc by two or three reactions, respectively (Figure 1B). Intestinal mucin glycans contain Fuc moieties connected to Gal by -L-fucosidases (Katayama et al., 2004;Nagae et al., 2007;Ashida et al., 2009). -L-fucosidases found in the analyzed genomes belong to three families: GH29, GH42, and GH95. At least one -L-fucosidase was found in 131 genomes (Supplementary Table S3). Surprisingly, all of these genomes belong to only four phyla: Actinobacteria, Bacteroidetes, Firmicutes, and Verrucomicrobia. The largest number of genes encoding -L-fucosidases were found in representatives of Firmicutes ( Lachnospiraceae bacterium
Bacteroides coprophilus
DSM 18228, 14 genes). Genes for both the alternative pathways for Fuc catabolism were found in the analyzed genomes. Thus, genes for the pathway through fuculose 1-phosphate ( fucIKA genes) were found in the 125 genomes belonging to all studied bacterial phyla except Synergistetes and Tenericutes. The main cause of misannotation for the fuc genes is their similarity to the genes for rhamnose utilization. Both the FucK and RhaB proteins belong to the FGGY family of carbohydrate kinases (Pfam: PF02782), whereas the FucA and RhaD proteins belong to the Aldolase_II family (Pfam: PF00596). We used the following steps to distinguish fuc and rha genes. (1) The fucI gene was used as a signature gene for the Fuc
Degradation of mucin glycans by HGM This is a provisional file, not the final typeset article utilization pathway because this gene has no homologs among rhamnose-catabolizing enzymes. (2) Phylogenetic maximum-likelihood trees were built for the FucK/RhaB- (Supplementary Figure S1) and FucA/RhaD-like proteins (Supplementary Figure S2) found in the analyzed genomes. (3) Genes that chromosomally clustered with fucI were annotated as fucK and fucA . (4) Single-copy genes found in genomes having fucI but lacking any rha genes were annotated as fucK and fucA . (5) The remaining non-annotated genes were annotated by their positions on the phylogenetic trees relative to the previously annotated genes. Thus, using both phylogeny and genomic context, Fuc catabolism through fuculose 1-phosphate was reconstructed in the analysis. The genes for the pathway through fucolactone ( fclABCDE ) were found in only 8 genomes, all belonging to Actinobacteria. Nevertheless, orthologs for all 6 previously described genes (Yew et al., 2006) were found in only 2
Streptomyces spp. genomes, whereas another 6 genomes had only fclBC genes, which were clustered together with each other and with genes for Fuc transporters (see below). A detailed analysis of this gene cluster revealed non-orthologous replacements for the fclADE genes. First, the fcl gene clusters contain the protein homologous to 4-hydroxy-tetrahydrodipicolinate synthase and belonging to the DHDPS protein family (Pfam: PF00701). This family includes enzymes such as N-acetylneuraminate lyase and trans -o-hydroxybenzylidenepyruvate hydratase-aldolase, which produces pyruvate as one of its products. Because pyruvate is also a product of the FclE-catalyzed reaction (Figure 1B), we concluded that this DHDPS family protein is an alternative form of FclE and named it FclE2. The Fcl pathway contains two dehydrogenases, L-fucose dehydrogenase FclA and 2-keto-3-deoxy-L-fuconate dehydrogenase FclD. These dehydrogenases were previously described in
Xanthomonas campestris (Yew et al., 2006) and
Burkholderia multivorans (Hobbs et al., 2013). In X. campestris , FucA belongs to the aldo/keto reductase family (Pfam: PF00248), whereas FucD belongs to the short-chain dehydrogenase family (Pfam: PF00106). On the other hand, in B. multivorans , both FucA and FucD belong to the short-chain dehydrogenase family. The proteins belonging to the short-chain dehydrogenase family were also encoded in the fcl gene cluster in genomes lacking the fclAD genes. To predict their functions, we constructed phylogenetic trees for these proteins and experimentally analyzed the FclA and FclD proteins belonging to the short-chain dehydrogenase family (Supplementary Figure S3). As expected, in the resulting phylogenetic tree, the FclD proteins from X. campestris , B. multivorans and Streptomyces spp. were clustered together, forming a monophyletic branch. The proteins from
C. ammoniagenes and
Bifidobacterium spp. formed a monophyletic branch separated from both FclD proteins and the branch for B. multivorans FclA protein. Thus, we proposed that the proteins from
C. ammoniagenes and
Bifidobacterium spp. are bifunctional enzymes having both FclA and FclD activities. This assumption indirectly corroborated that only one copy of these proteins was found in the fcl gene clusters. Thus, proteins from
C. ammoniagenes and
Bifidobacterium spp. were designated FclA2/FclD2. In total, three different Fuc-specific transport systems were found in the analyzed genomes, including two different permeases and one ABC transporter. The first permease, herein referred to as FucP1, was previously analyzed in
Escherichia coli (Gunn et al., 1994) and predicted in the genomes of
Bacteroides spp. (Hooper et al., 1999;Ravcheev et al., 2013). This transporter is highly distributed in the analyzed genomes, co-clustering with the fuc genes in 88 genomes and with the fcl genes in 4 genomes. An alternative Fuc permease named FucP2 belongs to the Sugar_tr family (Pfam: PF00083). The gene encoding this transporter is located inside the fuc gene cluster in the genomes of
Pediococcus acidilactici and
Lactobacillus rhamnosus . A third transport system, the ABC-type system, was predicted in this study. The closest experimentally analyzed homolog of the substrate-binding subunit of this system is the substrate-binding protein AraF of the arabinose-specific ABC system from E. coli (Johnson and Schleif, 2000). Predicted Fuc-specific transport systems have been predicted by chromosomal clustering with the fuc genes in 25 analyzed genomes, including
Actinomyces spp.,
HGM Mucin Glycans Clostridium spp.,
Coprococcus spp.,
Lachnospiraceae bacterium , Ruminococcus spp., and
Enterobacter spp. Additionally, genes of this system co-cluster together with the fcl genes in the genomes of
Streptomyces sp. HGB0020,
Bifidobacterium longum
ATCC 15697, and
Bifidobacterium pseudocatenulatum
DSM 20438. Generally, -L-fucosidases were found in 131 analyzed genomes, whereas Fuc CPs were found in 133 genomes. Both -fucosidases and CPs were found together in 72 analyzed genomes (Figure 2A, Supplementary Table S3). GalNAc plays a crucial role in mucin glycans, forming links with side-chain oxygen atoms of Ser/Thr residues in mucin peptide chains. This linkage between the glycan and peptide parts of mucin is mediated by various endo- -N-acetylgalactosaminidases (Ashida et al., 2008;Koutsioulis et al., 2008;Kiyohara et al., 2012). Additionally, in intestinal mucin glycans, GalNAc moieties can be connected to Gal by -N-hexosaminidases (Cabezas, 1989;Zwierz et al., 1999) and exo- -N-acetylgalactosaminidases (Hoskins et al., 1997). At least one GalNAc-releasing GH (GalNAc-GH) was found in 218 genomes (Supplementary Table S4). No GalNAc-GHs were found in the genomes of Archaea or in the bacterial phyla Fusobacteria and Synergistetes. The maximal number of genes for the GalNAc-GHs was found in Bacteroides sp. 1_1_6 and
Bacteroides sp. D22. Both of these organisms have 17 GalNAc-GH genes per genome. All exo- -N-acetylgalactosaminidases in the analyzed genomes belong to the GH27 family. This type of GalNAc-GHs were found in only 13 genomes belonging to only four phyla: Actinobacteria, Bacteroidetes, Firmicutes, and Proteobacteria. Endo- -N-acetylgalactosaminidases are also rarely represented in the analyzed genomes. These enzymes, belonging to the GH101 or GH129 families, were found in only 15 genomes from only two phyla: Actinobacteria and Firmicutes. In contrast, -N-hexosaminidases were found in 217 genomes and in all bacterial phyla except Fusobacteria and Synergistetes. All the -N-hexosaminidases found in the analyzed genomes belong to the GH3 or GH20 families. It was previously found that at least some Firmicutes and Proteobacteria can utilize only galactosamine (GalN) but not GalNAc (Leyn et al., 2012;Zhang et al., 2015). The crucial feature of the GalNAc-utilizing microorganisms is the presence of the agaA gene for N-acetylgalactosamine-6-phosphate deacetylase. For proper pathway reconstruction, AgaA should be distinguished from the N-acetylglucosamine-6-phosphate deacetylase NagA, which is involved in GlcNAc utilization. For this purpose, we used the following pipeline. (1) The agaS/agaI genes were used as signature genes for the GalNAc utilization pathway, and nagB was used as a signature gene for the GlcNAc utilization pathway. These genes were selected because AgaS and AgaI have no homologs in the GlcNAc utilization pathway and NagB has no homologs among the GalNAc catabolic enzymes. (2) A phylogenetic maximum-likelihood tree was built for AgaA/NagA-like proteins (Supplementary Figure S4) found in the analyzed genomes. (3) Genes chromosomally clustered with agaS or agaI were annotated as agaA , while genes chromosomally clustered with nagB were annotated as nagA . (4) Genes that co-occurred in the genomes with only agaS or agaI were annotated as agaA , and genes that co-occurred in the genomes with only nagB were annotated as nagA . (5) The remaining non-annotated genes were annotated by their positions on the phylogenetic trees relative to the previously annotated genes. Degradation of mucin glycans by HGM This is a provisional file, not the final typeset article GalNAc can be phosphorylated by the kinase AgaK and by the phosphotransferase transport system (PTS). No AgaK genes were found in the analyzed genomes with the GalNAc CPs. Three PTSs associated with aga genes were previously identified, including a GalNAc-specific (AgaPTS), a GalN-specific (GamPTS), and a GnbPTS with multiple specificities (Leyn et al., 2012;Bidart et al., 2014;Zhang et al., 2015). The GnbPTS can transport and phosphorylate three different compounds: GalNAc, lacto-N-biose (Gal -1,3-GlcNAc), and galacto-N-biose (Gal -1,3-GalNAc). Both lacto-N-biose and galacto-N-biose contain the glycosyl bonds found in intestinal mucin glycans (Supplementary Table S1). Thus, GnbPTS was included in the three analyzed pathways as GalNAc, GlcNAc, and Gal catabolism. Lacto- and galacto-N-biose then are hydrolyzed by intracellular GH GnbG. Formally, GnbG is a GH, but because of its intracellular localization here, it is considered to be a part of the GalNAc, GlcNAc and Gal CPs. Thus, AgaPTS and GnbPTS but not GamPTS are involved in GalNAc catabolism. We used the following steps to distinguish the various types of PTSs associated with aga genes. (1) A phylogenetic tree for the PTS component EIIC was constructed (Supplementary Figure S5). (2) The systems that co-clustered with the gnbG gene were annotated as GnbPTSs. (3) The systems that co-clustered with the agaS / agaI and agaA genes were annotated as AgaPTS. (4) The systems that co-clustered with the agaS / agaI genes but not the agaA genes were annotated as GamPTS. In addition to GamPTS, lacto- and galacto-N-biose can be imported into the cell by the ABC transport system (LnbABC in Supplementary Tables S2, S4-5, and S7) and then hydrolyzed by intracellular phosphorylase LnbP (Nishimoto and Kitaoka, 2007). As with GamPTS-GamB, the LnbABC-LnbP system was considered to be a part of the GalNAc, GlcNAc and Gal CPs. Generally, the GalNAc CP was found in the 76 analyzed genomes belonging to the phyla Actinobacteria, Firmicutes, and Proteobacteria (Figure 2A, Supplementary Table S4). Distribution of the GalNAc-releasing GHs is much broader; these enzymes were found in 218 genomes. Both GHs and CPs were found in only 27 of analyzed genomes. Intestinal mucin glycans contain GlcNAc moieties that form various glycosyl bonds, such as -linkages are hydrolyzed by -N-acetylglucosaminidases (Shimada et al., 2015), whereas the -linkages with Gal or GalNAc are hydrolyzed by -N-hexosaminidases (see subsection ). At least one GlcNAc-releasing GH (GlcNAc-GH) was found in 257 genomes (Supplementary Table S5). The maximal numbers of the genes encoding GlcNAc-GHs were found in Bacteroides sp. 1_1_14 (23 genes) and
B. thetaiotaomicron (22 genes). In addition to -N-hexosaminidases (see subsection ), -N-acetylglucosaminidases (GH89 family) were found in 60 genomes (Supplementary Table S5). All genomes in which -N-acetylglucosaminidase genes were found belong to the phyla Actinobacteria, Bacteroidetes, Firmicutes, Proteobacteria, and Verrucomicrobia. The GlcNAc CP (Yang et al., 2006;Plumbridge, 2015) was found in 218 of the analyzed genomes (Supplementary Table S5). This pathway is broadly distributed among analyzed taxa and is absent only in Archaea and the bacterial phyla Synergistetes and Verrucomicrobia. Various GlcNAc-specific transport systems were identified in the analyzed genomes. These are the PTSs NagE (Plumbridge et al., 1993;Plumbridge, 2015) and GnbPTS (see subsection ), the ABC transport systems NgcEFG (Xiao et al., 2002) and LnbABC (Nishimoto and Kitaoka, 2007), and the permease NagP (Ravcheev et HGM Mucin Glycans al., 2013). Here, in addition to these previously known transporters, we predicted an alternative ABC transporter for GlcNAc, which was named NgcABCD. Genes for this system co-cluster together with the nagKAB genes in the genomes of Bifidobacterium spp. The following differences exist between NgcEFG and NgcABCD. First, the ngcEFG operon encodes only the substrate-binding protein and two intermembrane proteins, whereas the ngcABCD operon encodes an additional protein, an ATP-binding protein. Second, the substrate-binding subunits of these systems belong to different protein families; NgcE is a member of the SBP_bac_8 family (Pfam: PF13416), whereas NgcA is a member of the SBP_bac_5 family (Pfam: PF00496). Generally, GlcNAc CP was found in 218 analyzed genomes, whereas GlcNAc-GHs were found in 266 genomes. Both the pathway and the GHs were found in 155 analyzed genomes (Figure 2, Supplementary Table S5).
Neu5Ac is commonly found in the terminal location of intestinal mucin glycans (Johansson et al., 2011;McGuckin et al., 2011), forming Bacteroides fragilis
Bacteroides sp. D22 genomes (7 genes per genome). Two CPs for Neu5Ac have been described previously (Vimr et al., 2004;Brigham et al., 2009). These pathways can be distinguished by the sugar epimerases; the first pathway is characterized by the presence of N-acetylmannosamine-6-phosphate 2-epimerase (NanE), whereas the second pathway is characterized by the presence of N-acetylglucosamine 2-epimerase (NanE-II) (Figure 1B). These epimerases are homologous to each other, and to distinguish them, we constructed a maximum-likelihood phylogenetic tree (Supplementary Figure S6). Nonetheless, NanE and NanE-II are homologs; they form clearly distinguishable monophyletic branches on the tree. Thus, the first Neu5Ac CP, with the NanE enzyme, was found in 131 analyzed genomes, belonging to the phyla Actinobacteria, Firmicutes, Fusobacteria, and Proteobacteria. The second pathway, with the NanE-II enzyme, was found in 56 genomes. Most of these genomes are Bacteroidetes, only 3 of them belong to Firmicutes, and
Akkermansia muciniphila is a representative of Verrucomicrobia. The CPs were found in 187 analyzed genomes, belonging to all bacterial phyla with the exception of Synergistetes and Tenericutes. For Neu5Ac, various types of transporters have been previously described (Thomas, 2016). In the analyzed genomes, we identified the following Neu5Ac transporters: an MFS-type transporter (NanT), a sodium solute symporter (NanX), two ABC transport systems (NanABC and NanABC2), and a TRAP transport system (NeuT) (Supplementary Table S7). No novel genes for Neu5Ac transport or catabolism were predicted. Generally, the Neu5Ac CPs were found in 189 analyzed genomes, while both the pathways and the sialidases were found in only 80 analyzed genomes.
In human intestinal mucin glycans, Gal can form Degradation of mucin glycans by HGM This is a provisional file, not the final typeset article linkages can be hydrolyzed by various - (Wakinaka et al., 2013;Han et al., 2014;Reddy et al., 2016) and -galactosidases (Husain, 2010;Park and Oh, 2010;Michlmayr and Kneifel, 2014;Solomon et al., 2015). At least one galactosidase gene was found in 310 analyzed genomes, belonging to all bacterial phyla except Synergistetes. The maximal numbers of galactosidase genes were found in Bacteroides cellulosilyticus
DSM 14838 (56 genes) and
Bacteroides sp. D2 (50 genes). The -galactosidases found in the analyzed genomes belong to families GH4, GH27, GH36, and GH43, whereas the -galactosidases belong to families GH2, GH35, and GH42. For Gal utilization, two alternative pathways are possible. The Leloir pathway, in which Gal is utilized through UDP galactose (Bettenbrock and Alpert, 1998;Afzal et al., 2015b), was found in 335 analyzed genomes belonging to all bacterial phyla except Synergistetes. The alternative pathway, the utilization of Gal through tagatose 6-phosphate (Zeng et al., 2010), was found in only 29 analyzed genomes, belonging to Actinobacteria and Firmicutes. Surprisingly, genes for the Leloir pathway were also found in all 29 of these genomes. Analysis of the Leloir pathway revealed that 79 of the analyzed genomes have galK genes for galactokinase but lack galU and galT genes for uridylyltransferases. To predict non-orthologous displacement of these genes, we used an analysis of gene occurrence also known as “Phyletic patterns” (Osterman and Overbeek, 2003;Tatusov et al., 2003). For prediction of the non-orthologous displacement of galT , two sets of genomes were selected. The first set included finished genomes having galK but not galT . The second set included finished genomes having both galK and galT (Supplementary Table S9). Finished genomes were selected because draft genomes do not allow us to distinguish the actual absence of the gene in the genome or the location of the gene in an unsequenced part of the genome. Candidate functional analogs of GalT were identified as genes present in all genomes having only galK but absent in genomes having galKT genes. This gene search resulted in 62 candidates (Supplementary Table S9). All of these candidates, with the exception of membrane, regulatory, and secreted proteins, were then checked for additional confirmation of their role in galT non-orthologous displacement (Supplementary Figure S7). This check included an analysis of sequence similarity of these proteins to known proteins and protein families as well as an analysis of their chromosomal co-clustering with previously annotated genes. The best candidate was the gene Amuc _0031 in the A. muciniphila genome. First, the encoded protein belongs to the nucleotidyl transferase (NTP_transferase, Pfam: PF00483) family. Members of the NTP_transferase family are able to transform phosphosugars onto nucleotide sugars (Jensen and Reeves, 1998). Second, in A. muciniphila, this gene was co-clustered with galE . Homologs of this gene were found in all analyzed genomes, and a phylogenetic maximum-likelihood tree was constructed (Supplementary Figure S7). Analysis of the tree together with the gene occurrence patterns showed that all homologs found in genomes lacking galT form a monophyletic branch. Additionally, proteins belonging to this branch are often co-clustered with genes for Gal metabolism, such as the galE gene, the galMP gene, or the a- and b-galactosidase genes. Thus, the identified genes were predicted to be functional analogs of galT and were designated galY . The galY genes were found in 70 genomes (Supplementary Table S7), including 68 genomes of Bacteroidetes as well as single representatives of Verrucomicrobia ( A. muciniphila ) and Firmicutes ( Holdemania filiformis
DSM 12042). Unfortunately, analysis of gene occurrence did not provide any results for non-orthologous displacement of galU . A number of previously known Gal transporters were found in the analyzed genomes. These are galactose (Essenberg et al., 1997) and galactose/lactose (Luesink et al., 1998) permeases, here referred to as GalP1 and GalP2, respectively; the galactose/methyl galactoside ABC transport system Mgl (Weickert and Adhya, 1993); and the galactose-specific PTS (Zeng et al., 2012). Additionally, Gal can be imported into the cell as part of lacto-N-biose and galacto-N-biose by the GnbPTS and/or LnbABC
HGM Mucin Glycans systems (see subsections and ). Additionally, we predicted a new Gal-specific transporter, here referred to as GalP3. This transporter is a member of the SSS family (sodium solute symporter, Pfam: PF00474). It was initially predicted due to co-clustering of its gene together with galK in the genomes of Propionibacterium spp. and with galKT in the genomes of
Streptomyces spp. Further analysis revealed the presence of this transporter in 43 analyzed genomes. In most of these genomes, the gene for the novel transporter is co-clustered with the genes for the Leloir pathway or galactosidases (Supplementary Table S7). Generally, Gal CPs were found in 355 analyzed genomes, whereas both Gal-GHs and the pathways were found in 296 genomes. Discussion 4.1. Distribution of GHs and CPs in the analyzed HGM genomes
In this study, we analyzed the distribution of genes required for utilization of mucin glycans in 397 genomes of microbes found in the human gastrointestinal tract. The analyzed genes encode extracellular enzymes for cleavage of mucin glycans to monosaccharides as well as transport proteins and enzymes for subsequent utilization of the derived monosaccharides. These genes were conditionally divided into five groups, representing the five monosaccharides found in mucin glycans. Each of these monosaccharide-specific groups of genes can, in turn, be subdivided into extracellular GHs (Figure 1A) and genes for monosaccharide-utilizing CPs (Figure 1B). Analyzing the distribution of glycan-utilizing genes, we observed two general trends: (1) numerous genomes contain only CPs or only GHs and (2) pathways for different monosaccharides are distributed very differently from each other (Figure 2). The presence of only CPs or only GHs has been previously described for the metabolism of Fuc (Pacheco et al., 2012;Conway and Cohen, 2015) or Neu5Ac (Ng et al., 2013) in the HGM. Nonetheless, such partial pathways have been previously described for only some HGM genomes. Here, our results demonstrated that such partial pathways are characteristic for the degradation of mucin glycans by the HGM. Thus, 339 (85%) of the analyzed genomes have a partial pathway for at least one of the mucin-derived monosaccharides. Generally, 726 partial pathways were found, including 312 cases with the presence of only CPs and 414 cases with the presence of only GHs (Supplementary Table S10). Such a wide distribution of partial pathways indicates the existence of multiple exchange pathways for mucin glycan-derived monosaccharides in the HGM (see subsection ). A distinct distribution of pathways for utilization of the analyzed monosaccharides has not been described previously at the level of large microbial communities, such as the HGM. At the level of monosaccharide-specific CPs, sorting by the number of genomes where they were found produces the following sequence: Gal > GlcNAc > Neu5Ac > Fuc > GalNAc. A similar sequence was found for the GHs: Gal > GlcNAc > GalNAc > Fuc > Neu5Ac. The differences between these two sequences can be explained as follows. (1) GHs specific for Fuc and Neu5Ac were found in 72 and 80 genomes, respectively. Therefore, their switching places may be the result of a minor bias caused by the selection of the analyzed genomes. Because only genomes available in the HMP, KEGG and PubSEED databases were analyzed (see subsection ), the set of selected genomes is slightly biased. Thus, the set of analyzed genomes is enriched by genomes of Proteobacteria, especially by Enterobacteriales. (2) This difference also indicates that gastric mucin glycans are mainly neutral and that sialylation of them is quite rare (Rossez et al., 2012). (3) The higher number of genomes with GalNAc-GHs in comparison with Fuc- and Neu5Ac-GHs can be explained by the fact that the majority of GalNAc-GHs are -hexosaminidases, which are enzymes specific to GalNAc and GlcNAc. This explanation is in good agreement with the large number of genomes having GlcNAc-specific CPs and/or GHs. Degradation of mucin glycans by HGM This is a provisional file, not the final typeset article The different distributions of pathways for different monosaccharides may be due to their dissemination in nature, particularly in the human intestine. Therefore, in animals, Fuc and Neu5Ac are found mostly on terminal units of carbohydrate chains linked to proteins or lipids (Staudacher et al., 1999;Vimr, 2013;Pickard and Chervonsky, 2015). GalNAc is a slightly more disseminated since it is not only a terminal monosaccharide but also acts as a connecting link between the glycan and protein portions of N- and O-linked proteoglycans (Ashida et al., 2008;Koutsioulis et al., 2008;Kilcoyne et al., 2012;Kiyohara et al., 2012). Thus, in the human intestine, these three monosaccharides are parts of host-synthesized glycans or are derived from dietary components of animal origin. GlcNAc is much more broadly disseminated and, in addition to being found in glycoproteins, it can be found in heparin, chondroitin sulfate, hyaluronan, and various human milk oligosaccharides (HMOs) (Lamberg and Stoolmiller, 1974;Garrido et al., 2011). Gal is even more broadly disseminated than GlcNAc and can be found in both animal- or plant-synthesized polysaccharides. Thus, Gal is a building block of arabinogalactan, pectic galactan, and HMOs. As a component of side chains, Gal may be found in type II rhamnogalacturonan and as a terminal unit in -mannans, galactomannan, xyloglucan, and xylan (Kunz et al., 2000;Mohnen, 2008;Garrido et al., 2011;Marcobal et al., 2011). To confirm that the distribution of monosaccharide-utilizing pathways and monosaccharide-specific GHs reflects dissemination of these monosaccharides in nature, we analyzed data for these monosaccharides from the KEGG database. For each of the monosaccharides, two parameters were analyzed: (1) the number of reactions that the monosaccharide is involved in as a product or a substrate and (2) the number of glycans containing this monosaccharide (Supplementary Figure S8). The numbers of reactions and glycans for the monosaccharides are in line with the distribution of CPs and GHs in the analyzed genomes. Thus, analysis of the numbers of reactions for each monosaccharide resulted in the following sequence: Gal > GlcNAc > Neu5Ac > Fuc > GalNAc, which is identical to the sequence for genomes with monosaccharide-specific CPs. For the number of glycans, the sequence is as follows: Gal > GlcNAc > Fuc > GalNAc > Neu5Ac, which is similar to the sequence for genomes with monosaccharide-specific GHs. Examining the variation of the monosaccharide-specific pathways, we wondered how the combinations of the utilized monosaccharides varied across the HGM genomes. Because only CPs or only GHs were found in 85% of the genomes, combinations of CPs and GHs were analyzed separately. We used binary information regarding the distribution of pathways in 397 HGM genomes, i.e., the presence or absence of a CP or GH in a genome (Supplementary Table S10). We investigated the 2 =32 possible patterns of the eight studied pathways. Only 22 (69%) and 19 (60%) of the 32 possible patterns were found for CPs and GHs, respectively. The most frequent pattern for CPs represents catabolism of only Gal and GlcNAc. This pattern was found in 59 analyzed genomes, including Bifidobacteriacea, various Firmicutes, and Fusobacteria. Other frequently observed CP patterns are as follows: (1) absence of CPs for any analyzed monosaccharides, (2) utilization of all monosaccharides except GalNAc, (3) utilization of Gal only, and (4) utilization of Gal and Neu5Ac only. The most frequent pattern for GHs is the presence of GHs specific to all five monosaccharides. This pattern was found in 81 genomes, including some Actinobacteria, multiple Bacteroidetes, Firmicutes (mostly belonging to the Lachnospiraceae family), and A. muciniphila . Other frequently observed GH patterns are as follows: (1) presence of GHs specific to GalNAc, GlcNAc, and Gal; (2) absence of GHs for any analyzed monosaccharides; (3) presence of only Gal-specific GHs; and (4) presence of only GlcNAc- and Gal-specific GHs. Theoretically, the combination of the observed CP and GH patterns should result in 22*19=418 combined patterns; however, only 102 (24%) of them were actually observed, which indicates interdependence of GHs and CPs. This interdependence appears to be rather trivial because only non- HGM Mucin Glycans digestible carbohydrates are available for HGM organisms, especially in the large intestine (Walker et al., 2011), so CPs are highly dependent on GHs. On the other hand, no significant correlations were observed between CP and GH patterns. Together with CP dependence on GH repertoire, this absence of correlations again indicates intensive exchange by mucin-derived monosaccharides in the HGM. Surprisingly, the combined pattern corresponding to the most frequent GH and CP patterns was found in only three genomes: Clostridium nexile
DSM 1787,
Lachnospiraceae bacterium
Ruminococcus lactaris
ATCC 29176. The combined pattern we observed most frequently was the absence of all analyzed GHs and CPs. This pattern was found in 28 genomes, belonging to Archaea, some Firmicutes, and Beta- and Epsilonproteobacteria. Other frequently observed combined patterns were as follows: (1) presence of GHs specific for GalNAc, GlcNAc, and Gal together with CPs for GlcNAc and Gal; (2) presence of GHs for all five monosaccharides together with utilization of all these monosaccharides except GalNAc; and (3) presence of GHs for all five monosaccharides together with utilization of Neu5Ac and Gal. Taken together, an optimal strategy for glycan-utilizing HGM microorganisms includes (1) the presence of CPs specific to GlcNAc and Gal as the components of multiple host- and dietary-derived carbohydrates and (2) the presence of GHs specific to as large as possible a number of glycan-building monosaccharides.
The presence of only CPs for a certain monosaccharide in one HGM organism and only GHs for this monosaccharide in another organism allows us to predict possible exchange pathways. Previously, exchange pathways in the HGM have been found for Fuc (Pacheco et al., 2012;Conway and Cohen, 2015) and Neu5Ac (Ng et al., 2013). Here, we predicted multiple exchange pathways for all five monosaccharides forming mucin glycans. The 339 (85%) analyzed genomes demonstrated the presence of only CPs or only GHs for at least one monosaccharide; therefore, the majority of HGM organisms are involved in these exchange pathways. Based on the presence or absence of CPs and GHs, each organism can be classified as a “donor” (having GHs but not CPs) or “acceptor” (having CPs but not GHs) in relation to a certain monosaccharide. Among the analyzed genomes, 181 (46%) organisms can only be “donors” while 103 (33%) organisms can only be “acceptors” for the studied monosaccharides (Supplementary Table S10). Additionally, 55 (14%) organisms were classified as “mixed”, being “donors” for some monosaccharides and “acceptors” for others. In summary (Figure 3 and Supplementary Table S11), data on possible exchange pathways demonstrate the following features of exchange of mucin-derived monosaccharides in the HGM: (1) larger number of “donors” relative to “acceptors” and (2) taxonomy-specific distribution of donors and acceptors. Generally, 414 “donor” roles were found to be distributed among 236 genomes, whereas 312 “acceptor” roles were found to be distributed among 158 genomes. The significant predominance of “donors” reflects an adaptation of the analyzed organisms to the environment of the human intestine. No free monosaccharides are available in the large intestine (Walker et al., 2011), so the only way for HGM organisms to obtain monosaccharides is from the cleavage of polysaccharides that are non-digestible for the host. Thus, HGM organisms should have GHs not only for monosaccharides that they can catabolize but also for all monosaccharides present in the available polysaccharides. Additionally, the appearance of a new “donor” role during evolution is much more probable than the appearance of a new “acceptor” role. With the appearance of a “donor”, only one new function should be acquired
Degradation of mucin glycans by HGM This is a provisional file, not the final typeset article through horizontal gene transfer or duplication and neofunctionalization. Indeed, horizontal transfer has been previously demonstrated for genes encoding sialidase (Roggentin et al., 1993). In contrast, the appearance of a new “acceptor” requires horizontal transfer of multiple genes for enzymes and transporters. Because genes for CPs are not always encoded as a single locus (Leyn et al., 2012;Ravcheev et al., 2013;Rodionov et al., 2013;Khoroshkin et al., 2016), horizontal transfer of all genes required for the catabolism of a certain monosaccharide would be nearly impossible. Similarly, the appearance of a new CP through duplication and neofunctionalization requires the simultaneous change of specificities for multiple genes, which is also very unlikely. The distribution of “donor” and “acceptor” roles among the analyzed genomes is taxon-specific (Figure 3). Thus, no “donors” were found among Fusobacteria, and no “acceptors” were found among Tenericutes and Verrumicrobia. Among Bacteroidetes, only 2 strains of
Bacteroides eggerthii were identified as “acceptors”, whereas 62 strains from this group were identified as “donors”. The opposite is observed for Proteobacteria, for which only 9 genomes can be “donors” and 51 genomes can be “acceptors”. At the phylum level, the most intensive exchange of monosaccharides should be between “donor” Bacteroidetes and “acceptor” Proteobacteria. In some cases, up to 4 different monosaccharides are able to be exchanged. Thereby, exchange pathways in the HGM are formed by the interaction of two factors, (1) evolutionary history of microbial taxa and (2) adaptation of HGM organisms to the intestinal environment.
Mucin glycans are complex polysaccharides characterized by a variety of monosaccharide building blocks and bonds between these monosaccharides (Martens et al., 2009;Koropatkin et al., 2012;Rossez et al., 2012;Johansson et al., 2015;Tailford et al., 2015). Tens of mucin glycan motifs and structures have been described to date. These structures vary in terms of both monosaccharides and glycosidic bonds (Podolsky, 1985;Rossez et al., 2012;Tailford et al., 2015). Furthermore, the analyzed genomes vary in the patterns of GHs able to cleave mucin glycans (Supplementary Table S10). Thus, we proposed that the analyzed organisms should demonstrate some preferences for cleaved mucin glycans. Data on the known structures of mucin glycans found in the human intestine were collected from the literature (Podolsky, 1985;Rossez et al., 2012), resulting in 56 different glycan structures (Supplementary Figure S9 and Supplementary Table S12). For each analyzed genome, the ability to cleave each glycan structure was predicted. Glycan was considered able to be cleaved by a certain organism if the GHs for all glycoside bonds in the glycan were found in the genome of the organism. Bonds between GalNAc and Ser/Thr residues of the mucin peptide were excluded from the analysis because this bond is cleaved by endo- -N-acetylgalactosaminidases found in only 15 of the analyzed genomes (Supplementary Table S4). On the basis of this prediction for each genome, the pattern of likely cleaved glycans was determined (Supplementary Table S13). Among 397 analyzed genomes, 321 (81%) were able to cleave at least one of the glycans; generally, 20 different glycan-cleavage patterns were defined. It has previously been estimated that approximately 40% of bacteria have glycan-degrading enzymes (Arike and Hansson, 2016). Here, we demonstrated that, at least for the HGM microbes, this figure is actually at least two-fold higher. Based on the glycan-cleavage patterns, only 8 analyzed organisms are able to cleave all 56 glycan structures belonging to the phyla Bacteroidetes ( Bacteroides ovatus
SD CMC 3f,
Bacteroides sp. 2_2_4, and
Bacteroides sp. 3_1_23) and Firmicutes (
Clostridium perfringens
WAL-14572, 3 strains of
Lachnospiraceae bacterium , and
Ruminococcus torques
ATCC 27756). The three most frequently observed patterns were the following. (1) Only Core 1 (Tailford et al., 2015) structures can be cleaved,
HGM Mucin Glycans i.e., no GHs except -galactosidases are present. This pattern was found in 77 genomes belonging mostly to Lactobacillaceae, Ruminococcaceae and Enterobacteriales. (2) Glycans having only poly-lacto-N-biose but lacking any specific groups (Supplementary Table S12) can be cleaved. These genomes have only GHs for the hydrolysis of -Gal and -GlcNAc bonds. This pattern was found in 56 genomes belonging mostly to Actinobacteria, Firmicutes and Enterobacteriales. (3) All glycans lacking -GalNAc groups can be cleaved. These genomes have all GHs but not -N-acetylgalactosaminidases. This pattern was found in 41 genomes belonging mostly to Bacteroidaceae. The predicted glycan-cleavage patterns demonstrate some taxon-specific features. For example, for 66 genomes of glycan-cleaving Bacteroidetes, only 8 patterns were identified, whereas for 46 genomes of glycan-cleaving Proteobacteria, only 4 patterns were identified. Thus, the glycan-cleavage abilities of HGM organisms also depend on the evolutionary history of the taxon, whereas the correlation between these abilities and taxonomy is not so strong. On the other hand, mucin glycans can also be cleaved by multistrain communities in which each strain hydrolyzes a part of the glycosyl bonds (Figure 5). A minimal multistrain community should include two different strains. Here, we proposed the existence of mutualistic pairs of HGM organisms. We defined a mutualistic pair as a pair of organisms that can cleave more mucin glycans than a union of the glycan-cleavage patterns of these two organisms. To identify such mutualistic pairs, we used the following procedure. (1) All possible pairs of analyzed genomes were analyzed with the exception of pairs in which at least one of the organisms can cleave all 56 glycan structures (Supplementary Figure S9). (2) For each of the analyzed pairs, two glycan-cleavage patterns were predicted. (3) The so-called “summary pattern” was defined as a union of the patterns for each organism in the pair. (4) The so-called “mutualistic pattern” was defined as a pattern predicted on the basis of the GHs present in both genomes. (5) For a pair of genomes, the common set of GHs was considered to be the sum of GHs found in each genome. (6) For the common set of GHs, the ability to cleave each glycan structure was predicted. (7) All the glycans able to be cleaved by the common set of GHs formed the “mutualistic pattern” for this pair of organisms. (8) If the “mutualistic pattern” contained glycans absent in the “summary pattern”, this pair of organisms was considered mutualistic. In total, 325 (82%) analyzed genomes were able to form mutualistic pairs (Figure 5 and Supplementary Table S14). The identified mutualistic pairs able to cleave all 56 glycan structures were considered to be highly beneficial. Thus, in agreement with predicted glycan-cleavage patterns, Collinsella stercoris
DSM 13279 and
Clostridium spiroforme
DSM 1552 can cleave 27 different glycans each,
Eubacterium dolichum
DSM 3991 can cleave 9 glycans, and
Cedecea davisae
DSM 4568 cannot cleave any mucin glycans. Each of these genomes can form highly beneficial pairs with various
Bacteroides spp. that alone can cleave 40 to 41 glycans.
Clostridium celatum
DSM 1785 has a glycan-cleavage pattern that includes 50 glycans. This genome can form highly beneficial pairs with
Bifidobacterium spp. that can cleave 2 to 22 glycans, with
Lactobacillus spp. that can cleave 0 to 22 glycans, and with Enterobacteriaceae that can cleave 0 to 9 glycans. All highly beneficial pairs described are organized in a similar manner. The five strains listed above are distantly related to each other, and three of them,
C. celatum , C. davisae , and
C. spiroforme , are pathogens (Akinosoglou et al., 2012;Papatheodorou et al., 2012;Agergaard et al., 2016), whereas no data about the pathogenicity of
C. stercoris and
E. dolichum were found. Each of these five strains forms highly beneficial pairs with a large number of organisms closely related to each other and highly represented in healthy HGM (Eckburg et al., 2005;Goodman et al., 2011;Walker et al., 2011;Graf et al., 2015). Based on these features of highly beneficial pairs, we proposed that these five organisms can be harmful to human health not only due to pathogenicity itself but also because they can greatly increase the ability of the HGM to forage the host mucus layer.
Degradation of mucin glycans by HGM This is a provisional file, not the final typeset article
This study resulted in the prediction of a number of novel genes involved in utilization of human mucin glycans. Nonetheless, some problems related to monosaccharide utilization remain unresolved (Supplementary Tables S3-S8). These problems are the absence of one or two steps of certain CPs as well as the absence of known transporters in the presence of a corresponding CP. At least one such problem was detected for 90 (23%) of the analyzed genomes. The most frequently observed problems are as follows: (1) the absence of known Gal transporters in 30 genomes, mostly Firmicutes; (2) the absence of L-fuculose phosphate aldolase in 23 genomes belonging to Bacteroidetes, Clostridia, and some Actinobacteria; (3) the absence of L-fuculokinase in 19 genomes belonging to Bacteroidetes, Clostridia, and some Actinobacteria; and (4) the absence of galactose kinase, which was observed in 7 genomes of Firmicutes. Other problems have been observed in 1 to 6 analyzed genomes. These unresolved problems can be explained by three non-exclusive hypotheses: (1) the incompleteness of genome sequences, (2) non-orthologous replacements for enzymes and transporters, and (3) the existence of alternative reactions and pathways. A total of 326 (82%) of the analyzed genomes have draft status, and some genes for the transport and utilization of monosaccharides may thus be absent from the current version of the genome. Indeed, 77 genomes with absent genes have draft status. Therefore, obtaining the finished genomes for the studied organisms will help us to fill the gaps in the incomplete pathways. The problem of pathway incompleteness is only partially resolved by the finished versions of the analyzed genomes because incomplete pathways were also found in 13 finished genomes. For example, the finished genome of
Clostridium difficile
NAP07 lacks genes for Gal- and GalNAc-specific transporters, as well as for galactose kinase. These gaps may be filled by prediction or experimental identification of non-orthologous replacements, namely, genes that are not orthologs of the previously known genes but have the same functions. Such replacements have been previously described for the analyzed monosaccharide-utilization pathways. Thus, pairs of non-orthologous proteins were known for galactosamine-6-phosphate isomerase (AgaS and AgaI), glucosamine-6-phosphate deaminase (NagB1 and NagB2), and N-acetylglucosamine kinase (NagK1 and NagK2). Moreover, in this study, we predicted 4 non-orthologous replacements for enzymes (FclA2, FclD2, FclE2, and GalY) and 4 non-orthologous replacements for transporters (FucABC, FucP2, GalP3, and NgcABCD). The idea of non-orthologous replacement is very promising because these replacements can be found with computational methods alone. Another possible way to resolve problems with incomplete pathways is the prediction of alternative reactions or pathways. Unlike the case of non-orthologous displacements, here, we should predict genes with previously unknown functions, but involved into metabolism of analyzed compounds. For example, catabolism of Fuc, Neu5Ac, and Gal is possible via two different pathways for each of these compounds (Figure 1B). The prediction of novel reactions in pathways is usually more difficult than the detection of non-orthologous displacements but is also possible using only computational methods. For example, an alternative pathway for the biosynthesis of menaquinone was discovered using comparative genomics techniques (Hiratsuka et al., 2008), and gaps in this pathway have subsequently been filled by computational analysis (Ravcheev and Thiele, 2016). Taken together, all the remaining problems may be resolved using comparative genomics-based analysis. The availability of an increasing number of microbial genomes as well as completion of existing genome sequences will provide significant opportunities for the computational analyses of these microbes and the resolution of the described problems.
HGM Mucin Glycans This study included a comprehensive computational analysis of the degradation of mucin glycans by HGM microorganisms. In addition to novel functional annotations, which are standard for comparative genomics studies, this analysis also predicted commensal exchange pathways between different microbes, specificity of the HGM strains to various types of glycans, and mutualistic inter-strain interactions at the level of mucin glycan degradation. These results demonstrate the efficiency of the selected approach: the analysis of individual genomes for members of the microbial community. Although this study significantly improved our understanding of the HGM and its interactions with the host, there is still much to be discovered in this field. The areas lacking evidence indicate the future directions for the analysis of the HGM as it relates to mucin glycan degradation. The first two future directions, which are defined by unresolved problems (see subsection ), are to update the metabolic reconstructions with full versions of all analyzed genomes and to fill in the remaining gaps in the studied metabolic pathways. The third future direction is to expand the reconstructed metabolic, transport, and exchange pathways to novel genomes; this is aimed at the growing number of microbial genomes, including members of the HGM community. Mucin glycans are not the only glycans that can be degraded by HGM organisms. Thus, the fourth future direction is pathway reconstruction for the degradation of dietary-derived glycans. The HGM has been intensively studied in relation to its impact on human health, and more than 50 human diseases have been shown to be associated with HGM alterations (Potgieter et al., 2015). Nonetheless, the use of HGM taxonomical composition as a diagnostic tool is currently hampered by the high variability of the HGM depending on various factors (Kurokawa et al., 2007;Clemente et al., 2012;Yatsunenko et al., 2012;Suzuki and Worobey, 2014;Allais et al., 2015) and by functional redundancy of the HGM. As it relates to the HGM, functional redundancy is defined as the ability of multiple bacteria, both closely and distantly related to each other, to implement the same metabolic functions (Moya and Ferrer, 2016). On the other hand, more than a dozen HGM-produced metabolites are associated with various human diseases (Potgieter et al., 2015), indicating possible associations between human health and the presence or absence of certain metabolic pathways in the HGM. Therefore, functional redundancy may provide a possible approach for the use of the HGM to distinguish health states of an individual. Indeed, a comparison of metagenomics data from healthy or diseased subjects may highlight HGM genes that are associated with disease. Because accurate functional annotation of all the genes in each metagenome is extremely time-consuming and costly, it makes sense to compare different microbiomes for the presence or absence of particular metabolic pathways that are already annotated and possibly associated with a health state. Because the state of the intestinal mucus layer is closely associated with human health (Png et al., 2010;Johansson et al., 2013;Cockburn and Koropatkin, 2016;Desai et al., 2016), HGM genes involved in the degradation of mucin glycans are perfect candidates to be tested for associations with health and disease. Thus, the fifth future direction is an analysis of the presence or absence of the analyzed genes in health and disease HGM metagenomes. Computational modeling of metabolism (Palsson, 2006;Orth et al., 2010) may be used for elucidation of mucin glycan degradation by HGM organisms. Previously, genome-based models have been published for single representatives of the HGM (Thiele et al., 2005;Orth et al., 2011;Thiele et al., 2011;Thiele et al., 2012;Heinken et al., 2014) as well as for whole HGM communities (Levy and Borenstein, 2013;Bauer et al., 2015;Heinken and Thiele, 2015;Noecker et al., 2016;Shashkova et al., 2016;Magnusdottir et al., 2017). Additionally, computational models for human metabolism are also available (Thiele et al., 2013b;Mardinoglu et al., 2014), and host-microbial metabolic interactions have
Degradation of mucin glycans by HGM This is a provisional file, not the final typeset article been modeled (Heinken et al., 2013;Thiele et al., 2013a;Shoaie and Nielsen, 2014;Levy et al., 2015;Heinken et al., 2016). Thus, the final future direction is to update the existing HGM and host-HGM metabolic models of reactions for all the pathways reconstructed in this study. Such an update would improve the existing models and would improve our understanding of the interaction between humans and their microbiome. Conflict of Interest
The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as potential conflicts of interest. Author Contributions
DAR and IT conceived of and designed the research project and wrote the manuscript. DAR performed the genomic analysis of the pathways for utilization of mucin glycans. All authors read and approved the final manuscript. Funding
The presented project is supported by the National Research Fund ( References
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Figure 3. Distribution of monosaccharide donors and acceptors by taxa.
Only genomes classified as “donors” (the horizontal axis) and “acceptors” (the vertical axis) are shown. The numbers of exchanged monosaccharides are shown in agreement with the color scale. For details on each pair of organisms and exchanged monosaccharides, see Supplementary Table S11.
Figure 4. Cleavage of a hypothetical mucin glycan by a community of HGM inhabitants.
For each reaction, the taxa with the corresponding specific GHs are shown.
Figure 5. Mutualistic pairs for cleavage of mucin glycans.
The numbers of cleaved glycans are shown in agreement with the color scale. The numbers of glycans cleaved by single organisms are shown for all genomes. For the pairs of organisms, the numbers of cleaved glycans are shown only for mutualistic pairs. For details on each mutualistic pair of organisms and cleaved glycans, see Supplementary Table S14.
Ser/Thr (1) ) EC 3.2.1.52 ) EC 3.2.1.23EC 3.2.1.97EC 3.2.1.51 EC 3.2.1.14EC 3.2.1.51 EC 3.2.1.23EC 3.2.1.18 EC 3.2.1.52 EC 3.2.1.52 EC 3.2.1.18 EC 3.2.1.23 EC 3.2.1.49 EC 3.2.1.52EC 3.2.1.23 EC 3.2.1.50EC 3.2.1.22
FucoseGalactoseN-AcetylgalactosamineN-AcetylglucosamineN-Acetylneuraminic acid
Monosaccharides: (A)
FucoseFuculose
FucIFucK
Fuculose-1P N-AcetylglucosamineN-Acetylglucosamine-6PGlucosamine-6PFructose-6P N-Acetylmannosamine-6PN-Acetylmannosamine
NanKNanA
N-acetylneuraminic acid
FucA
Lactaldehyde
Central metabolism
Lactate
FclE
FclD
FclC
FuconateFucolactone
FclB NanE
N-Acetylgalactosamine-6PN-Acetylgalactosamine GalactoseGalactose-1PUDP-GalactoseGlucose-1P Glucose-1PUDP-Glucose
GalEGalUGalK
Glyceraldehyde-3PTagatose-1,6-PPTagatose-6-PGalactosamine-6P
AgaAAgaPTS (B)
GalPTS
Galactose-6P
LacABAgaY/LacDAgaZ/LacC GalT NagANagB
Catabolic pathwaysfor utilization of
FucoseGalactoseN-AcetylgalactosamineN-AcetylglucosamineN-Acetylneuraminic acid
Dihydroxyacetonephosphate
FclA
Pyruvate
AgaS/AgaI NagK NanE-II
Figure 1 ucGalNAcGlcNAcNeu5AcGal
Catablic pathways (CPs)Glycosyl hydrolases (GHs)Both CPs and GHs
Number of Genomes
84 8850 12538 11556 86 121
Number of Genomes N u m b e r o f M ono sacc h a r i d es
19 810 (A)(B) Figure 2 therFirmicutes P r o t e ob ac t e r i a T e n e r i c u t es V e rr u c o m i c r ob i a Clostridiaother Firmicutes BacilliBacteroidetesActinobacteriaFusobacteria P r o t e ob ac t e r i a C l o s t r i d i a B ac illi BacteroidetesActinobacteria
Number of the exchangedmonosaccharides
Donor organismsAcceptororganisms
Figure 3
O Ser/Thr Bacteroidetes
Akkermansia muciniphila some Actinobacteriasome Firmicutessome Bacteroidetessome Firmicutes
O Ser/Thr - - - - BifidobacteriaceaeBacteroidetesFirmicutesEnterobacteriaceae
Akkermansia muciniphila O Ser/Thr - - - - BacteroidetesFirmicutes
Akkermansia muciniphila some Actinobacteria
BacteroidetesFirmicutes
Akkermansia muciniphila some Actinobacteria
O Ser/Thr - - - - ActinomycetaceaeBacteroidetesFirmicutes
Akkermansia muciniphila some Enterobacteriales
Figure 4 acteroidetes
Bacilli
Clostridia
Proteobacteriaother FirmicutesActinobacteria other Bacteria
Scales forsingle organisms
Bacteroidetes
Bacilli
Clostridia
Proteobacteriaother Firmicutes Actinobacteriaother Bacteria Number ofhydrolyzedglycans
Mutualistic pairis not formed
Figure 5 g|349741.6.peg.2080 [Akkermansia muciniphila ATCC BAA-835]fig|500639.8.peg.2895 [Enterobacter cancerogenus ATCC 35316]fig|718254.4.peg.1503 [Enterobacter cloacae subsp. cloacae NCTC 9394]fig|1002368.3.peg.1437 [Yokenella regensburgei ATCC 43003]fig|469608.3.peg.3085 [Klebsiella sp. 1_1_55]fig|1203547.3.peg.3407 [Klebsiella pneumoniae subsp. pneumoniae WGLW5]fig|665944.3.peg.2326 [Klebsiella sp. 4_1_44FAA]fig|1037908.3.peg.631 [Klebsiella pneumoniae 1162281]fig|665944.3.peg.2327 [Klebsiella sp. 4_1_44FAA]fig|99287.12.peg.3153 [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]fig|749540.3.peg.1801 [Escherichia coli MS 146-1]fig|457401.3.peg.2743 [Escherichia sp. 4_1_40B]fig|386585.9.peg.3829 [Escherichia coli O157_H7 str. Sakai]fig|457400.3.peg.795 [Escherichia sp. 1_1_43]fig|749538.3.peg.3709 [Escherichia coli MS 116-1]fig|749548.3.peg.2866 [Escherichia coli MS 196-1]fig|511145.12.peg.2903 [Escherichia coli str. K-12 substr. MG1655]fig|749547.3.peg.3379 [Escherichia coli MS 187-1]fig|679202.3.peg.1195 [Escherichia coli MS 85-1]fig|679204.3.peg.2410 [Escherichia coli MS 145-7]fig|749545.3.peg.1360 [Escherichia coli MS 182-1]fig|409438.11.peg.3235 [Escherichia coli SE11]fig|749532.3.peg.755 [Escherichia coli MS 78-1]fig|679205.4.peg.3057 [Escherichia coli MS 124-1]fig|749533.3.peg.4098 [Escherichia coli MS 84-1]fig|679207.4.peg.781 [Escherichia coli MS 107-1]fig|796392.4.peg.1562 [Escherichia coli MS 79-10]fig|679206.4.peg.383 [Escherichia coli MS 119-7]fig|749537.3.peg.3800 [Escherichia coli MS 115-1]fig|749527.3.peg.1202 [Escherichia coli MS 21-1]fig|431946.3.peg.2719 [Escherichia coli SE15]fig|749550.3.peg.769 [Escherichia coli MS 200-1]fig|364106.8.peg.3154 [Escherichia coli UTI89]fig|469598.5.peg.1724 [Escherichia sp. 3_2_53FAA]fig|749528.3.peg.1771 [Escherichia coli MS 45-1]fig|749546.3.peg.3108 [Escherichia coli MS 185-1]fig|749531.3.peg.5231 [Escherichia coli MS 69-1]fig|1127356.4.peg.1366 [Escherichia coli 4_1_47FAA]fig|749549.3.peg.2179 [Escherichia coli MS 198-1]fig|500640.5.peg.4209 [Citrobacter youngae ATCC 29220]fig|469595.3.peg.2647 [Citrobacter sp. 30_2]fig|742730.3.peg.268 [Citrobacter freundii 4_7_47CFAA]0.9730.3910.961 fig|500638.3.peg.182 [Edwardsiella tarda ATCC 23685]fig|469613.3.peg.2797 [Enterobacteriaceae bacterium 9_2_54FAA]fig|1002364.3.peg.2556 [Hafnia alvei ATCC 51873]1.0000.9070.978 fig|521000.6.peg.3796 [Providencia rettgeri DSM 1131]fig|469613.3.peg.316 [Enterobacteriaceae bacterium 9_2_54FAA]fig|1002364.3.peg.3982 [Hafnia alvei ATCC 51873]fig|500639.8.peg.4083 [Enterobacter cancerogenus ATCC 35316]fig|718254.4.peg.57 [Enterobacter cloacae subsp. cloacae NCTC 9394]fig|749527.3.peg.3109 [Escherichia coli MS 21-1]fig|749549.3.peg.713 [Escherichia coli MS 198-1]fig|1127356.4.peg.4504 [Escherichia coli 4_1_47FAA]fig|749547.3.peg.3772 [Escherichia coli MS 187-1]fig|469598.5.peg.4644 [Escherichia sp. 3_2_53FAA]fig|749528.3.peg.1055 [Escherichia coli MS 45-1]fig|364106.8.peg.4376 [Escherichia coli UTI89]fig|431946.3.peg.3916 [Escherichia coli SE15]fig|749550.3.peg.2784 [Escherichia coli MS 200-1]fig|749546.3.peg.2616 [Escherichia coli MS 185-1]fig|749537.3.peg.2709 [Escherichia coli MS 115-1]fig|749531.3.peg.3400 [Escherichia coli MS 69-1]fig|409438.11.peg.4368 [Escherichia coli SE11]fig|679207.4.peg.4236 [Escherichia coli MS 107-1]fig|796392.4.peg.2550 [Escherichia coli MS 79-10]fig|749532.3.peg.2945 [Escherichia coli MS 78-1]fig|749545.3.peg.1080 [Escherichia coli MS 182-1]fig|679204.3.peg.3705 [Escherichia coli MS 145-7]fig|386585.9.peg.5048 [Escherichia coli O157_H7 str. Sakai]fig|749548.3.peg.2048 [Escherichia coli MS 196-1]fig|749544.3.peg.549 [Escherichia coli MS 175-1]fig|457401.3.peg.4495 [Escherichia sp. 4_1_40B]fig|749540.3.peg.1651 [Escherichia coli MS 146-1]fig|511145.12.peg.4019 [Escherichia coli str. K-12 substr. MG1655]fig|749538.3.peg.790 [Escherichia coli MS 116-1]fig|457400.3.peg.1967 [Escherichia sp. 1_1_43]fig|679206.4.peg.3511 [Escherichia coli MS 119-7]fig|749533.3.peg.3967 [Escherichia coli MS 84-1]fig|679202.3.peg.3624 [Escherichia coli MS 85-1]fig|679205.4.peg.1900 [Escherichia coli MS 124-1]fig|99287.12.peg.4264 [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]fig|500640.5.peg.4652 [Citrobacter youngae ATCC 29220]fig|469595.3.peg.4534 [Citrobacter sp. 30_2]fig|742730.3.peg.69 [Citrobacter freundii 4_7_47CFAA]0.9980.344fig|1002368.3.peg.1359 [Yokenella regensburgei ATCC 43003]fig|469608.3.peg.4899 [Klebsiella sp. 1_1_55]fig|1037908.3.peg.4142 [Klebsiella pneumoniae 1162281]fig|665944.3.peg.4770 [Klebsiella sp. 4_1_44FAA]fig|1203547.3.peg.535 [Klebsiella pneumoniae subsp. pneumoniae WGLW5]0.1901.0000.9551.000 fig|791161.5.peg.2312 [Enterococcus faecium PC4.1]fig|525279.3.peg.1238 [Enterococcus faecium TX1330]fig|702448.3.peg.2239 [Enterococcus faecalis PC1.1]fig|749514.3.peg.1531 [Enterococcus faecalis TX1341]fig|657310.3.peg.1793 [Enterococcus sp. 7L76]fig|749491.3.peg.1827 [Enterococcus faecalis TX2137]fig|749518.3.peg.1118 [Enterococcus faecalis TX2134]fig|525278.3.peg.2355 [Enterococcus faecalis TX1322]fig|749515.3.peg.1444 [Enterococcus faecalis TX1342]fig|749494.3.peg.2141 [Enterococcus faecalis TX4244]0.9991.0000.977
Figure S1.
Maximum-likelihood tree for the FucK and RhaB proteins. Functions are shown by colors. The SEED identifiers for proteins are shown; for their sequences, see the file Sequences S1 in the Supplementary materials. Genome names are shown in brackets.
RhaB fig|742816.3.peg.608 [Megamonas funiformis YIT 11815]fig|552395.3.peg.1625 [Lachnospiraceae bacterium 4_1_37FAA]fig|1078090.3.peg.887 [Coprococcus sp. HPP0074]fig|1078091.3.peg.910 [Coprococcus sp. HPP0048]fig|658086.3.peg.2093 [Lachnospiraceae bacterium 3_1_57FAA_CT1]fig|457421.5.peg.2906 [Clostridiales bacterium 1_7_47FAA]fig|997893.5.peg.5753 [Clostridium bolteae 90A5]fig|411902.9.peg.1943 [Clostridium bolteae ATCC BAA-613]0.8950.9610.532 fig|944559.3.peg.84 [Paenibacillus sp. HGF7]fig|1078505.3.peg.4213 [Paenibacillus sp. HGH0039]fig|908341.3.peg.3654 [Paenibacillus sp. HGF5]fig|908341.3.peg.2701 [Paenibacillus sp. HGF5]0.9770.8250.922 fig|556261.3.peg.4003 [Clostridium sp. D5]fig|411461.4.peg.968 [Dorea formicigenerans ATCC 27755]fig|997893.5.peg.4175 [Clostridium bolteae 90A5]fig|742735.4.peg.2849 [Clostridium clostridioforme 2_1_49FAA]1.000 fig|592010.4.peg.2229 [Abiotrophia defectiva ATCC 49176]fig|469618.3.peg.791 [Fusobacterium varium ATCC 27725]1.0000.6900.957 fig|411466.7.peg.602 [Actinomyces odontolyticus ATCC 17982]fig|1078086.3.peg.863 [Streptomyces sp. HGB0020]1.000 fig|556261.3.peg.4256 [Clostridium sp. D5]fig|742742.3.peg.923 [Collinsella tanakaei YIT 12063]fig|1203556.3.peg.1578 [Actinomyces sp. HPA0247]fig|411466.7.peg.1083 [Actinomyces odontolyticus ATCC 17982]fig|568703.30.peg.2699 [Lactobacillus rhamnosus GG]fig|563194.3.peg.760 [Pediococcus acidilactici 7_4]0.9970.8940.4610.9040.1700.9030.948 fig|553973.6.peg.1352 [Clostridium hylemonae DSM 15053]fig|476272.5.peg.2911 [Blautia hydrogenotrophica DSM 10507]fig|556261.3.peg.33 [Clostridium sp. D5]0.9980.884 fig|556261.3.peg.394 [Clostridium sp. D5]fig|411902.9.peg.3140 [Clostridium bolteae ATCC BAA-613]0.999 fig|742766.3.peg.3454 [Dysgonomonas gadei ATCC BAA-286]fig|483215.6.peg.1654 [Bacteroides finegoldii DSM 17565]fig|469585.3.peg.4079 [Bacteroides sp. 1_1_14]fig|469585.3.peg.4080 [Bacteroides sp. 1_1_14]fig|226186.12.peg.1302 [Bacteroides thetaiotaomicron VPI-5482]fig|469586.3.peg.1094 [Bacteroides sp. 1_1_6]fig|411901.7.peg.2063 [Bacteroides caccae ATCC 43185]fig|457387.3.peg.749 [Bacteroides sp. 1_1_30]fig|702444.3.peg.677 [Bacteroides ovatus SD CC 2a]fig|702447.3.peg.4203 [Bacteroides xylanisolvens SD CC 1b]fig|469588.3.peg.1565 [Bacteroides sp. 2_1_22]fig|556258.5.peg.3802 [Bacteroides sp. D1]fig|657309.4.peg.3139 [Bacteroides xylanisolvens XB1A]fig|585544.3.peg.4460 [Bacteroides sp. D22]fig|665954.3.peg.1477 [Bacteroides ovatus 3_8_47FAA]fig|702443.3.peg.450 [Bacteroides ovatus SD CMC 3f]fig|469590.5.peg.3686 [Bacteroides sp. 2_2_4]fig|556259.3.peg.4993 [Bacteroides sp. D2]fig|457390.3.peg.4803 [Bacteroides sp. 3_1_23]fig|411476.11.peg.3283 [Bacteroides ovatus ATCC 8483]0.995 fig|471870.8.peg.1811 [Bacteroides intestinalis DSM 17393]fig|537012.5.peg.3620 [Bacteroides cellulosilyticus DSM 14838]fig|1078089.3.peg.709 [Bacteroides sp. HPS0048]fig|763034.3.peg.755 [Bacteroides fluxus YIT 12057]0.1010.258 fig|762968.3.peg.2941 [Paraprevotella clara YIT 11840]fig|762982.3.peg.895 [Paraprevotella xylaniphila YIT 11841]fig|547042.5.peg.3058 [Bacteroides coprophilus DSM 18228]fig|484018.6.peg.2583 [Bacteroides plebeius DSM 17135]0.2730.9450.995fig|457424.5.peg.2680 [Bacteroides fragilis 3_1_12]fig|272559.17.peg.210 [Bacteroides fragilis NCTC 9343]fig|665938.3.peg.266 [Bacteroides sp. 2_1_56FAA]fig|469587.3.peg.2454 [Bacteroides sp. 2_1_16]fig|295405.11.peg.286 [Bacteroides fragilis YCH46]fig|457392.3.peg.913 [Bacteroides sp. 3_2_5]fig|862962.3.peg.272 [Bacteroides fragilis 638R]0.3311.0000.999 fig|411477.4.peg.2003 [Parabacteroides merdae ATCC 43184]fig|537006.5.peg.1806 [Parabacteroides johnsonii DSM 18315]fig|658661.3.peg.2510 [Parabacteroides sp. D25]fig|563193.3.peg.2305 [Parabacteroides sp. D13]fig|435591.13.peg.1306 [Parabacteroides distasonis ATCC 8503]fig|469592.4.peg.2876 [Bacteroides sp. 3_1_19]fig|469591.4.peg.2433 [Bacteroides sp. 20_3]fig|469589.3.peg.165 [Bacteroides sp. 2_1_33B]fig|457388.5.peg.1047 [Bacteroides sp. 2_1_7]0.535 fig|411477.4.peg.2002 [Parabacteroides merdae ATCC 43184]fig|537006.5.peg.1807 [Parabacteroides johnsonii DSM 18315]0.935 fig|742726.3.peg.991 [Barnesiella intestinihominis YIT 11860]fig|742766.3.peg.3586 [Dysgonomonas gadei ATCC BAA-286]0.3740.966 fig|742725.3.peg.1322 [Alistipes indistinctus YIT 12060]fig|484018.6.peg.1303 [Bacteroides plebeius DSM 17135]0.8700.950 fig|1203550.3.peg.953 [Prevotella oralis HGA0225]fig|537011.5.peg.667 [Prevotella copri DSM 18205]fig|537011.5.peg.4448 [Prevotella copri DSM 18205]0.999 fig|469593.3.peg.288 [Bacteroides sp. 3_1_40A]fig|702446.3.peg.1075 [Bacteroides vulgatus PC510]fig|435590.9.peg.613 [Bacteroides vulgatus ATCC 8482]fig|457394.3.peg.1774 [Bacteroides sp. 4_3_47FAA]fig|457391.3.peg.2394 [Bacteroides sp. 3_1_33FAA]fig|457395.6.peg.1361 [Bacteroides sp. 9_1_42FAA]fig|483217.6.peg.1035 [Bacteroides dorei DSM 17855]fig|1078089.3.peg.1039 [Bacteroides sp. HPS0048]fig|470145.6.peg.1002 [Bacteroides coprocola DSM 17136]fig|471870.8.peg.545 [Bacteroides intestinalis DSM 17393]fig|537012.5.peg.1523 [Bacteroides cellulosilyticus DSM 14838]fig|585543.3.peg.1630 [Bacteroides sp. D20]fig|457393.3.peg.871 [Bacteroides sp. 4_1_36]fig|411479.10.peg.713 [Bacteroides uniformis ATCC 8492]fig|763034.3.peg.3084 [Bacteroides fluxus YIT 12057]fig|665953.3.peg.3629 [Bacteroides eggerthii 1_2_48FAA]fig|665953.3.peg.3630 [Bacteroides eggerthii 1_2_48FAA]fig|483216.6.peg.3410 [Bacteroides eggerthii DSM 20697]fig|449673.7.peg.561 [Bacteroides stercoris ATCC 43183]fig|762984.3.peg.1640 [Bacteroides clarus YIT 12056]0.8170.995fig|226186.12.peg.3825 [Bacteroides thetaiotaomicron VPI-5482]fig|469585.3.peg.3695 [Bacteroides sp. 1_1_14]fig|469586.3.peg.3561 [Bacteroides sp. 1_1_6]fig|411901.7.peg.3106 [Bacteroides caccae ATCC 43185]fig|483215.6.peg.2603 [Bacteroides finegoldii DSM 17565]fig|556259.3.peg.2508 [Bacteroides sp. D2]fig|469590.5.peg.3423 [Bacteroides sp. 2_2_4]fig|411476.11.peg.3049 [Bacteroides ovatus ATCC 8483]fig|665954.3.peg.2719 [Bacteroides ovatus 3_8_47FAA]fig|556258.5.peg.2114 [Bacteroides sp. D1]fig|469588.3.peg.1025 [Bacteroides sp. 2_1_22]fig|702447.3.peg.2808 [Bacteroides xylanisolvens SD CC 1b]fig|702444.3.peg.1407 [Bacteroides ovatus SD CC 2a]fig|702443.3.peg.3056 [Bacteroides ovatus SD CMC 3f]fig|457387.3.peg.4583 [Bacteroides sp. 1_1_30]fig|657309.4.peg.3803 [Bacteroides xylanisolvens XB1A]fig|585544.3.peg.2957 [Bacteroides sp. D22]fig|457390.3.peg.2941 [Bacteroides sp. 3_1_23]0.3331.0000.2670.9880.9990.8670.8570.8230.850 fig|717961.3.peg.2293 [Eubacterium siraeum V10Sc8a]fig|657316.3.peg.723 [Megamonas hypermegale ART12/1]fig|657316.3.peg.722 [Megamonas hypermegale ART12/1]0.080 fig|742737.3.peg.1461 [Clostridium hathewayi WAL-18680]fig|742735.4.peg.3570 [Clostridium clostridioforme 2_1_49FAA]0.9491.0000.949 fig|1002366.3.peg.2617 [Listeria innocua ATCC 33091]fig|1002365.5.peg.1850 [Lactobacillus rhamnosus ATCC 21052]fig|568703.30.peg.2705 [Lactobacillus rhamnosus GG]fig|525361.3.peg.1180 [Lactobacillus rhamnosus LMS2-1]fig|362948.14.peg.1857 [Lactobacillus salivarius UCC118]fig|525364.3.peg.255 [Lactobacillus salivarius ATCC 11741]fig|220668.9.peg.3000 [Lactobacillus plantarum WCFS1]fig|525338.3.peg.616 [Lactobacillus plantarum subsp. plantarum ATCC 14917]fig|862514.3.peg.68 [Pediococcus acidilactici DSM 20284]fig|563194.3.peg.744 [Pediococcus acidilactici 7_4]0.3760.9910.996 fig|224308.113.peg.3209 [Bacillus subtilis subsp. subtilis str. 168]fig|665952.3.peg.1688 [Bacillus smithii 7_3_47FAA]0.9990.130 fig|411467.6.peg.176 [Bacteroides capillosus ATCC 29799]fig|657322.3.peg.2424 [Faecalibacterium prausnitzii SL3/3]fig|411485.10.peg.47 [Faecalibacterium prausnitzii M21/2]0.993 fig|469596.3.peg.356 [Coprobacillus sp. 29_1]fig|556262.3.peg.875 [Coprobacillus sp. D6]fig|665956.3.peg.4050 [Subdoligranulum sp. 4_3_54A2FAA]fig|411471.5.peg.3593 [Subdoligranulum variabile DSM 15176]fig|411471.5.peg.838 [Subdoligranulum variabile DSM 15176]0.999 fig|500635.8.peg.1516 [Mitsuokella multacida DSM 20544]fig|742733.3.peg.1073 [Clostridium citroniae WAL-17108]0.1330.9930.663 fig|657324.3.peg.943 [Butyrivibrio fibrisolvens 16/4]fig|622312.4.peg.1524 [Roseburia inulinivorans DSM 16841]fig|997893.5.peg.1432 [Clostridium bolteae 90A5]fig|411902.9.peg.5121 [Clostridium bolteae ATCC BAA-613]fig|411470.6.peg.868 [Ruminococcus gnavus ATCC 29149]fig|658082.3.peg.1973 [Lachnospiraceae bacterium 2_1_58FAA]fig|658655.3.peg.2112 [Lachnospiraceae bacterium 1_4_56FAA]fig|556261.3.peg.2785 [Clostridium sp. D5]fig|657313.3.peg.602 [Ruminococcus torques L2-14]fig|622312.4.peg.1525 [Roseburia inulinivorans DSM 16841]fig|718255.3.peg.624 [Roseburia intestinalis XB6B4]0.9470.927 fig|658086.3.peg.3305 [Lachnospiraceae bacterium 3_1_57FAA_CT1]fig|478749.5.peg.1406 [Bryantella formatexigens DSM 14469]fig|411463.4.peg.2200 [Eubacterium ventriosum ATCC 27560]0.3750.9470.872 fig|556270.3.peg.246 [Mollicutes bacterium D7]fig|469597.4.peg.1937 [Coprobacillus sp. 8_2_54BFAA]fig|665941.3.peg.570 [Coprobacillus sp. 3_3_56FAA]0.8870.853 fig|553973.6.peg.1198 [Clostridium hylemonae DSM 15053]fig|411468.9.peg.2572 [Clostridium scindens ATCC 35704]fig|658085.3.peg.796 [Lachnospiraceae bacterium 5_1_57FAA]fig|657323.3.peg.3492 [Ruminococcus sp. SR1/5]fig|457412.4.peg.1841 [Ruminococcus sp. 5_1_39BFAA]fig|657314.3.peg.1728 [Ruminococcus obeum A2-162]fig|411459.7.peg.3045 [Ruminococcus obeum ATCC 29174]0.9920.9390.8810.713 fig|592010.4.peg.2648 [Abiotrophia defectiva ATCC 49176]fig|411468.9.peg.1493 [Clostridium scindens ATCC 35704]0.2970.9800.934 fig|537013.3.peg.157 [Clostridium methylpentosum DSM 5476]fig|428125.8.peg.2821 [Clostridium leptum DSM 753]0.907 fig|428125.8.peg.1986 [Clostridium leptum DSM 753]fig|556261.3.peg.2858 [Clostridium sp. D5]fig|411470.6.peg.929 [Ruminococcus gnavus ATCC 29149]fig|658082.3.peg.1908 [Lachnospiraceae bacterium 2_1_58FAA]fig|657313.3.peg.723 [Ruminococcus torques L2-14]fig|742739.3.peg.500 [Clostridium perfringens WAL-14572]fig|657319.3.peg.1102 [Eubacterium siraeum 70/3]fig|428128.7.peg.1219 [Eubacterium siraeum DSM 15702]0.9870.6300.7480.9990.760
FucKFucKRhaBFucK g|658657.3.peg.3544 [Erysipelotrichaceae bacterium 21_3]fig|908340.3.peg.4119 [Clostridium sp. HGF2]fig|469614.3.peg.737 [Erysipelotrichaceae bacterium 6_1_45]fig|457422.3.peg.2777 [Erysipelotrichaceae bacterium 2_2_44A]fig|658659.3.peg.3902 [Erysipelotrichaceae bacterium 3_1_53]fig|476272.5.peg.3092 [Blautia hydrogenotrophica DSM 10507]fig|411490.6.peg.2184 [Anaerostipes caccae DSM 14662]fig|665937.3.peg.3310 [Anaerostipes sp. 3_2_56FAA]1.0000.921 fig|411463.4.peg.763 [Eubacterium ventriosum ATCC 27560]fig|445971.6.peg.1614 [Anaerofustis stercorihominis DSM 17244]0.672 fig|592015.5.peg.507 [Anaerobaculum hydrogeniformans ATCC BAA-1850]fig|592015.5.peg.635 [Anaerobaculum hydrogeniformans ATCC BAA-1850]0.660 fig|665957.3.peg.5103 [Bacillus sp. 7_6_55CFAA_CT2]fig|742742.3.peg.920 [Collinsella tanakaei YIT 12063]fig|592010.4.peg.2231 [Abiotrophia defectiva ATCC 49176]fig|469618.3.peg.793 [Fusobacterium varium ATCC 27725]0.9310.9780.7990.9370.992 fig|1078086.3.peg.6397 - no other fuc genes [Streptomyces sp. HGB0020]fig|1203571.3.peg.1108 - no other fuc genes [Propionibacterium sp. HGH0353]fig|1078086.3.peg.3822 - no other fuc genes [Streptomyces sp. HGB0020]0.9511.000 fig|1203554.3.peg.2269 - no other fuc genes [Sutterella wadsworthensis HGA0223]fig|556268.6.peg.2054 - no other fuc genes [Oxalobacter formigenes HOxBLS]fig|556269.4.peg.807 - no other fuc genes [Oxalobacter formigenes OXCC13]1.0000.572 fig|749547.3.peg.3372 [Escherichia coli MS 187-1]fig|749533.3.peg.4101 [Escherichia coli MS 84-1]fig|749549.3.peg.2183 [Escherichia coli MS 198-1]fig|749532.3.peg.752 [Escherichia coli MS 78-1]fig|679202.3.peg.1192 [Escherichia coli MS 85-1]fig|749545.3.peg.1363 [Escherichia coli MS 182-1]fig|386585.9.peg.3826 [Escherichia coli O157_H7 str. Sakai]fig|679204.3.peg.2407 [Escherichia coli MS 145-7]fig|679205.4.peg.3054 [Escherichia coli MS 124-1]fig|749537.3.peg.3804 [Escherichia coli MS 115-1]fig|749531.3.peg.5235 [Escherichia coli MS 69-1]fig|1127356.4.peg.1362 [Escherichia coli 4_1_47FAA]fig|457400.3.peg.792 [Escherichia sp. 1_1_43]fig|749538.3.peg.3706 [Escherichia coli MS 116-1]fig|749540.3.peg.1804 [Escherichia coli MS 146-1]fig|457401.3.peg.2746 [Escherichia sp. 4_1_40B]fig|749548.3.peg.2869 [Escherichia coli MS 196-1]fig|511145.12.peg.2900 [Escherichia coli str. K-12 substr. MG1655]fig|679207.4.peg.784 [Escherichia coli MS 107-1]fig|679206.4.peg.380 [Escherichia coli MS 119-7]fig|796392.4.peg.1559 [Escherichia coli MS 79-10]fig|409438.11.peg.3232 [Escherichia coli SE11]fig|749550.3.peg.765 [Escherichia coli MS 200-1]fig|431946.3.peg.2715 [Escherichia coli SE15]fig|749546.3.peg.3112 [Escherichia coli MS 185-1]fig|364106.8.peg.3150 [Escherichia coli UTI89]fig|469598.5.peg.1728 [Escherichia sp. 3_2_53FAA]fig|749527.3.peg.1206 [Escherichia coli MS 21-1]fig|749528.3.peg.1767 [Escherichia coli MS 45-1]fig|500640.5.peg.4206 [Citrobacter youngae ATCC 29220]fig|742730.3.peg.271 [Citrobacter freundii 4_7_47CFAA]fig|469595.3.peg.2644 [Citrobacter sp. 30_2]fig|99287.12.peg.3147 [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]fig|665944.3.peg.2323 [Klebsiella sp. 4_1_44FAA]fig|1037908.3.peg.634 [Klebsiella pneumoniae 1162281]fig|469608.3.peg.3081 [Klebsiella sp. 1_1_55]fig|1203547.3.peg.3404 [Klebsiella pneumoniae subsp. pneumoniae WGLW5]fig|500638.3.peg.185 [Edwardsiella tarda ATCC 23685]fig|500639.8.peg.2888 [Enterobacter cancerogenus ATCC 35316]fig|718254.4.peg.1510 [Enterobacter cloacae subsp. cloacae NCTC 9394]0.9080.513fig|1002368.3.peg.1434 [Yokenella regensburgei ATCC 43003]fig|469613.3.peg.2800 [Enterobacteriaceae bacterium 9_2_54FAA]fig|1002364.3.peg.2553 [Hafnia alvei ATCC 51873]0.0000.6940.9220.940 fig|944559.3.peg.85 [Paenibacillus sp. HGF7]fig|1078505.3.peg.4214 [Paenibacillus sp. HGH0039]0.776 fig|742766.3.peg.3453 [Dysgonomonas gadei ATCC BAA-286]fig|742767.3.peg.793 [Dysgonomonas mossii DSM 22836]0.955fig|547042.5.peg.3059 [Bacteroides coprophilus DSM 18228]fig|457424.5.peg.2681 [Bacteroides fragilis 3_1_12]fig|469587.3.peg.2453 [Bacteroides sp. 2_1_16]fig|457392.3.peg.914 [Bacteroides sp. 3_2_5]fig|295405.11.peg.285 [Bacteroides fragilis YCH46]fig|272559.17.peg.209 [Bacteroides fragilis NCTC 9343]fig|665938.3.peg.265 [Bacteroides sp. 2_1_56FAA]fig|862962.3.peg.271 [Bacteroides fragilis 638R]fig|469586.3.peg.1093 [Bacteroides sp. 1_1_6]fig|226186.12.peg.1301 [Bacteroides thetaiotaomicron VPI-5482]fig|469585.3.peg.4081 [Bacteroides sp. 1_1_14]fig|483215.6.peg.1655 [Bacteroides finegoldii DSM 17565]fig|411901.7.peg.2064 [Bacteroides caccae ATCC 43185]fig|702443.3.peg.449 [Bacteroides ovatus SD CMC 3f]fig|556259.3.peg.4994 [Bacteroides sp. D2]fig|469590.5.peg.3687 [Bacteroides sp. 2_2_4]fig|665954.3.peg.1476 [Bacteroides ovatus 3_8_47FAA]fig|457390.3.peg.4802 [Bacteroides sp. 3_1_23]fig|411476.11.peg.3282 [Bacteroides ovatus ATCC 8483]fig|702447.3.peg.4202 [Bacteroides xylanisolvens SD CC 1b]fig|702444.3.peg.676 [Bacteroides ovatus SD CC 2a]fig|469588.3.peg.1566 [Bacteroides sp. 2_1_22]fig|556258.5.peg.3801 [Bacteroides sp. D1]fig|585544.3.peg.4459 [Bacteroides sp. D22]fig|657309.4.peg.3140 [Bacteroides xylanisolvens XB1A]fig|457387.3.peg.748 [Bacteroides sp. 1_1_30]0.856 fig|1078089.3.peg.708 [Bacteroides sp. HPS0048]fig|537012.5.peg.3621 [Bacteroides cellulosilyticus DSM 14838]fig|471870.8.peg.1810 [Bacteroides intestinalis DSM 17393]fig|484018.6.peg.2584 [Bacteroides plebeius DSM 17135]fig|762968.3.peg.2940 [Paraprevotella clara YIT 11840]fig|762982.3.peg.896 [Paraprevotella xylaniphila YIT 11841]0.9320.7610.1500.9990.841 fig|545697.3.peg.303 [Clostridium celatum DSM 1785]fig|556261.3.peg.2796 [Clostridium sp. D5]fig|657313.3.peg.583 [Ruminococcus torques L2-14]fig|658655.3.peg.2105 [Lachnospiraceae bacterium 1_4_56FAA]fig|411470.6.peg.882 [Ruminococcus gnavus ATCC 29149]fig|658082.3.peg.1960 [Lachnospiraceae bacterium 2_1_58FAA]0.984 fig|457412.4.peg.1864 [Ruminococcus sp. 5_1_39BFAA]fig|657323.3.peg.1681 [Ruminococcus sp. SR1/5]fig|657314.3.peg.1681 [Ruminococcus obeum A2-162]fig|411459.7.peg.3092 [Ruminococcus obeum ATCC 29174]0.994fig|622312.4.peg.1531 [Roseburia inulinivorans DSM 16841]fig|658086.3.peg.3320 [Lachnospiraceae bacterium 3_1_57FAA_CT1]0.8450.9260.9760.977 fig|553973.6.peg.1348 [Clostridium hylemonae DSM 15053]fig|428125.8.peg.1987 [Clostridium leptum DSM 753]fig|428128.7.peg.1221 [Eubacterium siraeum DSM 15702]fig|545696.5.peg.1987 [Holdemania filiformis DSM 12042]0.650 fig|742739.3.peg.502 [Clostridium perfringens WAL-14572]fig|997893.5.peg.5754 [Clostridium bolteae 90A5]fig|411902.9.peg.1942 [Clostridium bolteae ATCC BAA-613]fig|742735.4.peg.344 [Clostridium clostridioforme 2_1_49FAA]fig|457421.5.peg.2907 [Clostridiales bacterium 1_7_47FAA]fig|552395.3.peg.1626 [Lachnospiraceae bacterium 4_1_37FAA]fig|1078091.3.peg.909 [Coprococcus sp. HPP0048]fig|1078090.3.peg.888 [Coprococcus sp. HPP0074]0.8530.0650.9340.9980.8780.8780.931 fig|349741.6.peg.2079 [Akkermansia muciniphila ATCC BAA-835]0.813 fig|411477.4.peg.1999 [Parabacteroides merdae ATCC 43184]fig|537006.5.peg.1810 [Parabacteroides johnsonii DSM 18315]fig|435591.13.peg.1303 [Parabacteroides distasonis ATCC 8503]fig|469589.3.peg.168 [Bacteroides sp. 2_1_33B]fig|469592.4.peg.2879 [Bacteroides sp. 3_1_19]fig|469591.4.peg.2436 [Bacteroides sp. 20_3]fig|457388.5.peg.1050 [Bacteroides sp. 2_1_7]fig|563193.3.peg.2308 [Parabacteroides sp. D13]fig|658661.3.peg.2507 [Parabacteroides sp. D25]fig|742726.3.peg.988 [Barnesiella intestinihominis YIT 11860]fig|742766.3.peg.3582 [Dysgonomonas gadei ATCC BAA-286]fig|1078089.3.peg.1042 [Bacteroides sp. HPS0048]fig|585543.3.peg.1633 [Bacteroides sp. D20]fig|457393.3.peg.874 [Bacteroides sp. 4_1_36]fig|411479.10.peg.709 [Bacteroides uniformis ATCC 8492]fig|470145.6.peg.1005 [Bacteroides coprocola DSM 17136]fig|763034.3.peg.3087 [Bacteroides fluxus YIT 12057]fig|471870.8.peg.542 [Bacteroides intestinalis DSM 17393]fig|537012.5.peg.1520 [Bacteroides cellulosilyticus DSM 14838]fig|665953.3.peg.3626 [Bacteroides eggerthii 1_2_48FAA]fig|483216.6.peg.2627 [Bacteroides eggerthii DSM 20697]fig|449673.7.peg.558 [Bacteroides stercoris ATCC 43183]fig|762984.3.peg.1643 [Bacteroides clarus YIT 12056]0.9920.776fig|469593.3.peg.285 [Bacteroides sp. 3_1_40A]fig|457394.3.peg.1777 [Bacteroides sp. 4_3_47FAA]fig|435590.9.peg.616 [Bacteroides vulgatus ATCC 8482]fig|702446.3.peg.1072 [Bacteroides vulgatus PC510]fig|457395.6.peg.1358 [Bacteroides sp. 9_1_42FAA]fig|483217.6.peg.1032 [Bacteroides dorei DSM 17855]fig|457391.3.peg.2391 [Bacteroides sp. 3_1_33FAA]fig|763034.3.peg.633 [Bacteroides fluxus YIT 12057]fig|411901.7.peg.3109 [Bacteroides caccae ATCC 43185]fig|226186.12.peg.3828 [Bacteroides thetaiotaomicron VPI-5482]fig|469585.3.peg.3698 [Bacteroides sp. 1_1_14]fig|469586.3.peg.3564 [Bacteroides sp. 1_1_6]fig|483215.6.peg.2600 [Bacteroides finegoldii DSM 17565]fig|469590.5.peg.3420 [Bacteroides sp. 2_2_4]fig|556259.3.peg.2505 [Bacteroides sp. D2]fig|665954.3.peg.2716 [Bacteroides ovatus 3_8_47FAA]fig|411476.11.peg.3052 [Bacteroides ovatus ATCC 8483]fig|585544.3.peg.2960 [Bacteroides sp. D22]fig|457387.3.peg.4586 [Bacteroides sp. 1_1_30]fig|702447.3.peg.2811 [Bacteroides xylanisolvens SD CC 1b]fig|702444.3.peg.3272 [Bacteroides ovatus SD CC 2a]fig|657309.4.peg.3806 [Bacteroides xylanisolvens XB1A]fig|469588.3.peg.1022 [Bacteroides sp. 2_1_22]fig|702443.3.peg.3053 [Bacteroides ovatus SD CMC 3f]fig|556258.5.peg.2111 [Bacteroides sp. D1]fig|457390.3.peg.2944 [Bacteroides sp. 3_1_23]fig|484018.6.peg.1306 [Bacteroides plebeius DSM 17135]fig|1203550.3.peg.955 [Prevotella oralis HGA0225]fig|537011.5.peg.670 [Prevotella copri DSM 18205]fig|537011.5.peg.4451 [Prevotella copri DSM 18205]0.9450.9740.9080.9831.0000.9520.941 fig|657308.3.peg.2611 [Gordonibacter pamelaeae 7-10-1-b]fig|665943.3.peg.600 [Eggerthella sp. 1_3_56FAA]fig|910311.3.peg.1826 [Eggerthella sp. HGA1]1.000fig|665956.3.peg.4048 [Subdoligranulum sp. 4_3_54A2FAA]fig|411471.5.peg.836 [Subdoligranulum variabile DSM 15176]fig|411471.5.peg.3595 [Subdoligranulum variabile DSM 15176]fig|411485.10.peg.45 [Faecalibacterium prausnitzii M21/2]fig|657322.3.peg.2422 [Faecalibacterium prausnitzii SL3/3]fig|411485.10.peg.2703 [Faecalibacterium prausnitzii M21/2]0.9370.927 fig|545696.5.peg.342 [Holdemania filiformis DSM 12042]fig|476272.5.peg.7 [Blautia hydrogenotrophica DSM 10507]fig|478749.5.peg.1404 [Bryantella formatexigens DSM 14469]fig|742733.3.peg.1071 [Clostridium citroniae WAL-17108]fig|742737.3.peg.1464 [Clostridium hathewayi WAL-18680]fig|742735.4.peg.3567 [Clostridium clostridioforme 2_1_49FAA]fig|997893.5.peg.1435 [Clostridium bolteae 90A5]fig|411902.9.peg.5118 [Clostridium bolteae ATCC BAA-613]0.9970.807 fig|718255.3.peg.626 [Roseburia intestinalis XB6B4]fig|592010.4.peg.2646 [Abiotrophia defectiva ATCC 49176]fig|718255.3.peg.961 [Roseburia intestinalis XB6B4]0.584 fig|657324.3.peg.945 [Butyrivibrio fibrisolvens 16/4]fig|411463.4.peg.2198 [Eubacterium ventriosum ATCC 27560]fig|665941.3.peg.572 [Coprobacillus sp. 3_3_56FAA]fig|556270.3.peg.248 [Mollicutes bacterium D7]fig|469597.4.peg.1935 [Coprobacillus sp. 8_2_54BFAA]fig|469596.3.peg.358 [Coprobacillus sp. 29_1]fig|556262.3.peg.873 [Coprobacillus sp. D6]0.9710.8190.9790.704 fig|657313.3.peg.519 [Ruminococcus torques L2-14]fig|657323.3.peg.695 [Ruminococcus sp. SR1/5]fig|457412.4.peg.3137 [Ruminococcus sp. 5_1_39BFAA]fig|657314.3.peg.1178 [Ruminococcus obeum A2-162]fig|657323.3.peg.694 [Ruminococcus sp. SR1/5]0.986fig|658086.3.peg.3231 [Lachnospiraceae bacterium 3_1_57FAA_CT1]fig|658659.3.peg.508 [Erysipelotrichaceae bacterium 3_1_53]fig|457422.3.peg.350 [Erysipelotrichaceae bacterium 2_2_44A]fig|658657.3.peg.1448 [Erysipelotrichaceae bacterium 21_3]fig|469614.3.peg.4786 [Erysipelotrichaceae bacterium 6_1_45]fig|908340.3.peg.1644 [Clostridium sp. HGF2]0.6420.9720.7500.5790.2430.7210.871 fig|500635.8.peg.1518 [Mitsuokella multacida DSM 20544]fig|657316.3.peg.2695 [Megamonas hypermegale ART12/1]fig|742816.3.peg.2283 [Megamonas funiformis YIT 11815]0.965 fig|556261.3.peg.4254 [Clostridium sp. D5]0.0760.9630.976 fig|99287.12.peg.4262 [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]fig|500640.5.peg.4654 [Citrobacter youngae ATCC 29220]fig|469595.3.peg.4532 [Citrobacter sp. 30_2]fig|742730.3.peg.71 [Citrobacter freundii 4_7_47CFAA]fig|1002368.3.peg.1361 [Yokenella regensburgei ATCC 43003]fig|469608.3.peg.4901 [Klebsiella sp. 1_1_55]fig|1203547.3.peg.5354 [Klebsiella pneumoniae subsp. pneumoniae WGLW5]fig|1037908.3.peg.4144 [Klebsiella pneumoniae 1162281]fig|665944.3.peg.4768 [Klebsiella sp. 4_1_44FAA]fig|500639.8.peg.4081 [Enterobacter cancerogenus ATCC 35316]fig|718254.4.peg.55 [Enterobacter cloacae subsp. cloacae NCTC 9394]0.575fig|749547.3.peg.3774 [Escherichia coli MS 187-1]fig|749545.3.peg.1082 [Escherichia coli MS 182-1]fig|679206.4.peg.3509 [Escherichia coli MS 119-7]fig|409438.11.peg.4366 [Escherichia coli SE11]fig|679207.4.peg.4234 [Escherichia coli MS 107-1]fig|749532.3.peg.2943 [Escherichia coli MS 78-1]fig|796392.4.peg.2548 [Escherichia coli MS 79-10]fig|386585.9.peg.5046 [Escherichia coli O157_H7 str. Sakai]fig|679204.3.peg.3703 [Escherichia coli MS 145-7]fig|679205.4.peg.1898 [Escherichia coli MS 124-1]fig|749533.3.peg.3965 [Escherichia coli MS 84-1]fig|679202.3.peg.3622 [Escherichia coli MS 85-1]fig|749531.3.peg.3398 [Escherichia coli MS 69-1]fig|1127356.4.peg.4506 [Escherichia coli 4_1_47FAA]fig|749549.3.peg.715 [Escherichia coli MS 198-1]fig|749527.3.peg.3111 [Escherichia coli MS 21-1]fig|749537.3.peg.2707 [Escherichia coli MS 115-1]fig|431946.3.peg.3914 [Escherichia coli SE15]fig|469598.5.peg.4642 [Escherichia sp. 3_2_53FAA]fig|749546.3.peg.2620 [Escherichia coli MS 185-1]fig|749528.3.peg.1758 [Escherichia coli MS 45-1]fig|364106.8.peg.4374 [Escherichia coli UTI89]fig|749550.3.peg.2782 [Escherichia coli MS 200-1]fig|457400.3.peg.1965 [Escherichia sp. 1_1_43]fig|511145.12.peg.4017 [Escherichia coli str. K-12 substr. MG1655]fig|457401.3.peg.4497 [Escherichia sp. 4_1_40B]fig|749540.3.peg.1649 [Escherichia coli MS 146-1]fig|749548.3.peg.799 [Escherichia coli MS 196-1]fig|749538.3.peg.2736 [Escherichia coli MS 116-1]fig|749544.3.peg.2910 [Escherichia coli MS 175-1]0.999fig|521000.6.peg.3794 [Providencia rettgeri DSM 1131]fig|469613.3.peg.314 [Enterobacteriaceae bacterium 9_2_54FAA]fig|1002364.3.peg.3980 [Hafnia alvei ATCC 51873]0.6070.998 fig|220668.9.peg.2997 [Lactobacillus plantarum WCFS1]fig|525338.3.peg.613 [Lactobacillus plantarum subsp. plantarum ATCC 14917]fig|862514.3.peg.71 [Pediococcus acidilactici DSM 20284]fig|563194.3.peg.741 [Pediococcus acidilactici 7_4]0.978 fig|362948.14.peg.1860 [Lactobacillus salivarius UCC118]fig|525364.3.peg.252 [Lactobacillus salivarius ATCC 11741]fig|568703.30.peg.2702 [Lactobacillus rhamnosus GG]fig|525361.3.peg.1183 [Lactobacillus rhamnosus LMS2-1]fig|1002365.5.peg.1853 [Lactobacillus rhamnosus ATCC 21052]fig|1002365.5.peg.2274 [Lactobacillus rhamnosus ATCC 21052]fig|525361.3.peg.2468 [Lactobacillus rhamnosus LMS2-1]fig|568703.30.peg.1990 [Lactobacillus rhamnosus GG]0.9890.5090.998 fig|665952.3.peg.1686 [Bacillus smithii 7_3_47FAA]fig|1002366.3.peg.2619 [Listeria innocua ATCC 33091]fig|702448.3.peg.2241 [Enterococcus faecalis PC1.1]fig|791161.5.peg.2314 [Enterococcus faecium PC4.1]fig|525279.3.peg.1240 [Enterococcus faecium TX1330]fig|525278.3.peg.2353 [Enterococcus faecalis TX1322]fig|749518.3.peg.1116 [Enterococcus faecalis TX2134]fig|749491.3.peg.1825 [Enterococcus faecalis TX2137]fig|749515.3.peg.1442 [Enterococcus faecalis TX1342]fig|749494.3.peg.2139 [Enterococcus faecalis TX4244]fig|749514.3.peg.1533 [Enterococcus faecalis TX1341]fig|657310.3.peg.1791 [Enterococcus sp. 7L76]0.9910.1150.902 fig|665937.3.peg.2872 [Anaerostipes sp. 3_2_56FAA]fig|658659.3.peg.886 [Erysipelotrichaceae bacterium 3_1_53]fig|457422.3.peg.2378 [Erysipelotrichaceae bacterium 2_2_44A]fig|469614.3.peg.2912 [Erysipelotrichaceae bacterium 6_1_45]fig|908340.3.peg.1976 [Clostridium sp. HGF2]fig|658657.3.peg.2632 [Erysipelotrichaceae bacterium 21_3]0.999fig|553973.6.peg.1328 [Clostridium hylemonae DSM 15053]fig|411467.6.peg.179 [Bacteroides capillosus ATCC 29799]0.8090.7670.8820.9960.7470.9940.993
Figure S1.
Maximum-likelihood tree for the FucA and RhaD proteins. Functions are shown by colors. The SEED identifiers for proteins are shown; for their sequences, see the file Sequences S1 in the Supplementary materials. Genome names are shown in brackets.
FucA
RhaB
MULJ_04919 [Burkholderia multivorans ATCC 17616] BMULJ_04922 [Burkholderia multivorans ATCC 17616]XCC4067 [Xanthomonas campestris ATCC 33913]0.998fig|1078086.3.peg.1141 [Streptomyces sp. HGB0020]fig|1203592.3.peg.987 [Streptomyces sp. HPH0547]0.9940.908 fig|398513.5.peg.903 [Bifidobacterium bifidum NCIMB 41171]fig|391904.8.peg.2418 [Bifidobacterium longum infantis JCM 1222]fig|547043.8.peg.821 [Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505]fig|518634.7.peg.1715 [Bifidobacterium breve DSM 20213 = JCM 1192]fig|1203540.3.peg.1369 [Bifidobacterium breve HPH0326]0.767 fig|649754.3.peg.1958 [Corynebacterium ammoniagenes DSM 20306]fig|391904.8.peg.2384 [Bifidobacterium longum infantis JCM 1222]fig|518634.7.peg.1312 [Bifidobacterium breve DSM 20213 = JCM 1192]fig|1203540.3.peg.1250 [Bifidobacterium breve HPH0326]0.9100.205
Figure S3.
Maximum-likelihood tree for the FclA and Fcld proteins. Functions are shown by colors. The SEED identifiers for proteins are shown; for their sequences, see the file Sequences S1 in the Supplementary materials. For the experimentally analyzed proteins (shown in bold) locus_tag identifiers are shown. Genome names are shown in brackets.
FclDFclA FclA2 / FclD2 g|545696.5.peg.1785 [Holdemania filiformis DSM 12042]fig|665956.3.peg.4373 [Subdoligranulum sp. 4_3_54A2FAA]fig|537012.5.peg.2425 [Bacteroides cellulosilyticus DSM 14838]fig|742725.3.peg.1108 [Alistipes indistinctus YIT 12060]fig|742766.3.peg.2316 [Dysgonomonas gadei ATCC BAA-286]fig|457390.3.peg.2739 [Bacteroides sp. 3_1_23]fig|457387.3.peg.2647 [Bacteroides sp. 1_1_30]fig|657309.4.peg.1696 [Bacteroides xylanisolvens XB1A]fig|585544.3.peg.2093 [Bacteroides sp. D22]fig|469588.3.peg.22 [Bacteroides sp. 2_1_22]fig|702444.3.peg.1675 [Bacteroides ovatus SD CC 2a]fig|665954.3.peg.2899 [Bacteroides ovatus 3_8_47FAA]fig|702447.3.peg.4648 [Bacteroides xylanisolvens SD CC 1b]fig|469590.5.peg.3593 [Bacteroides sp. 2_2_4]fig|702443.3.peg.2084 [Bacteroides ovatus SD CMC 3f]fig|556258.5.peg.2034 [Bacteroides sp. D1]fig|411476.11.peg.2864 [Bacteroides ovatus ATCC 8483]fig|556259.3.peg.2681 [Bacteroides sp. D2]fig|469586.3.peg.3379 [Bacteroides sp. 1_1_6]fig|469585.3.peg.3522 [Bacteroides sp. 1_1_14]fig|226186.12.peg.3647 [Bacteroides thetaiotaomicron VPI-5482]0.9990.4980.9710.7870.940 fig|742737.3.peg.4459 [Clostridium hathewayi WAL-18680]fig|518636.5.peg.3333 [Clostridium asparagiforme DSM 15981]fig|742733.3.peg.2681 [Clostridium citroniae WAL-17108]0.996 fig|742737.3.peg.627 [Clostridium hathewayi WAL-18680]fig|665956.3.peg.303 [Subdoligranulum sp. 4_3_54A2FAA]1.000 fig|457421.5.peg.4354 [Clostridiales bacterium 1_7_47FAA]fig|518636.5.peg.1833 [Clostridium asparagiforme DSM 15981]0.9960.9240.8870.8940.964 fig|435591.13.peg.3115 [Parabacteroides distasonis ATCC 8503]fig|658661.3.peg.807 [Parabacteroides sp. D25]fig|457388.5.peg.378 [Bacteroides sp. 2_1_7]fig|563193.3.peg.1058 [Parabacteroides sp. D13]fig|469589.3.peg.2237 [Bacteroides sp. 2_1_33B]fig|469591.4.peg.140 [Bacteroides sp. 20_3]fig|469592.4.peg.1012 [Bacteroides sp. 3_1_19]fig|469591.4.peg.1155 [Bacteroides sp. 20_3]fig|658661.3.peg.3684 [Parabacteroides sp. D25]fig|435591.13.peg.226 [Parabacteroides distasonis ATCC 8503]fig|469589.3.peg.3381 [Bacteroides sp. 2_1_33B]fig|469592.4.peg.3517 [Bacteroides sp. 3_1_19]fig|457388.5.peg.3711 [Bacteroides sp. 2_1_7]fig|563193.3.peg.3904 [Parabacteroides sp. D13]fig|537006.5.peg.2442 [Parabacteroides johnsonii DSM 18315]fig|411477.4.peg.3334 [Parabacteroides merdae ATCC 43184]0.999 fig|411901.7.peg.771 [Bacteroides caccae ATCC 43185]fig|226186.12.peg.690 [Bacteroides thetaiotaomicron VPI-5482]fig|469585.3.peg.2385 [Bacteroides sp. 1_1_14]fig|469586.3.peg.851 [Bacteroides sp. 1_1_6]fig|483215.6.peg.2725 [Bacteroides finegoldii DSM 17565]fig|457390.3.peg.613 [Bacteroides sp. 3_1_23]fig|469590.5.peg.5110 [Bacteroides sp. 2_2_4]fig|556259.3.peg.4491 [Bacteroides sp. D2]fig|702443.3.peg.2579 [Bacteroides ovatus SD CMC 3f]fig|411476.11.peg.127 [Bacteroides ovatus ATCC 8483]fig|665954.3.peg.1101 [Bacteroides ovatus 3_8_47FAA]fig|457387.3.peg.3 [Bacteroides sp. 1_1_30]fig|657309.4.peg.2449 [Bacteroides xylanisolvens XB1A]fig|585544.3.peg.1564 [Bacteroides sp. D22]fig|556258.5.peg.2803 [Bacteroides sp. D1]fig|702447.3.peg.2748 [Bacteroides xylanisolvens SD CC 1b]fig|469588.3.peg.1958 [Bacteroides sp. 2_1_22]fig|702444.3.peg.4485 [Bacteroides ovatus SD CC 2a]fig|547042.5.peg.2345 [Bacteroides coprophilus DSM 18228]fig|470145.6.peg.538 [Bacteroides coprocola DSM 17136]fig|484018.6.peg.1144 [Bacteroides plebeius DSM 17135]0.9960.997fig|469593.3.peg.3823 [Bacteroides sp. 3_1_40A]fig|702446.3.peg.1928 [Bacteroides vulgatus PC510]fig|457394.3.peg.1459 [Bacteroides sp. 4_3_47FAA]fig|435590.9.peg.60 [Bacteroides vulgatus ATCC 8482]fig|483217.6.peg.505 [Bacteroides dorei DSM 17855]fig|457391.3.peg.1153 [Bacteroides sp. 3_1_33FAA]fig|457395.6.peg.524 [Bacteroides sp. 9_1_42FAA]fig|457424.5.peg.2892 [Bacteroides fragilis 3_1_12]fig|272559.17.peg.2771 [Bacteroides fragilis NCTC 9343]fig|665938.3.peg.4702 [Bacteroides sp. 2_1_56FAA]fig|295405.11.peg.2648 [Bacteroides fragilis YCH46]fig|457392.3.peg.1606 [Bacteroides sp. 3_2_5]fig|862962.3.peg.2840 [Bacteroides fragilis 638R]fig|469587.3.peg.3353 [Bacteroides sp. 2_1_16]fig|763034.3.peg.2829 [Bacteroides fluxus YIT 12057]fig|665953.3.peg.626 [Bacteroides eggerthii 1_2_48FAA]fig|483216.6.peg.2008 [Bacteroides eggerthii DSM 20697]fig|762984.3.peg.203 [Bacteroides clarus YIT 12056]fig|449673.7.peg.97 [Bacteroides stercoris ATCC 43183]0.9950.9930.1640.999fig|457395.6.peg.417 [Bacteroides sp. 9_1_42FAA]fig|483217.6.peg.639 [Bacteroides dorei DSM 17855]fig|457391.3.peg.1710 [Bacteroides sp. 3_1_33FAA]fig|457394.3.peg.774 [Bacteroides sp. 4_3_47FAA]fig|469593.3.peg.3394 [Bacteroides sp. 3_1_40A]fig|702446.3.peg.760 [Bacteroides vulgatus PC510]fig|435590.9.peg.4244 [Bacteroides vulgatus ATCC 8482]fig|763034.3.peg.692 [Bacteroides fluxus YIT 12057]fig|762984.3.peg.337 [Bacteroides clarus YIT 12056]fig|449673.7.peg.1575 [Bacteroides stercoris ATCC 43183]fig|665953.3.peg.298 [Bacteroides eggerthii 1_2_48FAA]fig|483216.6.peg.1738 [Bacteroides eggerthii DSM 20697]fig|295405.11.peg.2983 [Bacteroides fragilis YCH46]fig|272559.17.peg.2978 [Bacteroides fragilis NCTC 9343]fig|469587.3.peg.3151 [Bacteroides sp. 2_1_16]fig|862962.3.peg.3043 [Bacteroides fragilis 638R]fig|665938.3.peg.4456 [Bacteroides sp. 2_1_56FAA]fig|457424.5.peg.3090 [Bacteroides fragilis 3_1_12]fig|457392.3.peg.1826 [Bacteroides sp. 3_2_5]0.760fig|470145.6.peg.539 [Bacteroides coprocola DSM 17136]fig|547042.5.peg.2344 [Bacteroides coprophilus DSM 18228]fig|484018.6.peg.1145 [Bacteroides plebeius DSM 17135]fig|469585.3.peg.2384 [Bacteroides sp. 1_1_14]fig|469586.3.peg.852 [Bacteroides sp. 1_1_6]fig|226186.12.peg.689 [Bacteroides thetaiotaomicron VPI-5482]fig|411901.7.peg.772 [Bacteroides caccae ATCC 43185]fig|483215.6.peg.2724 [Bacteroides finegoldii DSM 17565]fig|469590.5.peg.5111 [Bacteroides sp. 2_2_4]fig|556259.3.peg.4490 [Bacteroides sp. D2]fig|702443.3.peg.2580 [Bacteroides ovatus SD CMC 3f]fig|411476.11.peg.126 [Bacteroides ovatus ATCC 8483]fig|665954.3.peg.1102 [Bacteroides ovatus 3_8_47FAA]fig|457390.3.peg.614 [Bacteroides sp. 3_1_23]fig|585544.3.peg.1563 [Bacteroides sp. D22]fig|657309.4.peg.2448 [Bacteroides xylanisolvens XB1A]fig|469588.3.peg.1957 [Bacteroides sp. 2_1_22]fig|702447.3.peg.2747 [Bacteroides xylanisolvens SD CC 1b]fig|556258.5.peg.2802 [Bacteroides sp. D1]fig|702444.3.peg.4486 [Bacteroides ovatus SD CC 2a]fig|457387.3.peg.2 [Bacteroides sp. 1_1_30]fig|537006.5.peg.2443 [Parabacteroides johnsonii DSM 18315]fig|411477.4.peg.3335 [Parabacteroides merdae ATCC 43184]fig|537006.5.peg.2444 [Parabacteroides johnsonii DSM 18315]fig|469591.4.peg.1154 [Bacteroides sp. 20_3]fig|457388.5.peg.3712 [Bacteroides sp. 2_1_7]fig|469592.4.peg.3516 [Bacteroides sp. 3_1_19]fig|469589.3.peg.3382 [Bacteroides sp. 2_1_33B]fig|435591.13.peg.225 [Parabacteroides distasonis ATCC 8503]fig|658661.3.peg.3683 [Parabacteroides sp. D25]fig|563193.3.peg.3905 [Parabacteroides sp. D13]0.9800.9861.0000.999 fig|445975.6.peg.635 [Collinsella stercoris DSM 13279]fig|658087.3.peg.3534 [Lachnospiraceae bacterium 7_1_58FAA]1.000 fig|411471.5.peg.4957 [Subdoligranulum variabile DSM 15176]fig|411471.5.peg.1900 [Subdoligranulum variabile DSM 15176]fig|592010.4.peg.2925 [Abiotrophia defectiva ATCC 49176]fig|478749.5.peg.2475 [Bryantella formatexigens DSM 14469]fig|622312.4.peg.2448 [Roseburia inulinivorans DSM 16841]0.5340.890 fig|742733.3.peg.6173 [Clostridium citroniae WAL-17108]fig|742737.3.peg.3547 [Clostridium hathewayi WAL-18680]0.996 fig|717962.3.peg.1169 [Coprococcus catus GD/7]fig|537007.6.peg.2798 [Blautia hansenii DSM 20583]fig|658083.3.peg.1271 [Lachnospiraceae bacterium 6_1_63FAA]0.9460.6260.9870.8891.000 fig|545696.5.peg.2175 [Holdemania filiformis DSM 12042]fig|469596.3.peg.2040 [Coprobacillus sp. 29_1]fig|556262.3.peg.2085 [Coprobacillus sp. D6]fig|665941.3.peg.3323 [Coprobacillus sp. 3_3_56FAA]fig|469597.4.peg.3382 [Coprobacillus sp. 8_2_54BFAA]fig|445974.6.peg.2050 [Clostridium ramosum DSM 1402]fig|556270.3.peg.2043 [Mollicutes bacterium D7]0.992 fig|552396.3.peg.1943 [Erysipelotrichaceae bacterium 5_2_54FAA]fig|457402.3.peg.1628 [Eubacterium sp. 3_1_31]fig|658659.3.peg.1588 [Erysipelotrichaceae bacterium 3_1_53]fig|469614.3.peg.1143 [Erysipelotrichaceae bacterium 6_1_45]fig|658657.3.peg.3964 [Erysipelotrichaceae bacterium 21_3]fig|908340.3.peg.2904 [Clostridium sp. HGF2]fig|457422.3.peg.3564 [Erysipelotrichaceae bacterium 2_2_44A]1.0000.3600.9871.0000.738 fig|469596.3.peg.1355 [Coprobacillus sp. 29_1]fig|556262.3.peg.3380 [Coprobacillus sp. D6]fig|545696.5.peg.1184 [Holdemania filiformis DSM 12042]fig|518636.5.peg.2622 [Clostridium asparagiforme DSM 15981]fig|742735.4.peg.5004 [Clostridium clostridioforme 2_1_49FAA]fig|411902.9.peg.4493 [Clostridium bolteae ATCC BAA-613]fig|997893.5.peg.6127 [Clostridium bolteae 90A5]fig|457421.5.peg.3312 [Clostridiales bacterium 1_7_47FAA]fig|742733.3.peg.5553 [Clostridium citroniae WAL-17108]0.914 fig|742737.3.peg.4554 [Clostridium hathewayi WAL-18680]fig|658086.3.peg.7342 [Lachnospiraceae bacterium 3_1_57FAA_CT1]0.5160.912 fig|742740.3.peg.2736 [Clostridium symbiosum WAL-14163]fig|665940.3.peg.2695 [Clostridium sp. 7_3_54FAA]fig|742741.3.peg.3393 [Clostridium symbiosum WAL-14673]fig|717608.3.peg.1503 [Clostridium cf. saccharolyticum K10]fig|411486.3.peg.2355 [Clostridium sp. M62/1]0.5330.999 fig|545697.3.peg.577 [Clostridium celatum DSM 1785]fig|457396.3.peg.2038 [Clostridium sp. 7_2_43FAA]1.000 fig|718252.3.peg.1293 [Faecalibacterium prausnitzii L2-6]fig|748224.3.peg.1442 [Faecalibacterium cf. prausnitzii KLE1255]fig|428126.7.peg.726 [Clostridium spiroforme DSM 1552]fig|1203606.4.peg.2195 [Butyricicoccus pullicaecorum 1.2]fig|658081.3.peg.265 [Lachnospiraceae bacterium 1_1_57FAA]fig|665951.3.peg.527 [Lachnospiraceae bacterium 8_1_57FAA]fig|665950.3.peg.309 [Lachnospiraceae bacterium 3_1_46FAA]fig|411460.6.peg.613 [Ruminococcus torques ATCC 27756]0.9820.9380.9170.958 fig|518637.5.peg.272 [Eubacterium biforme DSM 3989]fig|428127.7.peg.276 [Eubacterium dolichum DSM 3991]fig|552396.3.peg.2205 [Erysipelotrichaceae bacterium 5_2_54FAA]fig|457402.3.peg.303 [Eubacterium sp. 3_1_31]fig|658659.3.peg.53 [Erysipelotrichaceae bacterium 3_1_53]fig|658657.3.peg.1077 [Erysipelotrichaceae bacterium 21_3]fig|457422.3.peg.785 [Erysipelotrichaceae bacterium 2_2_44A]fig|908340.3.peg.1346 [Clostridium sp. HGF2]fig|469614.3.peg.4186 [Erysipelotrichaceae bacterium 6_1_45]0.9870.9810.6440.8840.9570.999 fig|749516.3.peg.1472 [Enterococcus faecalis TX1346]fig|749494.3.peg.160 [Enterococcus faecalis TX4244]fig|525278.3.peg.2212 [Enterococcus faecalis TX1322]fig|657310.3.peg.2028 [Enterococcus sp. 7L76]fig|749491.3.peg.471 [Enterococcus faecalis TX2137]fig|749518.3.peg.2180 [Enterococcus faecalis TX2134]fig|749515.3.peg.1078 [Enterococcus faecalis TX1342]fig|749514.3.peg.2012 [Enterococcus faecalis TX1341]1.0000.025 fig|469616.3.peg.1669 [Fusobacterium mortiferum ATCC 9817]fig|566551.4.peg.959 [Cedecea davisae DSM 4568]fig|469608.3.peg.1792 [Klebsiella sp. 1_1_55]fig|665944.3.peg.1579 [Klebsiella sp. 4_1_44FAA]fig|1203547.3.peg.849 [Klebsiella pneumoniae subsp. pneumoniae WGLW5]fig|1037908.3.peg.2760 [Klebsiella pneumoniae 1162281]fig|1002368.3.peg.2353 [Yokenella regensburgei ATCC 43003]fig|749531.3.peg.4037 [Escherichia coli MS 69-1]fig|749538.3.peg.4287 [Escherichia coli MS 116-1]fig|749540.3.peg.2459 [Escherichia coli MS 146-1]fig|796392.4.peg.2328 [Escherichia coli MS 79-10]fig|749533.3.peg.5347 [Escherichia coli MS 84-1]fig|679205.4.peg.682 [Escherichia coli MS 124-1]fig|749545.3.peg.4959 [Escherichia coli MS 182-1]fig|749548.3.peg.4456 [Escherichia coli MS 196-1]fig|511145.12.peg.702 [Escherichia coli str. K-12 substr. MG1655]fig|386585.9.peg.819 [Escherichia coli O157_H7 str. Sakai]fig|679206.4.peg.4582 [Escherichia coli MS 119-7]fig|679202.3.peg.2801 [Escherichia coli MS 85-1]fig|749532.3.peg.3612 [Escherichia coli MS 78-1]fig|457401.3.peg.1840 [Escherichia sp. 4_1_40B]fig|679206.4.peg.5234 [Escherichia coli MS 119-7]fig|679207.4.peg.2785 [Escherichia coli MS 107-1]fig|679204.3.peg.2594 [Escherichia coli MS 145-7]fig|749527.3.peg.2619 [Escherichia coli MS 21-1]fig|1127356.4.peg.479 [Escherichia coli 4_1_47FAA]fig|749528.3.peg.3971 [Escherichia coli MS 45-1]fig|749549.3.peg.4821 [Escherichia coli MS 198-1]fig|749547.3.peg.3717 [Escherichia coli MS 187-1]fig|431946.3.peg.631 [Escherichia coli SE15]fig|469598.5.peg.341 [Escherichia sp. 3_2_53FAA]fig|364106.8.peg.766 [Escherichia coli UTI89]fig|749546.3.peg.129 [Escherichia coli MS 185-1]fig|749550.3.peg.4782 [Escherichia coli MS 200-1]fig|749537.3.peg.3985 [Escherichia coli MS 115-1]fig|409438.11.peg.861 [Escherichia coli SE11]fig|99287.12.peg.713 [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]fig|500640.5.peg.3177 [Citrobacter youngae ATCC 29220]fig|742730.3.peg.2811 [Citrobacter freundii 4_7_47CFAA]fig|469595.3.peg.1321 [Citrobacter sp. 30_2]fig|500639.8.peg.2210 [Enterobacter cancerogenus ATCC 35316]fig|718254.4.peg.1109 [Enterobacter cloacae subsp. cloacae NCTC 9394]0.9870.2440.9520.974 fig|1125694.3.peg.387 [Proteus mirabilis WGLW6]fig|471881.3.peg.4620 [Proteus penneri ATCC 35198]fig|471874.6.peg.756 [Providencia stuartii ATCC 25827]fig|521000.6.peg.3112 [Providencia rettgeri DSM 1131]fig|520999.6.peg.3264 [Providencia alcalifaciens DSM 30120]fig|500637.6.peg.4581 [Providencia rustigianii DSM 4541]fig|500637.6.peg.2653 [Providencia rustigianii DSM 4541]0.7620.9800.996 fig|500638.3.peg.1782 [Edwardsiella tarda ATCC 23685]fig|469613.3.peg.358 [Enterobacteriaceae bacterium 9_2_54FAA]fig|1002364.3.peg.4024 [Hafnia alvei ATCC 51873]0.8831.0000.996 fig|521000.6.peg.3087 [Providencia rettgeri DSM 1131]fig|908341.3.peg.2485 [Paenibacillus sp. HGF5]fig|908341.3.peg.5378 [Paenibacillus sp. HGF5]0.9830.9090.9940.000 fig|349741.6.peg.1075 [Akkermansia muciniphila ATCC BAA-835]fig|428125.8.peg.602 [Clostridium leptum DSM 753]fig|552398.3.peg.52 [Ruminococcaceae bacterium D16]fig|665956.3.peg.518 [Subdoligranulum sp. 4_3_54A2FAA]fig|478749.5.peg.1279 [Bryantella formatexigens DSM 14469]fig|245014.3.peg.646 [butyrate-producing bacterium SS3/4]fig|411467.6.peg.2734 [Bacteroides capillosus ATCC 29799]fig|658087.3.peg.3860 [Lachnospiraceae bacterium 7_1_58FAA]0.9890.996 fig|718255.3.peg.3120 [Roseburia intestinalis XB6B4]fig|718255.3.peg.3121 [Roseburia intestinalis XB6B4]fig|657315.3.peg.1783 [Roseburia intestinalis M50/1]fig|536231.5.peg.2027 [Roseburia intestinalis L1-82]fig|411471.5.peg.1467 [Subdoligranulum variabile DSM 15176]fig|411471.5.peg.4520 [Subdoligranulum variabile DSM 15176]fig|411483.3.peg.104 [Faecalibacterium prausnitzii A2-165]fig|657322.3.peg.1777 [Faecalibacterium prausnitzii SL3/3]fig|411485.10.peg.1937 [Faecalibacterium prausnitzii M21/2]0.9820.9991.000 fig|245018.3.peg.1999 [butyrate-producing bacterium SSC/2]fig|411484.7.peg.986 [Clostridium sp. SS2/1]fig|649757.3.peg.1969 [Anaerostipes hadrus DSM 3319]fig|658089.3.peg.982 [Lachnospiraceae bacterium 5_1_63FAA]fig|411490.6.peg.46 [Anaerostipes caccae DSM 14662]fig|665937.3.peg.3347 [Anaerostipes sp. 3_2_56FAA]0.7610.489 fig|665943.3.peg.2466 [Eggerthella sp. 1_3_56FAA]fig|910311.3.peg.209 [Eggerthella sp. HGA1]fig|762983.3.peg.1293 [Succinatimonas hippei YIT 12066]fig|445972.6.peg.2267 [Anaerotruncus colihominis DSM 17241]0.9060.976 fig|556261.3.peg.4582 [Clostridium sp. D5]fig|470146.3.peg.921 [Coprococcus comes ATCC 27758]fig|657317.3.peg.1724 [Eubacterium rectale M104/1]fig|657318.4.peg.602 [Eubacterium rectale DSM 17629]1.0000.980 fig|500632.7.peg.656 [Clostridium nexile DSM 1787]fig|742723.3.peg.1212 [Lachnospiraceae bacterium 2_1_46FAA]fig|1078091.3.peg.1628 [Coprococcus sp. HPP0048]fig|552395.3.peg.1969 [Lachnospiraceae bacterium 4_1_37FAA]fig|658088.3.peg.1719 [Lachnospiraceae bacterium 9_1_43BFAA]fig|1078090.3.peg.2570 [Coprococcus sp. HPP0074]0.9600.984 fig|553973.6.peg.2858 [Clostridium hylemonae DSM 15053]fig|411468.9.peg.432 [Clostridium scindens ATCC 35704]fig|658085.3.peg.1669 [Lachnospiraceae bacterium 5_1_57FAA]fig|411462.6.peg.1626 [Dorea longicatena DSM 13814]fig|657313.3.peg.2281 [Ruminococcus torques L2-14]fig|411469.3.peg.1642 [Eubacterium hallii DSM 3353]fig|657323.3.peg.1214 [Ruminococcus sp. SR1/5]fig|411461.4.peg.298 [Dorea formicigenerans ATCC 27755]fig|742765.5.peg.2580 [Dorea formicigenerans 4_6_53AFAA]0.9720.1630.9970.9861.0000.1470.9770.5940.663 fig|411463.4.peg.865 [Eubacterium ventriosum ATCC 27560]fig|622312.4.peg.3995 [Roseburia inulinivorans DSM 16841]0.9730.8940.4150.980 fig|537007.6.peg.2031 [Blautia hansenii DSM 20583]fig|658083.3.peg.2492 [Lachnospiraceae bacterium 6_1_63FAA]fig|457412.4.peg.2698 [Ruminococcus sp. 5_1_39BFAA]fig|476272.5.peg.3234 [Blautia hydrogenotrophica DSM 10507]fig|657314.3.peg.1118 [Ruminococcus obeum A2-162]fig|411459.7.peg.2341 [Ruminococcus obeum ATCC 29174]0.9990.9380.6241.0000.008 fig|592010.4.peg.1693 [Abiotrophia defectiva ATCC 49176]0.9640.2680.6590.9530.947 fig|665948.3.peg.480 [Pseudomonas sp. 2_1_26]fig|908341.3.peg.2275 [Paenibacillus sp. HGF5]fig|1078505.3.peg.4055 [Paenibacillus sp. HGH0039]fig|944559.3.peg.3153 [Paenibacillus sp. HGF7]0.9880.823 fig|411903.6.peg.2053 [Collinsella aerofaciens ATCC 25986]fig|411903.6.peg.2045 [Collinsella aerofaciens ATCC 25986]fig|742742.3.peg.743 [Collinsella tanakaei YIT 12063]fig|445975.6.peg.135 [Collinsella stercoris DSM 13279]fig|521003.7.peg.399 [Collinsella intestinalis DSM 13280]1.000 fig|862514.3.peg.1196 [Pediococcus acidilactici DSM 20284]fig|563194.3.peg.194 [Pediococcus acidilactici 7_4]fig|525337.3.peg.1054 [Lactobacillus paracasei subsp. paracasei ATCC 25302]fig|543734.4.peg.275 [Lactobacillus casei BL23]fig|537973.8.peg.2332 [Lactobacillus paracasei subsp. paracasei 8700_2]fig|1002365.5.peg.426 [Lactobacillus rhamnosus ATCC 21052]fig|568703.30.peg.335 [Lactobacillus rhamnosus GG]fig|525361.3.peg.1785 [Lactobacillus rhamnosus LMS2-1]fig|390333.7.peg.177 [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842]fig|321956.7.peg.171 [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365]fig|585524.3.peg.1310 [Lactobacillus amylolyticus DSM 11664]fig|575595.3.peg.1861 [Lactobacillus crispatus 125-2-CHN]fig|272621.13.peg.140 [Lactobacillus acidophilus NCFM]fig|525365.3.peg.1964 [Lactobacillus ultunensis DSM 16047]fig|665945.3.peg.854 [Lactobacillus sp. 7_1_47FAA]fig|405566.6.peg.531 [Lactobacillus helveticus DPC 4571]fig|585520.4.peg.1139 [Lactobacillus helveticus DSM 20075]0.997 fig|324831.13.peg.115 [Lactobacillus gasseri ATCC 33323]fig|257314.6.peg.127 [Lactobacillus johnsonii NCC 533]0.9930.0001.0000.6000.951 fig|645462.3.peg.3389 [Clostridium difficile CD196]fig|525259.3.peg.3486 [Clostridium difficile NAP08]fig|525258.3.peg.513 [Clostridium difficile NAP07]fig|742813.4.peg.2285 [Enterococcus saccharolyticus 30_1]fig|749518.3.peg.2963 [Enterococcus faecalis TX2134]fig|525278.3.peg.703 [Enterococcus faecalis TX1322]fig|491074.3.peg.15 [Enterococcus faecalis TX0104]fig|749513.3.peg.2003 [Enterococcus faecalis TX1302]fig|749514.3.peg.2552 [Enterococcus faecalis TX1341]fig|657310.3.peg.2584 [Enterococcus sp. 7L76]fig|749515.3.peg.2106 [Enterococcus faecalis TX1342]fig|749494.3.peg.1240 [Enterococcus faecalis TX4244]fig|749516.3.peg.537 [Enterococcus faecalis TX1346]fig|749491.3.peg.877 [Enterococcus faecalis TX2137]fig|525279.3.peg.1138 [Enterococcus faecium TX1330]fig|791161.5.peg.46 [Enterococcus faecium PC4.1]fig|702448.3.peg.45 [Enterococcus faecalis PC1.1]0.9590.997 fig|742820.3.peg.1108 [Streptococcus anginosus 1_2_62CV]fig|469609.3.peg.556 [Streptococcus sp. 2_1_36FAA]fig|1203590.3.peg.1120 [Streptococcus sp. HPH0090]fig|525379.3.peg.1465 [Streptococcus equinus ATCC 9812]fig|471872.6.peg.176 [Streptococcus infantarius subsp. infantarius ATCC BAA-102]1.0000.5640.4210.9740.4871.000 fig|657316.3.peg.440 [Megamonas hypermegale ART12/1]fig|742816.3.peg.1644 [Megamonas funiformis YIT 11815]fig|500638.3.peg.1690 [Edwardsiella tarda ATCC 23685]fig|471881.3.peg.844 [Proteus penneri ATCC 35198]fig|471881.3.peg.843 [Proteus penneri ATCC 35198]fig|1125694.3.peg.2020 [Proteus mirabilis WGLW6]fig|521000.6.peg.1206 [Providencia rettgeri DSM 1131]fig|500637.6.peg.6686 [Providencia rustigianii DSM 4541]fig|500637.6.peg.404 [Providencia rustigianii DSM 4541]0.7940.9971.000 fig|471874.6.peg.3067 [Providencia stuartii ATCC 25827]fig|1002368.3.peg.1539 [Yokenella regensburgei ATCC 43003]fig|718254.4.peg.2633 [Enterobacter cloacae subsp. cloacae NCTC 9394]fig|500639.8.peg.3741 [Enterobacter cancerogenus ATCC 35316]0.920 fig|749527.3.peg.2785 [Escherichia coli MS 21-1]fig|749547.3.peg.1094 [Escherichia coli MS 187-1]fig|679204.3.peg.870 [Escherichia coli MS 145-7]fig|679206.4.peg.1516 [Escherichia coli MS 119-7]fig|749532.3.peg.1630 [Escherichia coli MS 78-1]fig|679207.4.peg.2599 [Escherichia coli MS 107-1]fig|796392.4.peg.1902 [Escherichia coli MS 79-10]fig|749545.3.peg.3371 [Escherichia coli MS 182-1]fig|409438.11.peg.3590 [Escherichia coli SE11]fig|749537.3.peg.493 [Escherichia coli MS 115-1]fig|679205.4.peg.353 [Escherichia coli MS 124-1]fig|749533.3.peg.3485 [Escherichia coli MS 84-1]fig|679202.3.peg.1017 [Escherichia coli MS 85-1]fig|1127356.4.peg.2226 [Escherichia coli 4_1_47FAA]fig|749549.3.peg.1971 [Escherichia coli MS 198-1]fig|386585.9.peg.4190 [Escherichia coli O157_H7 str. Sakai]fig|364106.8.peg.3533 [Escherichia coli UTI89]fig|469598.5.peg.1077 [Escherichia sp. 3_2_53FAA]fig|749550.3.peg.1058 [Escherichia coli MS 200-1]fig|749546.3.peg.2090 [Escherichia coli MS 185-1]fig|749528.3.peg.4101 [Escherichia coli MS 45-1]fig|431946.3.peg.3107 [Escherichia coli SE15]fig|749527.3.peg.2784 [Escherichia coli MS 21-1]fig|749531.3.peg.2559 [Escherichia coli MS 69-1]fig|511145.12.peg.3229 [Escherichia coli str. K-12 substr. MG1655]fig|457401.3.peg.3052 [Escherichia sp. 4_1_40B]fig|749538.3.peg.990 [Escherichia coli MS 116-1]fig|749544.3.peg.761 [Escherichia coli MS 175-1]fig|749548.3.peg.2788 [Escherichia coli MS 196-1]fig|749540.3.peg.1422 [Escherichia coli MS 146-1]fig|469595.3.peg.2948 [Citrobacter sp. 30_2]fig|500640.5.peg.3813 [Citrobacter youngae ATCC 29220]0.9510.9891.0000.9880.9320.3650.9780.832 fig|665957.3.peg.821 [Bacillus sp. 7_6_55CFAA_CT2]fig|556261.3.peg.967 [Clostridium sp. D5]fig|657313.3.peg.808 [Ruminococcus torques L2-14]0.937 fig|658082.3.peg.2454 [Lachnospiraceae bacterium 2_1_58FAA]fig|411470.6.peg.3204 [Ruminococcus gnavus ATCC 29149]fig|658655.3.peg.2720 [Lachnospiraceae bacterium 1_4_56FAA]fig|471875.6.peg.2329 [Ruminococcus lactaris ATCC 29176]0.9610.9651.000 fig|525367.9.peg.963 [Listeria grayi DSM 20601]fig|1002366.3.peg.1546 [Listeria innocua ATCC 33091]1.000 fig|525362.3.peg.2024 [Lactobacillus ruminis ATCC 25644]fig|362948.14.peg.1549 [Lactobacillus salivarius UCC118]fig|525364.3.peg.1583 [Lactobacillus salivarius ATCC 11741]0.127 fig|220668.9.peg.466 [Lactobacillus plantarum WCFS1]fig|1327988.3.peg.501 [Lactobacillus plantarum 16]fig|525338.3.peg.1151 [Lactobacillus plantarum subsp. plantarum ATCC 14917]fig|862514.3.peg.965 [Pediococcus acidilactici DSM 20284]fig|563194.3.peg.1492 [Pediococcus acidilactici 7_4]0.861 fig|387344.15.peg.520 [Lactobacillus brevis ATCC 367]fig|314315.12.peg.1555 [Lactobacillus sakei subsp. sakei 23K]fig|525337.3.peg.687 [Lactobacillus paracasei subsp. paracasei ATCC 25302]fig|537973.8.peg.835 [Lactobacillus paracasei subsp. paracasei 8700_2]fig|543734.4.peg.1929 [Lactobacillus casei BL23]fig|321967.11.peg.1787 [Lactobacillus casei ATCC 334]fig|525361.3.peg.799 [Lactobacillus rhamnosus LMS2-1]fig|568703.30.peg.1869 [Lactobacillus rhamnosus GG]fig|1002365.5.peg.1920 [Lactobacillus rhamnosus ATCC 21052]0.9810.4430.915 fig|585506.3.peg.1380 [Weissella paramesenteroides ATCC 33313]fig|586220.3.peg.791 [Leuconostoc mesenteroides subsp. cremoris ATCC 19254]0.627 fig|525309.3.peg.1891 [Lactobacillus antri DSM 16041]fig|525327.3.peg.2003 [Lactobacillus hilgardii ATCC 8290]fig|525318.3.peg.1815 [Lactobacillus buchneri ATCC 11577]fig|525310.3.peg.2620 [Lactobacillus brevis subsp. gravesensis ATCC 27305]0.9270.9140.4370.9790.9640.9960.999 fig|665952.3.peg.1254 [Bacillus smithii 7_3_47FAA]fig|224308.113.peg.3601 [Bacillus subtilis subsp. subtilis str. 168]0.6560.977 fig|469616.3.peg.1073 [Fusobacterium mortiferum ATCC 9817]fig|469618.3.peg.2033 [Fusobacterium varium ATCC 27725]fig|469617.3.peg.195 [Fusobacterium ulcerans ATCC 49185]fig|457404.3.peg.625 [Fusobacterium sp. 12_1B]0.896 fig|742814.3.peg.1310 [Fusobacterium necrophorum subsp. funduliforme 1_1_36S]fig|556263.3.peg.1492 [Fusobacterium sp. D12]fig|742814.3.peg.1309 [Fusobacterium necrophorum subsp. funduliforme 1_1_36S]fig|469615.3.peg.53 [Fusobacterium gonidiaformans ATCC 25563]fig|469605.3.peg.150 [Fusobacterium sp. 3_1_5R]1.000fig|469599.3.peg.525 [Fusobacterium sp. 2_1_31]fig|469621.3.peg.980 [Fusobacterium sp. 1_1_41FAA]fig|457403.3.peg.178 [Fusobacterium sp. 11_3_2]fig|469603.3.peg.768 [Fusobacterium sp. 3_1_33]fig|469601.3.peg.733 [Fusobacterium sp. 21_1A]fig|457405.3.peg.780 [Fusobacterium sp. 7_1]fig|556264.3.peg.1986 [Fusobacterium sp. D11]fig|469602.3.peg.828 [Fusobacterium sp. 3_1_27]fig|469606.3.peg.1527 [Fusobacterium sp. 4_1_13]fig|469604.7.peg.585 [Fusobacterium sp. 3_1_36A2]fig|469604.3.peg.1169 [Fusobacterium sp. 3_1_36A2]0.9990.7321.000 fig|471871.7.peg.804 [Clostridium sporogenes ATCC 15579]fig|910310.3.peg.2230 [Turicibacter sp. HGF1]fig|702450.3.peg.2042 [Turicibacter sp. PC909]fig|910310.3.peg.2553 [Turicibacter sp. HGF1]fig|702450.3.peg.2454 [Turicibacter sp. PC909]fig|500633.7.peg.1746 [Clostridium hiranonis DSM 13275]fig|645462.3.peg.925 [Clostridium difficile CD196]fig|525259.3.peg.1964 [Clostridium difficile NAP08]fig|525258.3.peg.1900 [Clostridium difficile NAP07]0.9930.9700.3500.975 fig|500635.8.peg.348 [Mitsuokella multacida DSM 20544]fig|563191.3.peg.918 [Acidaminococcus sp. D21]fig|1203555.3.peg.1878 [Acidaminococcus sp. HPA0509]0.9980.885 fig|469597.4.peg.1380 [Coprobacillus sp. 8_2_54BFAA]fig|556270.3.peg.1547 [Mollicutes bacterium D7]fig|445974.6.peg.2352 [Clostridium ramosum DSM 1402]fig|665941.3.peg.2932 [Coprobacillus sp. 3_3_56FAA]fig|451640.5.peg.1825 [Catenibacterium mitsuokai DSM 15897]fig|469596.3.peg.1361 [Coprobacillus sp. 29_1]fig|556262.3.peg.3386 [Coprobacillus sp. D6]fig|469596.3.peg.2663 [Coprobacillus sp. 29_1]fig|556262.3.peg.285 [Coprobacillus sp. D6]0.9060.8961.000 fig|545697.3.peg.3277 [Clostridium celatum DSM 1785]fig|457396.3.peg.2860 [Clostridium sp. 7_2_43FAA]fig|742739.3.peg.1842 [Clostridium perfringens WAL-14572]0.4381.0000.8850.5420.9660.9570.9680.9430.931 fig|545696.5.peg.2106 [Holdemania filiformis DSM 12042]fig|552396.3.peg.56 [Erysipelotrichaceae bacterium 5_2_54FAA]fig|457402.3.peg.2852 [Eubacterium sp. 3_1_31]fig|428127.7.peg.845 [Eubacterium dolichum DSM 3991]fig|658659.3.peg.902 [Erysipelotrichaceae bacterium 3_1_53]fig|457422.3.peg.2394 [Erysipelotrichaceae bacterium 2_2_44A]fig|469614.3.peg.2928 [Erysipelotrichaceae bacterium 6_1_45]fig|908340.3.peg.1992 [Clostridium sp. HGF2]fig|658657.3.peg.2652 [Erysipelotrichaceae bacterium 21_3]0.9390.9981.0000.4450.596 fig|1078086.3.peg.6874 [Streptomyces sp. HGB0020]fig|1203592.3.peg.5570 [Streptomyces sp. HPH0547]0.999 fig|450748.3.peg.1020 [Propionibacterium sp. 5_U_42AFAA]fig|1203571.3.peg.1668 [Propionibacterium sp. HGH0353]fig|561180.4.peg.1408 [Bifidobacterium gallicum DSM 20093]fig|547043.8.peg.1740 [Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200]fig|537937.5.peg.641 [Bifidobacterium longum subsp. infantis CCUG 52486]fig|566552.6.peg.190 [Bifidobacterium catenulatum DSM 16992 = JCM 1194]fig|411481.5.peg.59 [Bifidobacterium adolescentis L2-32]fig|398513.5.peg.1228 [Bifidobacterium bifidum NCIMB 41171]fig|1203540.3.peg.1415 [Bifidobacterium breve HPH0326]fig|518634.7.peg.1824 [Bifidobacterium breve DSM 20213 = JCM 1192]fig|391904.8.peg.908 [Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222]fig|1161745.3.peg.339 [Bifidobacterium longum subsp. longum 2-2B]fig|1161743.3.peg.582 [Bifidobacterium longum subsp. longum 44B]fig|398513.5.peg.1610 [Bifidobacterium bifidum NCIMB 41171]fig|565042.3.peg.1306 [Bifidobacterium longum subsp. longum JCM 1217]0.000fig|548480.3.peg.1369 [Bifidobacterium longum subsp. infantis ATCC 55813]fig|206672.9.peg.202 [Bifidobacterium longum NCC2705]fig|537937.5.peg.1382 [Bifidobacterium longum subsp. infantis CCUG 52486]fig|722911.3.peg.1933 [Bifidobacterium longum subsp. longum F8]fig|205913.11.peg.491 [Bifidobacterium longum DJO10A]fig|565040.3.peg.1330 [Bifidobacterium longum subsp. infantis 157F]fig|469594.3.peg.1518 [Bifidobacterium sp. 12_1_47BFAA]0.984fig|518634.7.peg.880 [Bifidobacterium breve DSM 20213 = JCM 1192]0.9840.2600.9821.0000.9310.884 fig|649754.3.peg.1162 [Corynebacterium ammoniagenes DSM 20306]fig|1203568.3.peg.1885 [Dermabacter sp. HFH0086]fig|1203556.3.peg.1177 [Actinomyces sp. HPA0247]fig|411466.7.peg.1628 [Actinomyces odontolyticus ATCC 17982]0.9270.9391.000
Figure S4.
Maximum-likelihood tree for the AgaA and NagA proteins. Functions are shown by colors. The SEED identifiers for proteins are shown; for their sequences, see the file Sequences S1 in the Supplementary materials. Genome names are shown in brackets.
NagANagANagANagANagA NagAAgaAAgaAAgaAAgaAAgaA g|910310.3.peg.2096 [Turicibacter sp. HGF1]fig|702450.3.peg.1888 [Turicibacter sp. PC909]fig|521003.7.peg.403 [Collinsella intestinalis DSM 13280]fig|742742.3.peg.747 [Collinsella tanakaei YIT 12063]1.000fig|718252.3.peg.1301 [Faecalibacterium prausnitzii L2-6]fig|457396.3.peg.2033 [Clostridium sp. 7_2_43FAA]fig|545697.3.peg.583 [Clostridium celatum DSM 1785]0.9840.973 fig|428126.7.peg.719 [Clostridium spiroforme DSM 1552]fig|1203606.4.peg.2202 [Butyricicoccus pullicaecorum 1.2]fig|658081.3.peg.273 [Lachnospiraceae bacterium 1_1_57FAA]fig|665950.3.peg.317 [Lachnospiraceae bacterium 3_1_46FAA]fig|665951.3.peg.519 [Lachnospiraceae bacterium 8_1_57FAA]fig|411460.6.peg.605 [Ruminococcus torques ATCC 27756]0.827fig|658659.3.peg.3333 [Erysipelotrichaceae bacterium 3_1_53]fig|908340.3.peg.3539 [Clostridium sp. HGF2]fig|457422.3.peg.2854 [Erysipelotrichaceae bacterium 2_2_44A]fig|469614.3.peg.816 [Erysipelotrichaceae bacterium 6_1_45]fig|658657.3.peg.3465 [Erysipelotrichaceae bacterium 21_3]fig|428127.7.peg.1988 [Eubacterium dolichum DSM 3991]fig|658659.3.peg.3328 [Erysipelotrichaceae bacterium 3_1_53]fig|469614.3.peg.811 [Erysipelotrichaceae bacterium 6_1_45]fig|908340.3.peg.3544 [Clostridium sp. HGF2]fig|457422.3.peg.2849 [Erysipelotrichaceae bacterium 2_2_44A]fig|658657.3.peg.3470 [Erysipelotrichaceae bacterium 21_3]0.999 fig|552396.3.peg.690 [Erysipelotrichaceae bacterium 5_2_54FAA]fig|457402.3.peg.2432 [Eubacterium sp. 3_1_31]fig|518637.5.peg.25 [Eubacterium biforme DSM 3989]fig|552396.3.peg.686 [Erysipelotrichaceae bacterium 5_2_54FAA]fig|457402.3.peg.2436 [Eubacterium sp. 3_1_31]0.9971.0000.9770.7960.9980.953 fig|500638.3.peg.1693 [Edwardsiella tarda ATCC 23685]fig|521000.6.peg.1203 [Providencia rettgeri DSM 1131]fig|500637.6.peg.6690 [Providencia rustigianii DSM 4541]fig|500637.6.peg.400 [Providencia rustigianii DSM 4541]fig|471881.3.peg.848 [Proteus penneri ATCC 35198]fig|1125694.3.peg.2023 [Proteus mirabilis WGLW6]1.000 fig|469613.3.peg.2716 [Enterobacteriaceae bacterium 9_2_54FAA]fig|1002364.3.peg.3406 [Hafnia alvei ATCC 51873]fig|500640.5.peg.3817 [Citrobacter youngae ATCC 29220]fig|469598.5.peg.1073 [Escherichia sp. 3_2_53FAA]fig|364106.8.peg.3537 [Escherichia coli UTI89]fig|749549.3.peg.1975 [Escherichia coli MS 198-1]fig|749546.3.peg.2086 [Escherichia coli MS 185-1]fig|749550.3.peg.1063 [Escherichia coli MS 200-1]fig|749528.3.peg.4105 [Escherichia coli MS 45-1]fig|386585.9.peg.4195 [Escherichia coli O157:H7 str. Sakai]fig|749537.3.peg.2522 [Escherichia coli MS 115-1]fig|749538.3.peg.2174 [Escherichia coli MS 116-1]fig|749544.3.peg.926 [Escherichia coli MS 175-1]fig|749527.3.peg.2789 [Escherichia coli MS 21-1]fig|679207.4.peg.2595 [Escherichia coli MS 107-1]fig|749545.3.peg.3375 [Escherichia coli MS 182-1]fig|749548.3.peg.2783 [Escherichia coli MS 196-1]fig|431946.3.peg.3111 [Escherichia coli SE15]fig|749532.3.peg.1634 [Escherichia coli MS 78-1]fig|749540.3.peg.1427 [Escherichia coli MS 146-1]fig|749531.3.peg.2563 [Escherichia coli MS 69-1]fig|679202.3.peg.1021 [Escherichia coli MS 85-1]fig|749533.3.peg.2280 [Escherichia coli MS 84-1]fig|796392.4.peg.1906 [Escherichia coli MS 79-10]fig|409438.11.peg.3594 [Escherichia coli SE11]fig|457401.3.peg.3047 [Escherichia sp. 4_1_40B]fig|511145.12.peg.3234 [Escherichia coli str. K-12 substr. MG1655]fig|679204.3.peg.874 [Escherichia coli MS 145-7]fig|679205.4.peg.349 [Escherichia coli MS 124-1]fig|679206.4.peg.1520 [Escherichia coli MS 119-7]fig|1127356.4.peg.2231 [Escherichia coli 4_1_47FAA]1.0000.057 fig|749518.3.peg.2181 [Enterococcus faecalis TX2134]fig|749516.3.peg.1473 [Enterococcus faecalis TX1346]fig|749491.3.peg.470 [Enterococcus faecalis TX2137]fig|525278.3.peg.2213 [Enterococcus faecalis TX1322]fig|657310.3.peg.2027 [Enterococcus sp. 7L76]fig|749514.3.peg.2011 [Enterococcus faecalis TX1341]fig|749515.3.peg.1079 [Enterococcus faecalis TX1342]fig|749494.3.peg.161 [Enterococcus faecalis TX4244]fig|469616.3.peg.500 [Fusobacterium mortiferum ATCC 9817]fig|500638.3.peg.2064 [Edwardsiella tarda ATCC 23685]fig|471874.6.peg.3063 [Providencia stuartii ATCC 25827]fig|469613.3.peg.35 [Enterobacteriaceae bacterium 9_2_54FAA]fig|1002364.3.peg.905 [Hafnia alvei ATCC 51873]0.5111.000 fig|1002368.3.peg.1542 [Yokenella regensburgei ATCC 43003]fig|566551.4.peg.218 [Cedecea davisae DSM 4568]fig|500639.8.peg.3738 [Enterobacter cancerogenus ATCC 35316]fig|469595.3.peg.2945 [Citrobacter sp. 30_2]fig|500640.5.peg.3810 [Citrobacter youngae ATCC 29220]fig|749540.3.peg.1419 [Escherichia coli MS 146-1]fig|749544.3.peg.758 [Escherichia coli MS 175-1]fig|749548.3.peg.2791 [Escherichia coli MS 196-1]fig|511145.12.peg.3228 [Escherichia coli str. K-12 substr. MG1655]fig|749538.3.peg.987 [Escherichia coli MS 116-1]fig|457401.3.peg.3055 [Escherichia sp. 4_1_40B]fig|679202.3.peg.1014 [Escherichia coli MS 85-1]fig|749533.3.peg.3488 [Escherichia coli MS 84-1]fig|796392.4.peg.1899 [Escherichia coli MS 79-10]fig|749532.3.peg.1627 [Escherichia coli MS 78-1]fig|749531.3.peg.2556 [Escherichia coli MS 69-1]fig|749528.3.peg.4098 [Escherichia coli MS 45-1]fig|749550.3.peg.1055 [Escherichia coli MS 200-1]fig|749549.3.peg.1968 [Escherichia coli MS 198-1]fig|749547.3.peg.1097 [Escherichia coli MS 187-1]fig|749546.3.peg.2093 [Escherichia coli MS 185-1]fig|749545.3.peg.3368 [Escherichia coli MS 182-1]fig|679204.3.peg.867 [Escherichia coli MS 145-7]fig|679205.4.peg.356 [Escherichia coli MS 124-1]fig|679206.4.peg.1513 [Escherichia coli MS 119-7]fig|749537.3.peg.496 [Escherichia coli MS 115-1]fig|679207.4.peg.2602 [Escherichia coli MS 107-1]fig|1127356.4.peg.2223 [Escherichia coli 4_1_47FAA]fig|469598.5.peg.1080 [Escherichia sp. 3_2_53FAA]fig|386585.9.peg.4187 [Escherichia coli O157:H7 str. Sakai]fig|409438.11.peg.3587 [Escherichia coli SE11]fig|749527.3.peg.2781 [Escherichia coli MS 21-1]fig|431946.3.peg.3104 [Escherichia coli SE15]fig|364106.8.peg.3530 [Escherichia coli UTI89]0.9630.2110.9590.7331.000fig|742820.3.peg.1747 [Streptococcus anginosus 1_2_62CV]fig|469609.3.peg.59 [Streptococcus sp. 2_1_36FAA]fig|1203590.3.peg.1444 [Streptococcus sp. HPH0090]0.9990.999 fig|445975.6.peg.129 [Collinsella stercoris DSM 13279]0.000 fig|665945.3.peg.852 [Lactobacillus sp. 7_1_47FAA]fig|324831.13.peg.117 [Lactobacillus gasseri ATCC 33323]fig|257314.6.peg.129 [Lactobacillus johnsonii NCC 533]0.989 fig|1078083.3.peg.1677 [Staphylococcus sp. HGB0015]fig|742813.4.peg.1811 [Enterococcus saccharolyticus 30_1]fig|749491.3.peg.304 [Enterococcus faecalis TX2137]fig|749494.3.peg.1650 [Enterococcus faecalis TX4244]fig|749516.3.peg.1838 [Enterococcus faecalis TX1346]fig|749515.3.peg.2517 [Enterococcus faecalis TX1342]fig|749514.3.peg.1920 [Enterococcus faecalis TX1341]fig|749513.3.peg.2414 [Enterococcus faecalis TX1302]fig|749518.3.peg.1255 [Enterococcus faecalis TX2134]fig|525278.3.peg.300 [Enterococcus faecalis TX1322]fig|491074.3.peg.435 [Enterococcus faecalis TX0104]fig|657310.3.peg.238 [Enterococcus sp. 7L76]0.9410.899 fig|862514.3.peg.1200 [Pediococcus acidilactici DSM 20284]fig|563194.3.peg.190 [Pediococcus acidilactici 7_4]fig|862514.3.peg.1201 [Pediococcus acidilactici DSM 20284]fig|568703.30.peg.340 Lactobacillus rhamnosus GG (Prj:40637)[]fig|525361.3.peg.1788 [Lactobacillus rhamnosus LMS2-1]fig|1002365.5.peg.430 [Lactobacillus rhamnosus ATCC 21052]fig|537973.8.peg.2335 [Lactobacillus paracasei subsp. paracasei 8700:2]fig|525337.3.peg.1132 [Lactobacillus paracasei subsp. paracasei ATCC 25302]fig|543734.4.peg.278 [Lactobacillus casei BL23]0.9950.8730.8470.712
Figure S5.
Maximum-likelihood tree for EIIC subunits of the AgaPTS, GamPTS, and GnbPTS. Functions are shown by colors. The SEED identifiers for proteins are shown; for their sequences, see the file Sequences S1 in the Supplementary materials. Genome names are shown in brackets.
AgaPTSGamPTSGnbPTS GamPTSAgaPTS AgaPTSAgaPTSGamPTSGamPTS g|556259.3.peg.397 [Bacteroides sp. D2]fig|483215.6.peg.2263 [Bacteroides finegoldii DSM 17565]fig|226186.12.peg.436 [Bacteroides thetaiotaomicron VPI-5482]fig|469585.3.peg.1122 [Bacteroides sp. 1_1_14]fig|226186.12.peg.453 [Bacteroides thetaiotaomicron VPI-5482]fig|469585.3.peg.1052 [Bacteroides sp. 1_1_14]fig|556259.3.peg.415 [Bacteroides sp. D2]fig|469590.5.peg.5686 [Bacteroides sp. 2_2_4]fig|457390.3.peg.4717 [Bacteroides sp. 3_1_23]fig|702443.3.peg.744 [Bacteroides ovatus SD CMC 3f]fig|411476.11.peg.1674 [Bacteroides ovatus ATCC 8483]fig|556258.5.peg.1561 [Bacteroides sp. D1]fig|702447.3.peg.2059 [Bacteroides xylanisolvens SD CC 1b]fig|469588.3.peg.2799 [Bacteroides sp. 2_1_22]fig|665954.3.peg.4733 [Bacteroides ovatus 3_8_47FAA]fig|457387.3.peg.3674 [Bacteroides sp. 1_1_30]fig|470145.6.peg.3706 [Bacteroides coprocola DSM 17136]fig|469586.3.peg.3396 [Bacteroides sp. 1_1_6]fig|226186.12.peg.3664 [Bacteroides thetaiotaomicron VPI-5482]fig|469585.3.peg.3539 [Bacteroides sp. 1_1_14]fig|585543.3.peg.329 [Bacteroides sp. D20]fig|411479.10.peg.2164 [Bacteroides uniformis ATCC 8492]fig|457393.3.peg.1019 [Bacteroides sp. 4_1_36]fig|471870.8.peg.2564 [Bacteroides intestinalis DSM 17393]fig|537012.5.peg.3590 [Bacteroides cellulosilyticus DSM 14838]fig|742817.3.peg.1750 [Odoribacter laneus YIT 12061]fig|742767.3.peg.2522 [Dysgonomonas mossii DSM 22836]0.7820.6760.7190.8970.8670.9050.5230.602fig|665954.3.peg.4759 [Bacteroides ovatus 3_8_47FAA]fig|702443.3.peg.719 [Bacteroides ovatus SD CMC 3f]fig|457387.3.peg.3693 [Bacteroides sp. 1_1_30]fig|657309.4.peg.3244 [Bacteroides xylanisolvens XB1A]fig|457390.3.peg.4692 [Bacteroides sp. 3_1_23]fig|411476.11.peg.1654 [Bacteroides ovatus ATCC 8483]0.000fig|483215.6.peg.2279 [Bacteroides finegoldii DSM 17565]fig|469588.3.peg.2780 [Bacteroides sp. 2_1_22]fig|702447.3.peg.2740 [Bacteroides xylanisolvens SD CC 1b]fig|556258.5.peg.1542 [Bacteroides sp. D1]0.976 fig|658087.3.peg.3868 [Lachnospiraceae bacterium 7_1_58FAA]fig|657308.3.peg.1691 [Gordonibacter pamelaeae 7-10-1-b]fig|665956.3.peg.1667 [Subdoligranulum sp. 4_3_54A2FAA]fig|552398.3.peg.2013 [Ruminococcaceae bacterium D16]0.6600.8191.000 fig|349741.6.peg.2221 [Akkermansia muciniphila ATCC BAA-835]fig|469592.4.peg.813 [Bacteroides sp. 3_1_19]fig|435591.13.peg.2904 [Parabacteroides distasonis ATCC 8503]fig|658661.3.peg.1349 [Parabacteroides sp. D25]fig|457388.5.peg.577 [Bacteroides sp. 2_1_7]fig|469589.3.peg.1631 [Bacteroides sp. 2_1_33B]fig|469591.4.peg.4190 [Bacteroides sp. 20_3]fig|563193.3.peg.737 [Parabacteroides sp. D13]fig|411477.4.peg.285 [Parabacteroides merdae ATCC 43184]fig|537006.5.peg.419 [Parabacteroides johnsonii DSM 18315]0.916 fig|888832.3.peg.1624 [Prevotella salivae DSM 15606]fig|457424.5.peg.368 [Bacteroides fragilis 3_1_12]fig|469587.3.peg.1878 [Bacteroides sp. 2_1_16]fig|295405.11.peg.1659 [Bacteroides fragilis YCH46]fig|272559.17.peg.1673 [Bacteroides fragilis NCTC 9343]fig|457392.3.peg.3 [Bacteroides sp. 3_2_5]fig|665938.3.peg.1909 [Bacteroides sp. 2_1_56FAA]fig|862962.3.peg.1725 [Bacteroides fragilis 638R]fig|484018.6.peg.1286 [Bacteroides plebeius DSM 17135]fig|547042.5.peg.2023 [Bacteroides coprophilus DSM 18228]0.8050.865 fig|483217.6.peg.657 [Bacteroides dorei DSM 17855]fig|457391.3.peg.1692 [Bacteroides sp. 3_1_33FAA]fig|457395.6.peg.398 [Bacteroides sp. 9_1_42FAA]fig|435590.9.peg.4229 [Bacteroides vulgatus ATCC 8482]fig|702446.3.peg.469 [Bacteroides vulgatus PC510]fig|469593.3.peg.3412 [Bacteroides sp. 3_1_40A]fig|457394.3.peg.790 [Bacteroides sp. 4_3_47FAA]fig|469590.5.peg.2219 [Bacteroides sp. 2_2_4]fig|585544.3.peg.1741 [Bacteroides sp. D22]fig|457387.3.peg.354 [Bacteroides sp. 1_1_30]fig|657309.4.peg.3893 [Bacteroides xylanisolvens XB1A]fig|411476.11.peg.429 [Bacteroides ovatus ATCC 8483]0.989fig|763034.3.peg.3253 [Bacteroides fluxus YIT 12057]fig|411901.7.peg.1025 [Bacteroides caccae ATCC 43185]fig|585544.3.peg.1298 [Bacteroides sp. D22]fig|665953.3.peg.534 [Bacteroides eggerthii 1_2_48FAA]fig|483216.6.peg.1918 [Bacteroides eggerthii DSM 20697]fig|449673.7.peg.1658 [Bacteroides stercoris ATCC 43183]fig|762984.3.peg.425 [Bacteroides clarus YIT 12056]0.8250.791 fig|1203550.3.peg.2124 [Prevotella oralis HGA0225]fig|469586.3.peg.2818 [Bacteroides sp. 1_1_6]fig|469585.3.peg.798 [Bacteroides sp. 1_1_14] fig|469585.3.peg.797 [Bacteroides sp. 1_1_14]fig|295405.11.peg.4094 [Bacteroides fragilis YCH46]fig|862962.3.peg.4272 [Bacteroides fragilis 638R]fig|272559.17.peg.4150 [Bacteroides fragilis NCTC 9343]0.9950.9990.9480.8540.4020.5250.9610.9970.8560.884fig|1002366.3.peg.2661 [Listeria innocua ATCC 33091]fig|362948.14.peg.2061 [Lactobacillus salivarius UCC118]fig|525364.3.peg.310 [Lactobacillus salivarius ATCC 11741]fig|862514.3.peg.30 [Pediococcus acidilactici DSM 20284]fig|563194.3.peg.1907 [Pediococcus acidilactici 7_4]fig|525309.3.peg.1894 [Lactobacillus antri DSM 16041]fig|314315.12.peg.1608 [Lactobacillus sakei subsp. sakei 23K]fig|1327988.3.peg.2861 [Lactobacillus plantarum 16]fig|525338.3.peg.595 [Lactobacillus plantarum subsp. plantarum ATCC 14917]fig|220668.9.peg.2979 [Lactobacillus plantarum WCFS1]0.3860.5530.7030.999 fig|1078083.3.peg.55 [Staphylococcus sp. HGB0015]fig|469598.5.peg.3565 [Escherichia sp. 3_2_53FAA]fig|431946.3.peg.4345 [Escherichia coli SE15]fig|742730.3.peg.294 [Citrobacter freundii 4_7_47CFAA]fig|469595.3.peg.2620 [Citrobacter sp. 30_2]fig|500640.5.peg.4183 [Citrobacter youngae ATCC 29220]fig|1002368.3.peg.1858 [Yokenella regensburgei ATCC 43003]fig|718254.4.peg.2253 [Enterobacter cloacae subsp. cloacae NCTC 9394]0.6540.626 fig|545697.3.peg.3006 [Clostridium celatum DSM 1785]fig|457396.3.peg.3419 [Clostridium sp. 7_2_43FAA]fig|908341.3.peg.5364 [Paenibacillus sp. HGF5]0.3141.000 fig|742739.3.peg.2744 [Clostridium perfringens WAL-14572]fig|552396.3.peg.2695 [Erysipelotrichaceae bacterium 5_2_54FAA]fig|457402.3.peg.1950 [Eubacterium sp. 3_1_31]fig|457422.3.peg.441 [Erysipelotrichaceae bacterium 2_2_44A]fig|908340.3.peg.1557 [Clostridium sp. HGF2]fig|658657.3.peg.1358 [Erysipelotrichaceae bacterium 21_3]fig|658659.3.peg.399 [Erysipelotrichaceae bacterium 3_1_53]fig|469614.3.peg.4865 [Erysipelotrichaceae bacterium 6_1_45]fig|657316.3.peg.1105 [Megamonas hypermegale ART12/1]fig|657316.3.peg.1104 [Megamonas hypermegale ART12/1]fig|742816.3.peg.2067 [Megamonas funiformis YIT 11815]fig|500633.7.peg.380 [Clostridium hiranonis DSM 13275]fig|645462.3.peg.2200 [Clostridium difficile CD196]fig|525258.3.peg.1830 [Clostridium difficile NAP07]fig|525259.3.peg.1090 [Clostridium difficile NAP08]0.9410.7170.2390.771 fig|525367.9.peg.1511 [Listeria grayi DSM 20601]fig|791161.5.peg.119 [Enterococcus faecium PC4.1]fig|525279.3.peg.256 [Enterococcus faecium TX1330]fig|702448.3.peg.117 [Enterococcus faecalis PC1.1]0.9170.995 fig|469597.4.peg.2602 [Coprobacillus sp. 8_2_54BFAA]fig|445974.6.peg.590 [Clostridium ramosum DSM 1402]fig|556270.3.peg.2566 [Mollicutes bacterium D7]fig|665941.3.peg.2545 [Coprobacillus sp. 3_3_56FAA]fig|476272.5.peg.1099 [Blautia hydrogenotrophica DSM 10507]fig|1203592.3.peg.4658 [Streptomyces sp. HPH0547]fig|649754.3.peg.1160 [Corynebacterium ammoniagenes DSM 20306]fig|445975.6.peg.536 [Collinsella stercoris DSM 13279]fig|411903.6.peg.1948 [Collinsella aerofaciens ATCC 25986]fig|521003.7.peg.936 [Collinsella intestinalis DSM 13280]fig|445975.6.peg.1688 [Collinsella stercoris DSM 13279]fig|742742.3.peg.29 [Collinsella tanakaei YIT 12063]0.4700.997 fig|665943.3.peg.2464 [Eggerthella sp. 1_3_56FAA]fig|910311.3.peg.211 [Eggerthella sp. HGA1]fig|411466.7.peg.1056 [Actinomyces odontolyticus ATCC 17982]fig|1203556.3.peg.1599 [Actinomyces sp. HPA0247]fig|561180.4.peg.1521 [Bifidobacterium gallicum DSM 20093]fig|391904.8.peg.653 [Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222]fig|518634.7.peg.206 [Bifidobacterium breve DSM 20213 = JCM 1192]fig|1203540.3.peg.238 [Bifidobacterium breve HPH0326]0.9900.978 fig|391904.8.peg.2477 [Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222]fig|1203568.3.peg.449 [Dermabacter sp. HFH0086]fig|450748.3.peg.92 [Propionibacterium sp. 5_U_42AFAA]fig|1203571.3.peg.683 [Propionibacterium sp. HGH0353]0.9640.7530.8780.3810.6280.9450.8380.941 fig|1078089.3.peg.511 [Bacteroides sp. HPS0048]fig|500638.3.peg.429 [Edwardsiella tarda ATCC 23685]fig|500639.8.peg.3824 [Enterobacter cancerogenus ATCC 35316]fig|469608.3.peg.2889 [Klebsiella sp. 1_1_55]fig|1203547.3.peg.3896 [Klebsiella pneumoniae subsp. pneumoniae WGLW5]fig|1037908.3.peg.1170 [Klebsiella pneumoniae 1162281]fig|665944.3.peg.4533 [Klebsiella sp. 4_1_44FAA]fig|1127356.4.peg.2311 [Escherichia coli 4_1_47FAA]fig|749537.3.peg.2603 [Escherichia coli MS 115-1]fig|457400.3.peg.1161 [Escherichia sp. 1_1_43]fig|749545.3.peg.3861 [Escherichia coli MS 182-1]fig|749545.3.peg.3860 [Escherichia coli MS 182-1]fig|749538.3.peg.3535 [Escherichia coli MS 116-1]fig|511145.12.peg.3319 [Escherichia coli str. K-12 substr. MG1655]fig|457401.3.peg.2963 [Escherichia sp. 4_1_40B]fig|431946.3.peg.3182 [Escherichia coli SE15]fig|679202.3.peg.1098 [Escherichia coli MS 85-1]fig|749533.3.peg.2361 [Escherichia coli MS 84-1]fig|796392.4.peg.2688 [Escherichia coli MS 79-10]fig|749532.3.peg.1271 [Escherichia coli MS 78-1]fig|749531.3.peg.2640 [Escherichia coli MS 69-1]fig|749528.3.peg.4179 [Escherichia coli MS 45-1]fig|749527.3.peg.2864 [Escherichia coli MS 21-1]fig|749550.3.peg.1349 [Escherichia coli MS 200-1]fig|749549.3.peg.2098 [Escherichia coli MS 198-1]fig|749548.3.peg.4351 [Escherichia coli MS 196-1]fig|749546.3.peg.2012 [Escherichia coli MS 185-1]fig|749540.3.peg.1509 [Escherichia coli MS 146-1]fig|679204.3.peg.955 [Escherichia coli MS 145-7]fig|679205.4.peg.2805 [Escherichia coli MS 124-1]fig|679206.4.peg.4134 [Escherichia coli MS 119-7]fig|749547.3.peg.2154 [Escherichia coli MS 187-1]fig|409438.11.peg.3672 [Escherichia coli SE11]fig|469598.5.peg.1000 [Escherichia sp. 3_2_53FAA]fig|386585.9.peg.4276 [Escherichia coli O157_H7 str. Sakai]fig|679207.4.peg.2516 [Escherichia coli MS 107-1]fig|364106.8.peg.3609 [Escherichia coli UTI89]0.790fig|500640.5.peg.3897 [Citrobacter youngae ATCC 29220]fig|99287.12.peg.3538 [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]0.6400.7910.6680.384 fig|471881.3.peg.1436 [Proteus penneri ATCC 35198]fig|521000.6.peg.3569 [Providencia rettgeri DSM 1131]fig|1125694.3.peg.2582 [Proteus mirabilis WGLW6]fig|471881.3.peg.1437 [Proteus penneri ATCC 35198]fig|99287.12.peg.1196 [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]fig|469613.3.peg.3351 [Enterobacteriaceae bacterium 9_2_54FAA]fig|1002364.3.peg.1353 [Hafnia alvei ATCC 51873]0.9570.5471.0000.9470.8040.805 fig|944559.3.peg.951 [Paenibacillus sp. HGF7]fig|1078505.3.peg.2189 [Paenibacillus sp. HGH0039]fig|428127.7.peg.1792 [Eubacterium dolichum DSM 3991]fig|518636.5.peg.3430 [Clostridium asparagiforme DSM 15981]1.000 fig|545696.5.peg.501 [Holdemania filiformis DSM 12042]fig|908340.3.peg.1765 [Clostridium sp. HGF2]fig|658657.3.peg.2832 [Erysipelotrichaceae bacterium 21_3]fig|469614.3.peg.3111 [Erysipelotrichaceae bacterium 6_1_45]fig|457422.3.peg.2576 [Erysipelotrichaceae bacterium 2_2_44A]fig|545696.5.peg.217 [Holdemania filiformis DSM 12042]fig|469597.4.peg.142 [Coprobacillus sp. 8_2_54BFAA]0.9050.9900.9260.885 fig|545696.5.peg.132 [Holdemania filiformis DSM 12042]fig|469616.3.peg.799 [Fusobacterium mortiferum ATCC 9817]fig|469618.3.peg.2930 [Fusobacterium varium ATCC 27725]fig|469617.3.peg.732 [Fusobacterium ulcerans ATCC 49185]fig|457404.3.peg.1042 [Fusobacterium sp. 12_1B]1.000fig|545696.5.peg.925 [Holdemania filiformis DSM 12042]fig|445975.6.peg.1466 [Collinsella stercoris DSM 13279]fig|717960.3.peg.1551 [Eubacterium cylindroides T2-87]fig|411484.7.peg.982 [Clostridium sp. SS2/1]fig|245018.3.peg.1995 [butyrate-producing bacterium SSC/2]fig|563193.3.peg.3313 [Parabacteroides sp. D13]fig|457388.5.peg.1938 [Bacteroides sp. 2_1_7]fig|658661.3.peg.2028 [Parabacteroides sp. D25]fig|435591.13.peg.1847 [Parabacteroides distasonis ATCC 8503]fig|469592.4.peg.2439 [Bacteroides sp. 3_1_19]fig|469591.4.peg.1805 [Bacteroides sp. 20_3]fig|469589.3.peg.2409 [Bacteroides sp. 2_1_33B]fig|411490.6.peg.1603 [Anaerostipes caccae DSM 14662]fig|665937.3.peg.1377 [Anaerostipes sp. 3_2_56FAA]fig|658659.3.peg.3300 [Erysipelotrichaceae bacterium 3_1_53]fig|469614.3.peg.4727 [Erysipelotrichaceae bacterium 6_1_45]fig|908340.3.peg.1704 [Clostridium sp. HGF2]fig|658657.3.peg.1508 [Erysipelotrichaceae bacterium 21_3]fig|457422.3.peg.285 [Erysipelotrichaceae bacterium 2_2_44A]fig|552396.3.peg.1806 [Erysipelotrichaceae bacterium 5_2_54FAA]fig|457402.3.peg.1250 [Eubacterium sp. 3_1_31]fig|428126.7.peg.2087 [Clostridium spiroforme DSM 1552]fig|469597.4.peg.1145 [Coprobacillus sp. 8_2_54BFAA]fig|518637.5.peg.1891 [Eubacterium biforme DSM 3989]fig|717960.3.peg.1246 [Eubacterium cylindroides T2-87]0.3690.8600.4140.9600.8710.8930.8120.9680.5760.9780.8910.3060.5850.9190.682 fig|324831.13.peg.1615 [Lactobacillus gasseri ATCC 33323]fig|257314.6.peg.1666 [Lactobacillus johnsonii NCC 533]fig|742813.4.peg.2353 [Enterococcus saccharolyticus 30_1]fig|525278.3.peg.1965 [Enterococcus faecalis TX1322]fig|749518.3.peg.1609 [Enterococcus faecalis TX2134]fig|749494.3.peg.2666 [Enterococcus faecalis TX4244]fig|749513.3.peg.355 [Enterococcus faecalis TX1302]fig|749514.3.peg.1611 [Enterococcus faecalis TX1341]fig|491074.3.peg.1371 [Enterococcus faecalis TX0104]fig|749491.3.peg.453 [Enterococcus faecalis TX2137]0.9880.035 fig|585506.3.peg.1042 [Weissella paramesenteroides ATCC 33313]fig|742820.3.peg.1760 [Streptococcus anginosus 1_2_62CV]fig|1203590.3.peg.1219 [Streptococcus sp. HPH0090]0.5420.985 fig|450748.3.peg.833 [Propionibacterium sp. 5_U_42AFAA]fig|1203571.3.peg.1494 [Propionibacterium sp. HGH0353]fig|457396.3.peg.171 [Clostridium sp. 7_2_43FAA]fig|457412.4.peg.2697 [Ruminococcus sp. 5_1_39BFAA]fig|518636.5.peg.3604 [Clostridium asparagiforme DSM 15981]fig|478749.5.peg.185 [Bryantella formatexigens DSM 14469]fig|742735.4.peg.1693 [Clostridium clostridioforme 2_1_49FAA]fig|997893.5.peg.3960 [Clostridium bolteae 90A5]fig|411902.9.peg.4204 [Clostridium bolteae ATCC BAA-613]0.1390.9500.989fig|457396.3.peg.1989 [Clostridium sp. 7_2_43FAA]fig|910310.3.peg.326 [Turicibacter sp. HGF1]fig|702450.3.peg.2575 [Turicibacter sp. PC909]0.6130.9620.1760.762 fig|556264.3.peg.1697 [Fusobacterium sp. D11]fig|658086.3.peg.5699 [Lachnospiraceae bacterium 3_1_57FAA_CT1]fig|622312.4.peg.802 [Roseburia inulinivorans DSM 16841]fig|657322.3.peg.1517 [Faecalibacterium prausnitzii SL3/3]fig|411485.10.peg.232 [Faecalibacterium prausnitzii M21/2]fig|411483.3.peg.1816 [Faecalibacterium prausnitzii A2-165]fig|718252.3.peg.2401 [Faecalibacterium prausnitzii L2-6]fig|748224.3.peg.1955 [Faecalibacterium cf. prausnitzii KLE1255]0.7900.8860.9700.9790.844 fig|445972.6.peg.2088 [Anaerotruncus colihominis DSM 17241]fig|518636.5.peg.5452 [Clostridium asparagiforme DSM 15981]fig|742741.3.peg.2559 [Clostridium symbiosum WAL-14673]fig|742740.3.peg.3353 [Clostridium symbiosum WAL-14163]fig|665940.3.peg.237 [Clostridium sp. 7_3_54FAA]fig|742733.3.peg.1963 [Clostridium citroniae WAL-17108]fig|742737.3.peg.4246 [Clostridium hathewayi WAL-18680]0.7300.8900.995fig|469621.3.peg.669 [Fusobacterium sp. 1_1_41FAA]fig|469604.3.peg.444 [Fusobacterium sp. 3_1_36A2]fig|469602.3.peg.1734 [Fusobacterium sp. 3_1_27]fig|469606.3.peg.655 [Fusobacterium sp. 4_1_13]fig|556264.3.peg.1090 [Fusobacterium sp. D11]fig|457403.3.peg.1347 [Fusobacterium sp. 11_3_2]fig|469615.3.peg.324 [Fusobacterium gonidiaformans ATCC 25563]fig|469605.3.peg.401 [Fusobacterium sp. 3_1_5R]fig|556263.3.peg.733 [Fusobacterium sp. D12]fig|742814.3.peg.2376 [Fusobacterium necrophorum subsp. funduliforme 1_1_36S]fig|469616.3.peg.2505 [Fusobacterium mortiferum ATCC 9817]fig|469618.3.peg.327 [Fusobacterium varium ATCC 27725]fig|469617.3.peg.2322 [Fusobacterium ulcerans ATCC 49185]fig|457404.3.peg.2962 [Fusobacterium sp. 12_1B]fig|457404.3.peg.2963 [Fusobacterium sp. 12_1B]0.9910.9680.8600.8990.861 fig|469596.3.peg.476 [Coprobacillus sp. 29_1]fig|556262.3.peg.1381 [Coprobacillus sp. D6]fig|445974.6.peg.803 [Clostridium ramosum DSM 1402]fig|469597.4.peg.363 [Coprobacillus sp. 8_2_54BFAA]fig|665941.3.peg.1245 [Coprobacillus sp. 3_3_56FAA]fig|556270.3.peg.1843 [Mollicutes bacterium D7]0.998 fig|469609.3.peg.128 [Streptococcus sp. 2_1_36FAA]fig|749514.3.peg.1074 [Enterococcus faecalis TX1341]fig|749513.3.peg.548 [Enterococcus faecalis TX1302]fig|525278.3.peg.2618 [Enterococcus faecalis TX1322]fig|749491.3.peg.1394 [Enterococcus faecalis TX2137]fig|749515.3.peg.842 [Enterococcus faecalis TX1342]fig|749494.3.peg.31 [Enterococcus faecalis TX4244]fig|491074.3.peg.2138 [Enterococcus faecalis TX0104]fig|749516.3.peg.757 [Enterococcus faecalis TX1346]fig|749518.3.peg.1789 [Enterococcus faecalis TX2134]fig|657310.3.peg.2684 [Enterococcus sp. 7L76]0.981 fig|657315.3.peg.3695 [Roseburia intestinalis M50/1]fig|718255.3.peg.2390 [Roseburia intestinalis XB6B4]fig|518637.5.peg.2228 [Eubacterium biforme DSM 3989]fig|717960.3.peg.695 [Eubacterium cylindroides T2-87]fig|556261.3.peg.4579 [Clostridium sp. D5]fig|742765.5.peg.2583 [Dorea formicigenerans 4_6_53AFAA]fig|658655.3.peg.287 [Lachnospiraceae bacterium 1_4_56FAA]0.3900.811 fig|537007.6.peg.2023 [Blautia hansenii DSM 20583]fig|476272.5.peg.3189 [Blautia hydrogenotrophica DSM 10507]fig|742735.4.peg.1879 [Clostridium clostridioforme 2_1_49FAA]fig|997893.5.peg.3775 [Clostridium bolteae 90A5]fig|411902.9.peg.2136 [Clostridium bolteae ATCC BAA-613]fig|457421.5.peg.1147 [Clostridiales bacterium 1_7_47FAA]fig|742733.3.peg.4307 [Clostridium citroniae WAL-17108]fig|411468.9.peg.425 [Clostridium scindens ATCC 35704]fig|658085.3.peg.1676 [Lachnospiraceae bacterium 5_1_57FAA]fig|1078091.3.peg.1631 [Coprococcus sp. HPP0048]fig|552395.3.peg.1972 [Lachnospiraceae bacterium 4_1_37FAA]fig|592010.4.peg.606 [Abiotrophia defectiva ATCC 49176]fig|553973.6.peg.2864 [Clostridium hylemonae DSM 15053]fig|411484.7.peg.2338 [Clostridium sp. SS2/1]fig|245018.3.peg.471 [butyrate-producing bacterium SSC/2]fig|658089.3.peg.1694 [Lachnospiraceae bacterium 5_1_63FAA]fig|649757.3.peg.165 [Anaerostipes hadrus DSM 3319]0.8890.811fig|411469.3.peg.1640 [Eubacterium hallii DSM 3353]fig|411462.6.peg.1620 [Dorea longicatena DSM 13814]fig|657313.3.peg.2275 [Ruminococcus torques L2-14]fig|411470.6.peg.2357 [Ruminococcus gnavus ATCC 29149]fig|411461.4.peg.292 [Dorea formicigenerans ATCC 27755]0.8960.8550.9770.0000.858 fig|411486.3.peg.2353 [Clostridium sp. M62/1]fig|245012.3.peg.1053 [butyrate-producing bacterium SM4/1]fig|717608.3.peg.1505 [Clostridium cf. saccharolyticum K10]fig|658086.3.peg.7049 [Lachnospiraceae bacterium 3_1_57FAA_CT1]0.1660.5870.7840.4840.9130.5550.9250.9680.9800.8471.000
Figure S6.
Maximum-likelihood tree for NanE and NanE-II proteins. Functions are shown by colors. The SEED identifiers for proteins are shown; for their sequences, see the file Sequences S1 in the Supplementary materials. Genome names are shown in brackets.
NagENagE-II g|742817.3.peg.2822 [Odoribacter laneus YIT 12061]fig|349741.6.peg.38 [Akkermansia muciniphila ATCC BAA-835]0.788 fig|717959.3.peg.703 [Alistipes shahii WAL 8301]fig|742725.3.peg.982 [Alistipes indistinctus YIT 12060]0.999 fig|742766.3.peg.2422 [Dysgonomonas gadei ATCC BAA-286]fig|742766.3.peg.1795 [Dysgonomonas gadei ATCC BAA-286]fig|742767.3.peg.1650 [Dysgonomonas mossii DSM 22836]fig|665949.3.peg.583 [Tannerella sp. 6_1_58FAA_CT1]fig|742726.3.peg.367 [Barnesiella intestinihominis YIT 11860]0.377 fig|469589.3.peg.1139 [Bacteroides sp. 2_1_33B]fig|563193.3.peg.2682 [Parabacteroides sp. D13]fig|435591.13.peg.1552 [Parabacteroides distasonis ATCC 8503]fig|469592.4.peg.2555 [Bacteroides sp. 3_1_19]fig|469591.4.peg.2110 [Bacteroides sp. 20_3]fig|658661.3.peg.3176 [Parabacteroides sp. D25]fig|457388.5.peg.2800 [Bacteroides sp. 2_1_7]fig|1078089.3.peg.4790 [Bacteroides sp. HPS0048]fig|295405.11.peg.3958 [Bacteroides fragilis YCH46]fig|469587.3.peg.4486 [Bacteroides sp. 2_1_16]fig|665938.3.peg.4863 [Bacteroides sp. 2_1_56FAA]fig|272559.17.peg.4012 [Bacteroides fragilis NCTC 9343]fig|457392.3.peg.4308 [Bacteroides sp. 3_2_5]fig|457424.5.peg.4636 [Bacteroides fragilis 3_1_12]fig|862962.3.peg.4122 [Bacteroides fragilis 638R]0.083 fig|484018.6.peg.86 [Bacteroides plebeius DSM 17135]fig|547042.5.peg.2303 [Bacteroides coprophilus DSM 18228]fig|470145.6.peg.3155 [Bacteroides coprocola DSM 17136]fig|762968.3.peg.949 [Paraprevotella clara YIT 11840]fig|762982.3.peg.173 [Paraprevotella xylaniphila YIT 11841]fig|1203550.3.peg.2334 [Prevotella oralis HGA0225]fig|888832.3.peg.2668 [Prevotella salivae DSM 15606]fig|537011.5.peg.568 [Prevotella copri DSM 18205]fig|537011.5.peg.4110 [Prevotella copri DSM 18205]0.9810.916 fig|483217.6.peg.59 [Bacteroides dorei DSM 17855]fig|457391.3.peg.3025 [Bacteroides sp. 3_1_33FAA]fig|702446.3.peg.1628 [Bacteroides vulgatus PC510]fig|435590.9.peg.386 [Bacteroides vulgatus ATCC 8482]fig|469593.3.peg.2857 [Bacteroides sp. 3_1_40A]fig|457395.6.peg.2970 [Bacteroides sp. 9_1_42FAA]fig|457394.3.peg.2935 [Bacteroides sp. 4_3_47FAA]fig|411477.4.peg.2825 [Parabacteroides merdae ATCC 43184]fig|537006.5.peg.1142 [Parabacteroides johnsonii DSM 18315]fig|449673.7.peg.334 [Bacteroides stercoris ATCC 43183]fig|762984.3.peg.2589 [Bacteroides clarus YIT 12056]fig|665953.3.peg.1197 [Bacteroides eggerthii 1_2_48FAA]fig|483216.6.peg.612 [Bacteroides eggerthii DSM 20697]fig|763034.3.peg.1246 [Bacteroides fluxus YIT 12057]fig|457393.3.peg.3694 [Bacteroides sp. 4_1_36]fig|585543.3.peg.641 [Bacteroides sp. D20]fig|411479.10.peg.2484 [Bacteroides uniformis ATCC 8492]fig|537012.5.peg.103 [Bacteroides cellulosilyticus DSM 14838]fig|537012.5.peg.102 [Bacteroides cellulosilyticus DSM 14838]fig|471870.8.peg.4579 [Bacteroides intestinalis DSM 17393]0.957fig|483215.6.peg.2955 [Bacteroides finegoldii DSM 17565]fig|411901.7.peg.3128 [Bacteroides caccae ATCC 43185]fig|469585.3.peg.3742 [Bacteroides sp. 1_1_14]fig|226186.12.peg.3872 [Bacteroides thetaiotaomicron VPI-5482]fig|469586.3.peg.3609 [Bacteroides sp. 1_1_6]fig|665954.3.peg.2667 [Bacteroides ovatus 3_8_47FAA]fig|556258.5.peg.2071 [Bacteroides sp. D1]fig|411476.11.peg.3102 [Bacteroides ovatus ATCC 8483]fig|702443.3.peg.3011 [Bacteroides ovatus SD CMC 3f]fig|469590.5.peg.3381 [Bacteroides sp. 2_2_4]fig|457390.3.peg.2992 [Bacteroides sp. 3_1_23]fig|556259.3.peg.1794 [Bacteroides sp. D2]fig|702444.3.peg.2031 [Bacteroides ovatus SD CC 2a]fig|657309.4.peg.3848 [Bacteroides xylanisolvens XB1A]fig|702447.3.peg.2852 [Bacteroides xylanisolvens SD CC 1b]fig|585544.3.peg.2988 [Bacteroides sp. D22]fig|469588.3.peg.982 [Bacteroides sp. 2_1_22]fig|457387.3.peg.4626 [Bacteroides sp. 1_1_30]0.9900.8410.9470.9710.9090.3890.9620.364 fig|457395.6.peg.151 [Bacteroides sp. 9_1_42FAA]fig|483217.6.peg.890 [Bacteroides dorei DSM 17855]fig|457391.3.peg.1444 [Bacteroides sp. 3_1_33FAA]fig|702446.3.peg.1253 [Bacteroides vulgatus PC510]fig|435590.9.peg.3988 [Bacteroides vulgatus ATCC 8482]fig|469593.3.peg.4273 [Bacteroides sp. 3_1_40A]fig|457394.3.peg.1016 [Bacteroides sp. 4_3_47FAA]1.0000.967 fig|592010.4.peg.3038 [Abiotrophia defectiva ATCC 49176]fig|411486.3.peg.1303 [Clostridium sp. M62/1]fig|717608.3.peg.1265 [Clostridium cf. saccharolyticum K10]fig|658089.3.peg.1159 [Lachnospiraceae bacterium 5_1_63FAA]fig|411484.7.peg.2922 [Clostridium sp. SS2/1]fig|245018.3.peg.1899 [butyrate-producing bacterium SSC/2]fig|658089.3.peg.1200 [Lachnospiraceae bacterium 5_1_63FAA]fig|411484.7.peg.2917 [Clostridium sp. SS2/1]fig|245018.3.peg.2848 [butyrate-producing bacterium SSC/2]0.968 fig|470146.3.peg.3082 [Coprococcus comes ATCC 27758]fig|518637.5.peg.88 [Eubacterium biforme DSM 3989]fig|518637.5.peg.2268 [Eubacterium biforme DSM 3989]0.8941.000 fig|478749.5.peg.2408 [Bryantella formatexigens DSM 14469]fig|658655.3.peg.1896 [Lachnospiraceae bacterium 1_4_56FAA]fig|411471.5.peg.1387 [Subdoligranulum variabile DSM 15176]fig|411471.5.peg.4440 [Subdoligranulum variabile DSM 15176]fig|470146.3.peg.296 [Coprococcus comes ATCC 27758]fig|470146.3.peg.300 [Coprococcus comes ATCC 27758]fig|717962.3.peg.283 [Coprococcus catus GD/7]fig|717962.3.peg.252 [Coprococcus catus GD/7]0.9781.0000.8450.9090.998 fig|742741.3.peg.79 [Clostridium symbiosum WAL-14673]fig|742740.3.peg.441 [Clostridium symbiosum WAL-14163]fig|665940.3.peg.3528 [Clostridium sp. 7_3_54FAA]fig|411486.3.peg.3254 [Clostridium sp. M62/1]fig|717608.3.peg.2602 [Clostridium cf. saccharolyticum K10]0.603 fig|245014.3.peg.2930 [butyrate-producing bacterium SS3/4]fig|457421.5.peg.1544 [Clostridiales bacterium 1_7_47FAA]fig|997893.5.peg.5112 [Clostridium bolteae 90A5]fig|411902.9.peg.2301 [Clostridium bolteae ATCC BAA-613]1.0000.8781.000 fig|658085.3.peg.2373 [Lachnospiraceae bacterium 5_1_57FAA]fig|411460.6.peg.1483 [Ruminococcus torques ATCC 27756]fig|665950.3.peg.2668 [Lachnospiraceae bacterium 3_1_46FAA]fig|665951.3.peg.1347 [Lachnospiraceae bacterium 8_1_57FAA]fig|658081.3.peg.1219 [Lachnospiraceae bacterium 1_1_57FAA]fig|471875.6.peg.1440 [Ruminococcus lactaris ATCC 29176]fig|657313.3.peg.1452 [Ruminococcus torques L2-14]0.8610.326 fig|556261.3.peg.4120 [Clostridium sp. D5]fig|411470.6.peg.3066 [Ruminococcus gnavus ATCC 29149]fig|658082.3.peg.343 [Lachnospiraceae bacterium 2_1_58FAA]0.8440.923 fig|552395.3.peg.661 [Lachnospiraceae bacterium 4_1_37FAA]fig|658088.3.peg.1630 [Lachnospiraceae bacterium 9_1_43BFAA]fig|470146.3.peg.2754 [Coprococcus comes ATCC 27758]fig|742723.3.peg.61 [Lachnospiraceae bacterium 2_1_46FAA]fig|500632.7.peg.93 [Clostridium nexile DSM 1787]0.9260.8760.8150.8980.998 fig|537007.6.peg.2685 [Blautia hansenii DSM 20583]fig|658083.3.peg.1164 [Lachnospiraceae bacterium 6_1_63FAA]fig|476272.5.peg.2587 [Blautia hydrogenotrophica DSM 10507]fig|657314.3.peg.1538 [Ruminococcus obeum A2-162]fig|411459.7.peg.3253 [Ruminococcus obeum ATCC 29174]0.954 fig|457412.4.peg.2291 [Ruminococcus sp. 5_1_39BFAA]fig|657323.3.peg.1919 [Ruminococcus sp. SR1/5]0.6911.0000.2440.9800.8760.7680.789 fig|483218.5.peg.983 [Bacteroides pectinophilus ATCC 43243]0.6270.7440.990 fig|552396.3.peg.2067 [Erysipelotrichaceae bacterium 5_2_54FAA]fig|457402.3.peg.105 [Eubacterium sp. 3_1_31]fig|658659.3.peg.479 [Erysipelotrichaceae bacterium 3_1_53]fig|908340.3.peg.1625 [Clostridium sp. HGF2]fig|658657.3.peg.1426 [Erysipelotrichaceae bacterium 21_3]0.996 fig|545696.5.peg.3459 [Holdemania filiformis DSM 12042]fig|411470.6.peg.1742 [Ruminococcus gnavus ATCC 29149]fig|658082.3.peg.847 [Lachnospiraceae bacterium 2_1_58FAA]fig|556261.3.peg.4766 [Clostridium sp. D5]fig|658655.3.peg.2326 [Lachnospiraceae bacterium 1_4_56FAA]0.2740.966 fig|457421.5.peg.4159 [Clostridiales bacterium 1_7_47FAA]fig|997893.5.peg.4407 [Clostridium bolteae 90A5]fig|411902.9.peg.1479 [Clostridium bolteae ATCC BAA-613]1.000 fig|742740.3.peg.349 [Clostridium symbiosum WAL-14163]fig|742741.3.peg.165 [Clostridium symbiosum WAL-14673]fig|665940.3.peg.3633 [Clostridium sp. 7_3_54FAA]fig|411486.3.peg.2309 [Clostridium sp. M62/1]fig|717608.3.peg.1550 [Clostridium cf. saccharolyticum K10]0.9561.000 fig|478749.5.peg.2588 [Bryantella formatexigens DSM 14469]fig|457412.4.peg.1930 [Ruminococcus sp. 5_1_39BFAA]fig|657314.3.peg.3356 [Ruminococcus obeum A2-162]fig|411459.7.peg.202 [Ruminococcus obeum ATCC 29174]0.963fig|658083.3.peg.1606 [Lachnospiraceae bacterium 6_1_63FAA]fig|537007.6.peg.809 [Blautia hansenii DSM 20583]fig|537007.6.peg.808 [Blautia hansenii DSM 20583]0.9610.9780.907 fig|411470.6.peg.2427 [Ruminococcus gnavus ATCC 29149]fig|658082.3.peg.2872 [Lachnospiraceae bacterium 2_1_58FAA]fig|556261.3.peg.4913 [Clostridium sp. D5]fig|742723.3.peg.1791 [Lachnospiraceae bacterium 2_1_46FAA]fig|657313.3.peg.2567 [Ruminococcus torques L2-14]fig|476272.5.peg.594 [Blautia hydrogenotrophica DSM 10507]fig|471875.6.peg.441 [Ruminococcus lactaris ATCC 29176]fig|658081.3.peg.184 [Lachnospiraceae bacterium 1_1_57FAA]fig|665950.3.peg.223 [Lachnospiraceae bacterium 3_1_46FAA]fig|411460.6.peg.760 [Ruminococcus torques ATCC 27756]fig|665951.3.peg.606 [Lachnospiraceae bacterium 8_1_57FAA]0.2350.6730.988 fig|470146.3.peg.201 [Coprococcus comes ATCC 27758]fig|742765.5.peg.2547 [Dorea formicigenerans 4_6_53AFAA]fig|411461.4.peg.325 [Dorea formicigenerans ATCC 27755]fig|553973.6.peg.3216 [Clostridium hylemonae DSM 15053]fig|411462.6.peg.1526 [Dorea longicatena DSM 13814]fig|411468.9.peg.2959 [Clostridium scindens ATCC 35704]fig|658085.3.peg.236 [Lachnospiraceae bacterium 5_1_57FAA]0.7460.8720.9420.8760.0000.8850.890fig|500632.7.peg.1709 [Clostridium nexile DSM 1787]fig|1078091.3.peg.2294 [Coprococcus sp. HPP0048]fig|552395.3.peg.2525 [Lachnospiraceae bacterium 4_1_37FAA]fig|1078090.3.peg.2074 [Coprococcus sp. HPP0074]fig|658088.3.peg.2218 [Lachnospiraceae bacterium 9_1_43BFAA]0.3090.966 fig|657317.3.peg.960 [Eubacterium rectale M104/1]fig|622312.4.peg.1687 [Roseburia inulinivorans DSM 16841]fig|657318.4.peg.2889 [Eubacterium rectale DSM 17629]fig|469596.3.peg.1526 [Coprobacillus sp. 29_1]fig|556262.3.peg.3550 [Coprobacillus sp. D6]fig|556270.3.peg.1625 [Mollicutes bacterium D7]fig|445974.6.peg.1040 [Clostridium ramosum DSM 1402]fig|665941.3.peg.1493 [Coprobacillus sp. 3_3_56FAA]0.9420.784 fig|411490.6.peg.864 [Anaerostipes caccae DSM 14662]fig|665937.3.peg.3093 [Anaerostipes sp. 3_2_56FAA]fig|411484.7.peg.2158 [Clostridium sp. SS2/1]fig|245018.3.peg.744 [butyrate-producing bacterium SSC/2]fig|658089.3.peg.471 [Lachnospiraceae bacterium 5_1_63FAA]1.000fig|552398.3.peg.338 [Ruminococcaceae bacterium D16]fig|411467.6.peg.856 [Bacteroides capillosus ATCC 29799]0.742 fig|411471.5.peg.384 [Subdoligranulum variabile DSM 15176]fig|411471.5.peg.4043 [Subdoligranulum variabile DSM 15176]fig|411483.3.peg.2100 [Faecalibacterium prausnitzii A2-165]fig|718252.3.peg.2705 [Faecalibacterium prausnitzii L2-6]0.212fig|748224.3.peg.387 [Faecalibacterium cf. prausnitzii KLE1255]fig|657322.3.peg.881 [Faecalibacterium prausnitzii SL3/3]fig|411485.10.peg.1091 [Faecalibacterium prausnitzii M21/2]0.7580.9930.9680.9960.9520.0310.9230.909 fig|411469.3.peg.2865 [Eubacterium hallii DSM 3353]fig|717962.3.peg.1762 [Coprococcus catus GD/7]fig|658086.3.peg.7095 [Lachnospiraceae bacterium 3_1_57FAA_CT1]0.8640.6510.8440.7610.9850.8850.2360.807
Figure S7.
Maximum-likelihood tree for the GalY proteins and their homologs. GalY proteins are shown in blue. The SEED identifiers for proteins are shown; for their sequences, see the file Sequences S1 in the Supplementary materials. Genome names are shown in brackets.
GalY
10 20 30 40 500 1 2 3 4 5 6 7 Number of glycans in KEGG GLYCAN, 10Number of reactions in KEGG COMPOUND
63 2723 45
FucGalNAcGlcNAcNeu5AcGal
Figure S8.
Abundance of mucin glycan-forming monosaccharides in the KEGG database. Number of reactions associated with each monosaccharides is shown in agreement with the KEGG COMPOUND. Number of glycans containing each monosaccharide is shown in agreement with KEGG GLYCAN.
Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr - - - - - Figure S9.
Known structures of mucin glycans detected in human intestine. - O Ser/Thr - - O Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr - - O Ser/Thr - - - - - -
1. Structures listed by Podolsky, 1985
O Ser/Thr - -
2. Structures listed by Rossez et al. , 2012 O Ser/Thr - - O Ser/Thr O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr O Ser/Thr - - O Ser/Thr O Ser/Thr O Ser/Thr - - O Ser/Thr - - O Ser/Thr O Ser/Thr O Ser/Thr O Ser/Thr - - O Ser/Thr O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr - - O Ser/Thr -4 - - O Ser/Thr -4 -3 - - O Ser/Thr -3 -2 ubSEED ID IMG ID NCBI TaxID Domain Phylum Class Order Family Abiotrophia defectiva ATCC 49176 592010.4 2562617177 592010 Bacteria Firmicutes Bacilli Lactobacillales Aerococcaceae DraftAcidaminococcus sp. D21 563191.3 643886056 563191 Bacteria Firmicutes Negativicutes Selenomonadales Veillonellaceae DraftAcidaminococcus sp. HPA0509 1203555.3 2541047012 1203555 Bacteria Firmicutes Negativicutes Selenomonadales Acidaminococcaceae DraftAcinetobacter junii SH205 575587.3 646206269 575587 Bacteria Proteobacteria Gammaproteobacteria Pseudomonadales Moraxellaceae DraftActinomyces odontolyticus ATCC 17982 411466.7 2623620210 411466 Bacteria Actinobacteria Actinobacteria Actinomycetales Actinomycetaceae DraftActinomyces sp. HPA0247 1203556.3 2541047011 1203556 Bacteria Actinobacteria Actinobacteria Actinomycetales Actinomycetaceae DraftAkkermansia muciniphila ATCC BAA-835 349741.6 642555104 349741 Bacteria Verrucomicrobia Verrucomicrobiae Verrucomicrobiales Verrucomicrobiaceae FinishedAlistipes indistinctus YIT 12060 742725.3 2513237277 742725 Bacteria Bacteroidetes Bacteroidia Bacteroidales Rikenellaceae DraftAlistipes shahii WAL 8301 717959.3 650377904 717959 Bacteria Bacteroidetes Bacteroidia Bacteroidales Rikenellaceae DraftAnaerobaculum hydrogeniformans ATCC BAA-1850 592015.5 647000209 592015 Bacteria Synergistetes Synergistia Synergistales Synergistaceae DraftAnaerococcus hydrogenalis DSM 7454 561177.4 642979323 561177 Bacteria Firmicutes Clostridia Clostridiales Clostridiales Family XI. Incertae Sedis DraftAnaerofustis stercorihominis DSM 17244 445971.6 641736193 445971 Bacteria Firmicutes Clostridia Clostridiales Eubacteriaceae DraftAnaerostipes caccae DSM 14662 411490.6 641736227 411490 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftAnaerostipes hadrus DSM 3319 649757.3 2534681714 649757 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftAnaerostipes sp. 3_2_56FAA 665937.3 649989907 665937 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftAnaerotruncus colihominis DSM 17241 445972.6 641736271 445972 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae DraftBacillus smithii 7_3_47FAA 665952.3 2513237385 665952 Bacteria Firmicutes Bacilli Bacillales Bacillaceae DraftBacillus sp. 7_6_55CFAA_CT2 665957.3 2513237325 665957 Bacteria Firmicutes Bacilli Bacillales Bacillaceae DraftBacillus subtilis subsp. subtilis str. 168 224308.113 646311909 224308 Bacteria Firmicutes Bacilli Bacillales Bacillaceae FinishedBacteroides caccae ATCC 43185 411901.7 2623620314 411901 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides capillosus ATCC 29799 411467.6 2623620352 411467 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides cellulosilyticus DSM 14838 537012.5 643886111 537012 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides clarus YIT 12056 762984.3 651324010 762984 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides coprocola DSM 17136 470145.6 642791613 470145 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides coprophilus DSM 18228 547042.5 643886197 547042 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides dorei DSM 17855 483217.6 642979370 483217 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides eggerthii 1_2_48FAA 665953.3 649989912 665953 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides eggerthii DSM 20697 483216.6 642979334 483216 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides finegoldii DSM 17565 483215.6 2562617142 483215 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides fluxus YIT 12057 763034.3 651324011 763034 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides fragilis 3_1_12 457424.5 645058788 457424 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides fragilis 638R 862962.3 650377910 862962 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae FinishedBacteroides fragilis NCTC 9343 272559.17 2623620861 272559 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae FinishedBacteroides fragilis YCH46 295405.11 2623620898 295405 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae FinishedBacteroides intestinalis DSM 17393 471870.8 642791621 471870 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides ovatus 3_8_47FAA 665954.3 651324012 665954 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides ovatus ATCC 8483 411476.11 641380449 411476 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides ovatus SD CC 2a 702444.3 647000212 702444 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides ovatus SD CMC 3f 702443.3 647000213 702443 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides pectinophilus ATCC 43243 483218.5 642979337 483218 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides plebeius DSM 17135 484018.6 642979351 484018 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 1_1_14 469585.3 648861000 469585 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 1_1_30 457387.3 651324013 457387 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 1_1_6 469586.3 646206272 469586 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 2_1_16 469587.3 647533110 469587 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 2_1_22 469588.3 647533111 469588 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 2_1_33B 469589.3 647533112 469589 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 2_1_56FAA 665938.3 651324014 665938 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 2_1_7 457388.5 645058782 457388 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 2_2_4 469590.5 646206266 469590 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 20_3 469591.4 648861001 469591 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 3_1_19 469592.4 648861002 469592 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 3_1_23 457390.3 648861003 457390 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 3_1_33FAA 457391.3 647533113 457391 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae Draft
Genome statusTaxonomyIDsOrganism name
Table S1.
Analyzed HGM genomes. acteroides sp. 3_1_40A 469593.3 649989913 469593 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 3_2_5 457392.3 2558309115 457392 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 4_1_36 457393.3 649989914 457393 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 4_3_47FAA 457394.3 646206274 457394 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. 9_1_42FAA 457395.6 646206263 457395 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. D1 556258.5 646206264 556258 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. D2 556259.3 2562617173 556259 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. D20 585543.3 647533114 585543 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. D22 585544.3 648861004 585544 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides sp. HPS0048 1078089.3 2529293266 1078089 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides stercoris ATCC 43183 449673.7 641736196 449673 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides thetaiotaomicron VPI-5482 226186.12 2623620899 226186 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae FinishedBacteroides uniformis ATCC 8492 411479.1 641380447 411479 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides vulgatus ATCC 8482 435590.9 2623620366 435590 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae FinishedBacteroides vulgatus PC510 702446.3 647000214 702446 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides xylanisolvens SD CC 1b 702447.3 2617271081 702447 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae DraftBacteroides xylanisolvens XB1A 657309.4 650377911 657309 Bacteria Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae FinishedBarnesiella intestinihominis YIT 11860 742726.3 2529292932 742726 Bacteria Bacteroidetes Bacteroidia Bacteroidales Porphyromonadaceae DraftBifidobacterium adolescentis L2-32 411481.5 640963015 411481 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium angulatum DSM 20098 = JCM 7096 518635.7 2562617143 518635 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium animalis subsp. lactis AD011 442563.4 643348515 442563 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae FinishedBifidobacterium bifidum NCIMB 41171 398513.5 643886040 398513 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium breve DSM 20213 = JCM 1192 518634.7 643886102 518634 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium breve HPH0326 1203540.3 2541047014 1203540 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium catenulatum DSM 16992 = JCM 1194 566552.6 642979312 566552 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium dentium ATCC 27678 473819.7 641736189 473819 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium gallicum DSM 20093 561180.4 2562617144 561180 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium longum DJO10A (Prj:321) 205913.11 642555107 205913 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae FinishedBifidobacterium longum NCC2705 206672.9 637000031 206672 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae FinishedBifidobacterium longum subsp. infantis 157F 565040.3 649633017 565040 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae FinishedBifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222 391904.8 651053007 391904 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae FinishedBifidobacterium longum subsp. infantis ATCC 55813 548480.3 643886140 548480 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium longum subsp. infantis CCUG 52486 537937.5 643886216 537937 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium longum subsp. longum 2-2B 1161745.3 2531839495 1161745 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium longum subsp. longum 44B 1161743.3 2529293221 1161743 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium longum subsp. longum F8 722911.3 650377912 722911 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae FinishedBifidobacterium longum subsp. longum JCM 1217 565042.3 649633019 565042 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae FinishedBifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 547043.8 2597490216 547043 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBifidobacterium sp. 12_1_47BFAA 469594.3 649989916 469594 Bacteria Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae DraftBilophila wadsworthia 3_1_6 563192.3 2562617176 563192 Bacteria Proteobacteria Deltaproteobacteria Desulfovibrionales Desulfovibrionaceae DraftBlautia hansenii DSM 20583 537007.6 2562617096 537007 Bacteria Firmicutes Clostridia Clostridiales unclassified Clostridiales DraftBlautia hydrogenotrophica DSM 10507 476272.5 643886199 476272 Bacteria Firmicutes Clostridia Clostridiales unclassified Clostridiales DraftBryantella formatexigens DSM 14469 478749.5 2562617090 478749 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftBurkholderiales bacterium 1_1_47 469610.4 648861006 469610 Bacteria Proteobacteria Betaproteobacteria Burkholderiales unclassified Burkholderiales Draftbutyrate-producing bacterium SM4/1 245012.3 2622736406 245012 Bacteria Firmicutes Clostridia Clostridiales unclassified Clostridiales Finishedbutyrate-producing bacterium SS3/4 245014.3 650377989 245014 Bacteria Firmicutes Clostridia Clostridiales unclassified Clostridiales Finishedbutyrate-producing bacterium SSC/2 245018.3 650377990 245018 Bacteria Firmicutes Clostridia Clostridiales unclassified Clostridiales FinishedButyricicoccus pullicaecorum 1.2 1203606.4 2537561731 1203606 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftButyrivibrio crossotus DSM 2876 511680.4 645951834 511680 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftButyrivibrio fibrisolvens 16/4 657324.3 650377919 657324 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae FinishedCampylobacter coli JV20 864566.3 648276627 864566 Bacteria Proteobacteria Epsilonproteobacteria Campylobacterales Campylobacteraceae DraftCampylobacter upsaliensis JV21 888826.3 649989919 888826 Bacteria Proteobacteria Epsilonproteobacteria Campylobacterales Campylobacteraceae DraftCatenibacterium mitsuokai DSM 15897 451640.5 643886110 451640 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftCedecea davisae DSM 4568 566551.4 2541046972 566551 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftCitrobacter freundii 4_7_47CFAA 742730.3 2513237266 742730 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftCitrobacter sp. 30_2 469595.3 646206256 469595 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftCitrobacter youngae ATCC 29220 500640.5 2562617093 500640 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Draftlostridiales bacterium 1_7_47FAA 457421.5 643886007 457421 Bacteria Firmicutes Clostridia Clostridiales unclassified Clostridiales DraftClostridium asparagiforme DSM 15981 518636.5 643886112 518636 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium bartlettii DSM 16795 445973.7 641736113 445973 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium bolteae 90A5 997893.5 2537561659 997893 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium bolteae ATCC BAA-613 411902.9 641380428 411902 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium celatum DSM 1785 545697.3 2524023202 545697 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium cf. saccharolyticum K10 717608.3 650377923 717608 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium citroniae WAL-17108 742733.3 2513237360 742733 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium clostridioforme 2_1_49FAA 742735.4 2513237315 742735 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium difficile CD196 645462.3 646311914 645462 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium difficile NAP07 525258.3 647000227 525258 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae FinishedClostridium difficile NAP08 525259.3 647000228 525259 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium hathewayi WAL-18680 742737.3 2513237275 742737 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium hiranonis DSM 13275 500633.7 642979371 500633 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium hylemonae DSM 15053 553973.6 642979359 553973 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium leptum DSM 753 428125.8 641380427 428125 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium methylpentosum DSM 5476 537013.3 643886206 537013 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium nexile DSM 1787 500632.7 642979369 500632 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium perfringens WAL-14572 742739.3 2537561919 742739 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium ramosum DSM 1402 445974.6 641736198 445974 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftClostridium scindens ATCC 35704 411468.9 641736197 411468 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium sp. 7_2_43FAA 457396.3 646206260 457396 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium sp. 7_3_54FAA 665940.3 2513237367 665940 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium sp. D5 556261.3 651285002 556261 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium sp. HGF2 908340.3 649989921 908340 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium sp. L2-50 411489.7 641380448 411489 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium sp. M62/1 411486.3 2562617079 411486 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium sp. SS2/1 411484.7 641736270 411484 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium spiroforme DSM 1552 428126.7 641736169 428126 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftClostridium sporogenes ATCC 15579 471871.7 642791615 471871 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium symbiosum WAL-14163 742740.3 649989922 742740 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftClostridium symbiosum WAL-14673 742741.3 649989923 742741 Bacteria Firmicutes Clostridia Clostridiales Clostridiaceae DraftCollinsella aerofaciens ATCC 25986 411903.6 640612206 411903 Bacteria Actinobacteria Actinobacteria Coriobacteriales Coriobacteriaceae DraftCollinsella intestinalis DSM 13280 521003.7 2562617146 521003 Bacteria Actinobacteria Actinobacteria Coriobacteriales Coriobacteriaceae DraftCollinsella stercoris DSM 13279 445975.6 642979321 445975 Bacteria Actinobacteria Actinobacteria Coriobacteriales Coriobacteriaceae DraftCollinsella tanakaei YIT 12063 742742.3 2513237344 742742 Bacteria Actinobacteria Actinobacteria Coriobacteriales Coriobacteriaceae DraftCoprobacillus sp. 29_1 469596.3 649989924 469596 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftCoprobacillus sp. 3_3_56FAA 665941.3 2513237376 665941 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftCoprobacillus sp. 8_2_54BFAA 469597.4 2513237364 469597 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftCoprobacillus sp. D6 556262.3 2547132035 556262 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftCoprococcus catus GD/7 717962.3 650377925 717962 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae FinishedCoprococcus comes ATCC 27758 470146.3 643886116 470146 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftCoprococcus eutactus ATCC 27759 411474.6 641380422 411474 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftCoprococcus sp. ART55/1 751585.3 2565956545 751585 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae FinishedCoprococcus sp. HPP0048 1078091.3 2541046996 1078091 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftCoprococcus sp. HPP0074 1078090.3 2541046997 1078090 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftCorynebacterium ammoniagenes DSM 20306 649754.3 2623620528 649754 Bacteria Actinobacteria Actinobacteria Actinomycetales Corynebacteriaceae DraftCorynebacterium sp. HFH0082 1078764.3 2541046993 1078764 Bacteria Actinobacteria Actinobacteria Actinomycetales Corynebacteriaceae DraftDermabacter sp. HFH0086 1203568.3 2541047015 1203568 Bacteria Actinobacteria Actinobacteria Actinomycetales Dermabacteraceae DraftDesulfitobacterium hafniense DP7 537010.4 2522572064 537010 Bacteria Firmicutes Clostridia Clostridiales Peptococcaceae DraftDesulfovibrio piger ATCC 29098 411464.8 642979316 411464 Bacteria Proteobacteria Deltaproteobacteria Desulfovibrionales Desulfovibrionaceae DraftDesulfovibrio sp. 3_1_syn3 457398.5 2562617147 457398 Bacteria Proteobacteria Deltaproteobacteria Desulfovibrionales Desulfovibrionaceae DraftDorea formicigenerans 4_6_53AFAA 742765.5 2513237343 742765 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftDorea formicigenerans ATCC 27755 411461.4 641736133 411461 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftDorea longicatena DSM 13814 411462.6 2623620323 411462 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftDysgonomonas gadei ATCC BAA-286 742766.3 651324026 742766 Bacteria Bacteroidetes Bacteroidia Bacteroidales Porphyromonadaceae DraftDysgonomonas mossii DSM 22836 742767.3 651324027 742767 Bacteria Bacteroidetes Bacteroidia Bacteroidales Porphyromonadaceae Draftdwardsiella tarda ATCC 23685 500638.3 647000237 500638 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEggerthella sp. 1_3_56FAA 665943.3 649989930 665943 Bacteria Actinobacteria Actinobacteria Coriobacteriales Coriobacteriaceae DraftEggerthella sp. HGA1 910311.3 651324028 910311 Bacteria Actinobacteria Actinobacteria Coriobacteriales Coriobacteriaceae DraftEnterobacter cancerogenus ATCC 35316 500639.8 2562617148 500639 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEnterobacter cloacae subsp. cloacae NCTC 9394 718254.4 650377928 718254 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEnterobacteriaceae bacterium 9_2_54FAA 469613.3 2562617162 469613 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEnterococcus faecalis PC1.1 702448.3 2513237319 791166 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus faecalis TX0104 491074.3 643886065 491074 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus faecalis TX1302 749513.3 2531839256 749513 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus faecalis TX1322 525278.3 643886064 525278 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus faecalis TX1341 749514.3 2531839255 749514 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus faecalis TX1342 749515.3 2534681822 749515 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus faecalis TX1346 749516.3 2534681821 749516 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus faecalis TX2134 749518.3 648276641 749518 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus faecalis TX2137 749491.3 2529292855 749491 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus faecalis TX4244 749494.3 2529292856 749494 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus faecium PC4.1 791161.5 647000238 791161 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus faecium TX1330 525279.3 643886120 525279 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus saccharolyticus 30_1 742813.4 2513237314 742813 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae DraftEnterococcus sp. 7L76 657310.3 650377930 657310 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae FinishedErysipelotrichaceae bacterium 2_2_44A 457422.3 2513237345 457422 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftErysipelotrichaceae bacterium 21_3 658657.3 2513237332 658657 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftErysipelotrichaceae bacterium 3_1_53 658659.3 649989945 658659 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftErysipelotrichaceae bacterium 5_2_54FAA 552396.3 2562617161 552396 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftErysipelotrichaceae bacterium 6_1_45 469614.3 2531839268 469614 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftEscherichia coli 4_1_47FAA 1127356.4 2531839265 562 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 107-1 679207.4 648276649 679207 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 115-1 749537.3 648276650 749537 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 116-1 749538.3 648276651 749538 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 119-7 679206.4 648276652 679206 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 124-1 679205.4 648276653 679205 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 145-7 679204.3 649989948 679204 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 146-1 749540.3 648276654 749540 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 175-1 749544.3 648276655 749544 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 182-1 749545.3 648276656 749545 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 185-1 749546.3 648276657 749546 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 187-1 749547.3 648276658 749547 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 196-1 749548.3 648276659 749548 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 198-1 749549.3 648276660 749549 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 200-1 749550.3 648276661 749550 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 21-1 749527.3 648276662 749527 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 45-1 749528.3 648276663 749528 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 69-1 749531.3 648276664 749531 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 78-1 749532.3 648276665 749532 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 79-10 796392.4 2531839147 796392 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 84-1 749533.3 648276666 749533 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli MS 85-1 679202.3 2531839146 679202 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia coli O157:H7 str. Sakai 386585.9 2623620697 386585 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae FinishedEscherichia coli SE11 409438.11 643348551 409438 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae FinishedEscherichia coli SE15 431946.3 646862327 562 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae FinishedEscherichia coli str. K-12 substr. MG1655 511145.12 646311926 511145 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae FinishedEscherichia coli UTI89 364106.8 2623620781 364106 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae FinishedEscherichia sp. 1_1_43 457400.3 646206261 457400 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia sp. 3_2_53FAA 469598.5 646206259 469598 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEscherichia sp. 4_1_40B 457401.3 2562617151 457401 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftEubacterium biforme DSM 3989 518637.5 642979360 518637 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftEubacterium cylindroides T2-87 717960.3 650377935 717960 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae Finishedubacterium dolichum DSM 3991 428127.7 641380446 428127 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftEubacterium hallii DSM 3353 411469.3 643886203 411469 Bacteria Firmicutes Clostridia Clostridiales Eubacteriaceae DraftEubacterium rectale DSM 17629 657318.4 650377936 657318 Bacteria Firmicutes Clostridia Clostridiales Eubacteriaceae FinishedEubacterium rectale M104/1 657317.3 650377937 657317 Bacteria Firmicutes Clostridia Clostridiales Eubacteriaceae FinishedEubacterium siraeum 70/3 657319.3 650377938 657319 Bacteria Firmicutes Clostridia Clostridiales Eubacteriaceae FinishedEubacterium siraeum DSM 15702 428128.7 2519899684 428128 Bacteria Firmicutes Clostridia Clostridiales Eubacteriaceae DraftEubacterium siraeum V10Sc8a 717961.3 2565956546 717961 Bacteria Firmicutes Clostridia Clostridiales Eubacteriaceae FinishedEubacterium sp. 3_1_31 457402.3 2513237348 457402 Bacteria Firmicutes Clostridia Clostridiales Eubacteriaceae DraftEubacterium ventriosum ATCC 27560 411463.4 2623620332 411463 Bacteria Firmicutes Clostridia Clostridiales Eubacteriaceae DraftFaecalibacterium cf. prausnitzii KLE1255 748224.3 649989951 748224 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae DraftFaecalibacterium prausnitzii A2-165 411483.3 645951831 411483 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae DraftFaecalibacterium prausnitzii L2-6 718252.3 650377941 718252 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae FinishedFaecalibacterium prausnitzii M21/2 411485.1 641380420 411485 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae DraftFaecalibacterium prausnitzii SL3/3 657322.3 650377940 657322 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae FinishedFusobacterium gonidiaformans ATCC 25563 469615.3 645951804 469615 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium mortiferum ATCC 9817 469616.3 646206254 469616 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium necrophorum subsp. funduliforme 1_1_36S 742814.3 2513237330 742814 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium sp. 1_1_41FAA 469621.3 647533168 469621 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium sp. 11_3_2 457403.3 651324032 457403 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium sp. 12_1B 457404.3 2562617095 457404 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium sp. 2_1_31 469599.3 646206262 469599 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium sp. 21_1A 469601.3 2562617152 469601 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium sp. 3_1_27 469602.3 2563366552 469602 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae FinishedFusobacterium sp. 3_1_33 469603.3 2562617153 469603 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium sp. 3_1_36A2 469604.3 2554235746 469604 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae FinishedFusobacterium sp. 3_1_5R 469605.3 645951866 469605 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium sp. 4_1_13 469606.3 646206253 469606 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium sp. 7_1 457405.3 646206252 457405 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae FinishedFusobacterium sp. D11 556264.3 645058833 556264 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium sp. D12 556263.3 2562617180 556263 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium ulcerans ATCC 49185 469617.3 2562617154 469617 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftFusobacterium varium ATCC 27725 469618.3 646206275 469618 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae DraftGordonibacter pamelaeae 7-10-1-b 657308.3 650377943 657308 Bacteria Actinobacteria Actinobacteria Coriobacteriales Coriobacteriaceae FinishedHafnia alvei ATCC 51873 1002364.3 2513237377 1002364 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftHelicobacter bilis ATCC 43879 613026.4 2562617155 613026 Bacteria Proteobacteria Epsilonproteobacteria Campylobacterales Helicobacteraceae DraftHelicobacter canadensis MIT 98-5491 (Prj:30719) 537970.9 647533173 537970 Bacteria Proteobacteria Epsilonproteobacteria Campylobacterales Helicobacteraceae DraftHelicobacter cinaedi ATCC BAA-847 1206745.3 2554235363 1206745 Bacteria Proteobacteria Epsilonproteobacteria Campylobacterales Helicobacteraceae FinishedHelicobacter cinaedi CCUG 18818 537971.5 643886141 537971 Bacteria Proteobacteria Epsilonproteobacteria Campylobacterales Helicobacteraceae DraftHelicobacter pullorum MIT 98-5489 537972.5 643886218 537972 Bacteria Proteobacteria Epsilonproteobacteria Campylobacterales Helicobacteraceae DraftHelicobacter winghamensis ATCC BAA-430 556267.4 646206255 556267 Bacteria Proteobacteria Epsilonproteobacteria Campylobacterales Helicobacteraceae DraftHoldemania filiformis DSM 12042 545696.5 643886103 545696 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftKlebsiella pneumoniae 1162281 1037908.3 2563366764 1037908 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftKlebsiella pneumoniae subsp. pneumoniae WGLW5 1203547.3 2537561874 1203547 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftKlebsiella sp. 1_1_55 469608.3 647533174 469608 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftKlebsiella sp. 4_1_44FAA 665944.3 2513237265 665944 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftLachnospiraceae bacterium 1_1_57FAA 658081.3 651324046 658081 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftLachnospiraceae bacterium 1_4_56FAA 658655.3 651324047 658655 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftLachnospiraceae bacterium 2_1_46FAA 742723.3 2562617190 742723 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftLachnospiraceae bacterium 2_1_58FAA 658082.3 651324049 658082 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftLachnospiraceae bacterium 3_1_46FAA 665950.3 651324050 665950 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftLachnospiraceae bacterium 3_1_57FAA_CT1 658086.3 2562617188 658086 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftLachnospiraceae bacterium 4_1_37FAA 552395.3 651324052 552395 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftLachnospiraceae bacterium 5_1_57FAA 658085.3 651324053 658085 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftLachnospiraceae bacterium 5_1_63FAA 658089.3 649989957 658089 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftLachnospiraceae bacterium 6_1_63FAA 658083.3 651324054 658083 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftLachnospiraceae bacterium 7_1_58FAA 658087.3 2513237329 658087 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftLachnospiraceae bacterium 8_1_57FAA 665951.3 649989958 665951 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae Draftachnospiraceae bacterium 9_1_43BFAA 658088.3 651324055 658088 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftLactobacillus acidophilus ATCC 4796 525306.3 643886014 525306 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus acidophilus NCFM 272621.13 637000138 272621 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus amylolyticus DSM 11664 585524.3 647000263 585524 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus antri DSM 16041 525309.3 645951838 525309 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus brevis ATCC 367 387344.15 639633027 387344 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus brevis subsp. gravesensis ATCC 27305 525310.3 643886059 525310 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus buchneri ATCC 11577 525318.3 643886062 525318 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus casei ATCC 334 321967.11 639633028 321967 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus casei BL23 543734.4 642555134 543734 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus crispatus 125-2-CHN 575595.3 647533176 575595 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus delbrueckii subsp. bulgaricus ATCC 11842 390333.7 2623620931 390333 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365 321956.7 639633029 321956 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus fermentum ATCC 14931 525325.3 643886061 525325 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus fermentum IFO 3956 334390.5 641522633 334390 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus gasseri ATCC 33323 324831.13 639633030 324831 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus helveticus DPC 4571 405566.6 641228495 405566 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus helveticus DSM 20075 585520.4 645951865 585520 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus hilgardii ATCC 8290 525327.3 643886044 525327 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus johnsonii NCC 533 257314.6 2623620932 257314 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus paracasei subsp. paracasei 8700:2 537973.8 643886139 537973 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus paracasei subsp. paracasei ATCC 25302 525337.3 643886051 525337 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus plantarum 16 1327988.3 2563366583 1327988 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus plantarum subsp. plantarum ATCC 14917 525338.3 2562617181 525338 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus plantarum WCFS1 220668.9 2623620707 220668 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus reuteri CF48-3A 525341.3 2502171173 525341 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus reuteri DSM 20016 557436.4 not in IMG 557436 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus reuteri F275 299033.6 640427118 299033 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus reuteri MM2-3 585517.3 2502171171 585517 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus reuteri MM4-1A 548485.3 2502171170 548485 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus reuteri SD2112 491077.3 650716048 491077 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus rhamnosus ATCC 21052 1002365.5 2534681855 1002365 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus rhamnosus GG (Prj:40637) 568703.3 644736382 568703 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus rhamnosus LMS2-1 525361.3 643886127 525361 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus ruminis ATCC 25644 525362.3 2562617182 525362 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus sakei subsp. sakei 23K 314315.12 637000142 314315 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus salivarius ATCC 11741 525364.3 643886048 525364 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus salivarius UCC118 362948.14 2623620709 362948 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae FinishedLactobacillus sp. 7_1_47FAA 665945.3 2513237395 665945 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLactobacillus ultunensis DSM 16047 525365.3 643886047 525365 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftLeuconostoc mesenteroides subsp. cremoris ATCC 19254 586220.3 643886109 586220 Bacteria Firmicutes Bacilli Lactobacillales Leuconostocaceae DraftListeria grayi DSM 20601 525367.9 2562617157 525367 Bacteria Firmicutes Bacilli Bacillales Listeriaceae DraftListeria innocua ATCC 33091 1002366.3 2537561540 1002366 Bacteria Firmicutes Bacilli Bacillales Listeriaceae DraftMegamonas funiformis YIT 11815 742816.3 2513237399 742816 Bacteria Firmicutes Negativicutes Selenomonadales Veillonellaceae DraftMegamonas hypermegale ART12/1 657316.3 650377958 158847 Bacteria Firmicutes Negativicutes Selenomonadales Veillonellaceae FinishedMethanobrevibacter smithii ATCC 35061 420247.6 640427121 420247 Archaea Euryarchaeota Methanobacteria Methanobacteriales Methanobacteriaceae FinishedMethanosphaera stadtmanae DSM 3091 339860.6 2623620943 339860 Archaea Euryarchaeota Methanobacteria Methanobacteriales Methanobacteriaceae FinishedMitsuokella multacida DSM 20544 500635.8 2562617158 500635 Bacteria Firmicutes Negativicutes Selenomonadales Veillonellaceae DraftMollicutes bacterium D7 556270.3 646206251 556270 Bacteria Tenericutes Mollicutes unclassified Mollicutes unclassified Mollicutes DraftOdoribacter laneus YIT 12061 742817.3 2513237280 742817 Bacteria Bacteroidetes Bacteroidia Bacteroidales Porphyromonadaceae DraftOxalobacter formigenes HOxBLS 556268.6 646206250 556268 Bacteria Proteobacteria Betaproteobacteria Burkholderiales Oxalobacteraceae DraftOxalobacter formigenes OXCC13 556269.4 646206265 556269 Bacteria Proteobacteria Betaproteobacteria Burkholderiales Oxalobacteraceae DraftPaenibacillus sp. HGF5 908341.3 651324080 908341 Bacteria Firmicutes Bacilli Bacillales Paenibacillaceae DraftPaenibacillus sp. HGF7 944559.3 651324081 944559 Bacteria Firmicutes Bacilli Bacillales Paenibacillaceae DraftPaenibacillus sp. HGH0039 1078505.3 2541046994 1078505 Bacteria Firmicutes Bacilli Bacillales Paenibacillaceae DraftParabacteroides distasonis ATCC 8503 435591.13 2623620331 435591 Bacteria Bacteroidetes Bacteroidia Bacteroidales Porphyromonadaceae FinishedParabacteroides johnsonii DSM 18315 537006.5 642979358 537006 Bacteria Bacteroidetes Bacteroidia Bacteroidales Porphyromonadaceae Draftarabacteroides merdae ATCC 43184 411477.4 640963016 411477 Bacteria Bacteroidetes Bacteroidia Bacteroidales Porphyromonadaceae DraftParabacteroides sp. D13 563193.3 646206279 563193 Bacteria Bacteroidetes Bacteroidia Bacteroidales Porphyromonadaceae DraftParabacteroides sp. D25 658661.3 not in IMG 658661 Bacteria Bacteroidetes Bacteroidia Bacteroidales Porphyromonadaceae DraftParaprevotella clara YIT 11840 762968.3 2513237390 762968 Bacteria Bacteroidetes Bacteroidia Bacteroidales Prevotellaceae DraftParaprevotella xylaniphila YIT 11841 762982.3 651324083 762982 Bacteria Bacteroidetes Bacteroidia Bacteroidales Prevotellaceae DraftParvimonas micra ATCC 33270 411465.1 641380421 411465 Bacteria Firmicutes Clostridia Clostridiales Clostridiales Family XI. Incertae Sedis DraftPediococcus acidilactici 7_4 563194.3 647533194 563194 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftPediococcus acidilactici DSM 20284 862514.3 649989981 862514 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae DraftPhascolarctobacterium sp. YIT 12067 626939.3 649989983 626939 Bacteria Firmicutes Negativicutes Selenomonadales Acidaminococcaceae DraftPrevotella copri DSM 18205 537011.5 2562617166 537011 Bacteria Bacteroidetes Bacteroidia Bacteroidales Prevotellaceae DraftPrevotella oralis HGA0225 1203550.3 2541047008 1203550 Bacteria Bacteroidetes Bacteroidia Bacteroidales Prevotellaceae DraftPrevotella salivae DSM 15606 888832.3 649989989 888832 Bacteria Bacteroidetes Bacteroidia Bacteroidales Prevotellaceae DraftPropionibacterium sp. 5_U_42AFAA 450748.3 2513237388 450748 Bacteria Actinobacteria Actinobacteria Actinomycetales Propionibacteriaceae DraftPropionibacterium sp. HGH0353 1203571.3 2541047016 1203571 Bacteria Actinobacteria Actinobacteria Actinomycetales Propionibacteriaceae DraftProteus mirabilis WGLW6 1125694.3 2537561878 1125694 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftProteus penneri ATCC 35198 471881.3 643886117 471881 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftProvidencia alcalifaciens DSM 30120 520999.6 642979317 520999 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftProvidencia rettgeri DSM 1131 521000.6 2562617097 521000 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftProvidencia rustigianii DSM 4541 500637.6 642979318 500637 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftProvidencia stuartii ATCC 25827 471874.6 641736172 471874 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae DraftPseudomonas sp. 2_1_26 665948.3 2513237259 665948 Bacteria Proteobacteria Gammaproteobacteria Pseudomonadales Pseudomonadaceae DraftRalstonia sp. 5_7_47FAA 658664.3 649989994 658664 Bacteria Proteobacteria Betaproteobacteria Burkholderiales Burkholderiaceae DraftRoseburia intestinalis L1-82 536231.5 2562617159 536231 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftRoseburia intestinalis M50/1 657315.3 650377964 166486 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae FinishedRoseburia intestinalis XB6B4 718255.3 650377965 718255 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae FinishedRoseburia inulinivorans DSM 16841 622312.4 643886006 360807 Bacteria Firmicutes Clostridia Clostridiales Lachnospiraceae DraftRuminococcaceae bacterium D16 552398.3 2562617183 552398 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae DraftRuminococcus bromii L2-63 657321.5 650377966 657321 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae FinishedRuminococcus gnavus ATCC 29149 411470.6 640963057 411470 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae DraftRuminococcus lactaris ATCC 29176 471875.6 642791604 471875 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae DraftRuminococcus obeum A2-162 657314.3 650377967 657314 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae FinishedRuminococcus obeum ATCC 29174 411459.7 640963024 411459 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae DraftRuminococcus sp. 18P13 213810.4 650377969 213810 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae FinishedRuminococcus sp. 5_1_39BFAA 457412.4 2562617160 457412 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae DraftRuminococcus sp. SR1/5 657323.3 650377968 657323 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae FinishedRuminococcus torques ATCC 27756 411460.6 640963025 411460 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae DraftRuminococcus torques L2-14 657313.3 650377970 657313 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae FinishedSalmonella enterica subsp. enterica serovar Typhimurium str. LT2 99287.12 2623620649 99287 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae FinishedStaphylococcus sp. HGB0015 1078083.3 2541046995 1078083 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae DraftStreptococcus anginosus 1_2_62CV 742820.3 649990001 742820 Bacteria Firmicutes Bacilli Lactobacillales Streptococcaceae DraftStreptococcus equinus ATCC 9812 525379.3 649990006 525379 Bacteria Firmicutes Bacilli Lactobacillales Streptococcaceae DraftStreptococcus infantarius subsp. infantarius ATCC BAA-102 471872.6 641736171 471872 Bacteria Firmicutes Bacilli Lactobacillales Streptococcaceae DraftStreptococcus sp. 2_1_36FAA 469609.3 647533231 469609 Bacteria Firmicutes Bacilli Lactobacillales Streptococcaceae DraftStreptococcus sp. HPH0090 1203590.3 2541047013 1203590 Bacteria Firmicutes Bacilli Lactobacillales Streptococcaceae DraftStreptomyces sp. HGB0020 1078086.3 2541046998 1078086 Bacteria Actinobacteria Actinobacteria Actinomycetales Streptomycetaceae DraftStreptomyces sp. HPH0547 1203592.3 2541047017 1203592 Bacteria Actinobacteria Actinobacteria Actinomycetales Streptomycetaceae DraftSubdoligranulum sp. 4_3_54A2FAA 665956.3 2513237311 665956 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae DraftSubdoligranulum variabile DSM 15176 411471.5 2562617078 411471 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae DraftSuccinatimonas hippei YIT 12066 762983.3 649990019 762983 Bacteria Proteobacteria Gammaproteobacteria Aeromonadales Succinivibrionaceae DraftSutterella wadsworthensis 3_1_45B 742821.3 649990021 742821 Bacteria Proteobacteria Betaproteobacteria Burkholderiales Sutterellaceae DraftSutterella wadsworthensis HGA0223 1203554.3 2541047009 1203554 Bacteria Proteobacteria Betaproteobacteria Burkholderiales Sutterellaceae DraftTannerella sp. 6_1_58FAA_CT1 665949.3 2513237267 665949 Bacteria Bacteroidetes Bacteroidia Bacteroidales Porphyromonadaceae DraftTuricibacter sp. HGF1 910310.3 651324107 910310 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftTuricibacter sp. PC909 702450.3 647000330 702450 Bacteria Firmicutes Erysipelotrichi Erysipelotrichales Erysipelotrichaceae DraftVeillonella sp. 3_1_44 457416.3 647533241 457416 Bacteria Firmicutes Negativicutes Selenomonadales Veillonellaceae DraftVeillonella sp. 6_1_27 450749.3 647533242 450749 Bacteria Firmicutes Negativicutes Selenomonadales Veillonellaceae DraftWeissella paramesenteroides ATCC 33313 585506.3 645058793 585506 Bacteria Firmicutes Bacilli Lactobacillales Leuconostocaceae Draftokenella regensburgei ATCC 43003 1002368.3 2534682241 1002368 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Draft tilized monosaccharide (No of Supplementary table) Abbreviation Function
N-Acetylgalactosamine (S4) AaeL Exported apha-N-acetylgalactosaminidase (EC 3.2.1.49)Galactose (S7) Aga27 Alpha-galactosidase (EC 3.2.1.22), GH27 familyGalactose (S7) Aga36 Alpha-galactosidase (EC 3.2.1.22), GH36 familyGalactose (S7) Aga4 Alpha-galactosidase (EC 3.2.1.22), GH4 familyGalactose (S7) Aga43 Alpha-galactosidase (EC 3.2.1.22), GH43 familyN-Acetylgalactosamine (S4) AgaA N-acetylgalactosamine-6-phosphate deacetylase (EC 3.5.1.80) N-Acetylgalactosamine (S4) AgaI Galactosamine-6-phosphate isomerase (galactosamine-6-phosphate deaminase) (EC 5.3.1.-) N-Acetylgalactosamine (S4) AgaK N-acetylgalactosamine kinase, ROK-type (EC 2.7.1.157) N-Acetylgalactosamine (S4) AgaPTS PTS system, N-acetylgalactosamine-specificN-Acetylgalactosamine (S4) AgaS Galactosamine-6-phosphate isomerase (EC 5.3.1.-) N-Acetylgalactosamine (S4), Galactose (S7) AgaY / LacD Tagatose 1,6-bisphosphate aldolase (EC 4.1.2.40)N-Acetylgalactosamine (S4), Galactose (S7) AgaZ / LacC Tagatose-6-phosphate kinase (EC 2.7.1.144)Fucose (S3) AlfA29 Alpha-L-fucosidase (EC 3.2.1.51), GH29 familyFucose (S3) AlfA42 Alpha-L-fucosidase (EC 3.2.1.51), GH42 family Fucose (S3) AlfA95 Alpha-L-fucosidase (EC 3.2.1.51), GH95 family N-Acetylglucsoamine (S5) Ang Alpha-N-acetylglucosaminidase (EC 3.2.1.50)N-Acetylgalactosamine (S4) Apr101 Endo-alpha-N-acetylgalactosaminidase (EC 3.2.1.97), GH101 familyN-Acetylgalactosamine (S4) Apr129 Endo-alpha-N-acetylgalactosaminidase (EC 3.2.1.97), GH129 familyGalactose (S7) Bga2 Beta-galactosidase (EC 3.2.1.23), GH2 familyGalactose (S7) Bga35 Beta-galactosidase (EC 3.2.1.23), GH35 familyGalactose (S7) Bga42 Beta-galactosidase (EC 3.2.1.23), GH42 familyN-Acetylgalactosamine (S4), N-Acetylglucosamine (S5) Bha20 Beta-hexosaminidase (EC 3.2.1.52), GH20 family N-Acetylgalactosamine (S4), N-Acetylglucosamine (S5) Bha3 Beta-hexosaminidase (EC 3.2.1.52), GH3 family Fucose (S3) FclA1 L-fuco-beta-pyranose dehydrogenase (EC 1.1.1.122)
Fucose (S3) FclA2 L-fuco-beta-pyranose dehydrogenase, type 2 (EC 1.1.1.122)
Fucose (S3) FclB L-fuconolactone hydrolase Fucose (S3) FclC L-fuconate dehydratase (EC 4.2.1.68) Fucose (S3) FclD1 2-keto-3-deoxy-L-fuconate dehydrogenase
Fucose (S3) FclD2 2-keto-3-deoxy-L-fuconate dehydrogenase, type 2, putative
Fucose (S3) FclE1 2,4-diketo-3-deoxy-L-fuconate hydrolase
Fucose (S3) FclE2 Predicted 2,4-diketo-3-deoxy-L-fuconate hydrolase, DHDPS family
Fucose (S3) FucA1 L-fuculose phosphate aldolase (EC 4.1.2.17)
Fucose (S3) FucABC Fucose ABC transport system
Fucose (S3) FucI L-fucose isomerase (EC 5.3.1.25) Fucose (S3) FucK L-fuculokinase (EC 2.7.1.51) Fucose (S3) FucP1 Fucose permease
Fucose (S3) FucP2 Fucose transporter, Sugar_tr family, predicted
Fucose (S3) FucU1 L-fucose mutarotase (EC 5.1.3.29) Fucose (S3) FucU2 L-fucose mutarotase, type 2 (EC 5.1.3.n2) Galactose (S7) GalE UDP-glucose 4-epimerase (EC 5.1.3.2)Galactose (S7) GalK Galactokinase (EC 2.7.1.6)Galactose (S7) GalM Aldose 1-epimerase (EC 5.1.3.3)Galactose (S7) GalP1 Predicted galactose transporter, LysE superfamilyGalactose (S7) GalP2 Lactose and galactose permease, GPH translocator family
Galactose (S7) GalP3 Predicted sodium-dependent galactose transporter
Galactose (S7) GalPTS PTS system, galactose-specificGalactose (S7) GalT Galactose-1-phosphate uridylyltransferase (EC 2.7.7.10)Galactose (S7) GalU UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9)
Galactose (S7) GalY Predicted galactose-1-phosphate uridylyltransferase (EC 2.7.7.10)
N-Acetylgalactosamine (S4) GamPTS PTS system, galactosamine-specificN-Acetylgalactosamine (S4), N-Acetylglucsoamine (S5), Galactose (S7) GnbG Phospho-beta-Galactosidase, specific for lacto-N-biose and galacto-N-biose, GH35 family
Table S2.
Functions of all the genes for utilization of mucin glycans, analyzed in this work. Functions predicted in this work are marked by bold blue font. For the protein sequences see the file Sequences S1 in the Supplementary materials. -Acetylgalactosamine (S4), N-Acetylglucsoamine (S5), Galactose (S7) GnbPTS PTS system, galacto-N-biose, lacto-N-biose, and N-acetylgalactosamine-specificGalactose (S7) LacAB Galactose-6-phosphate isomerase, (EC 5.3.1.26)N-Acetylgalactosamine (S4), N-Acetylglucsoamine (S5), Galactose (S7) LnbABC Lacto-N-biose / Galacto-N-biose ABC transporterN-Acetylgalactosamine (S4), N-Acetylglucsoamine (S5), Galactose (S7) LnbP Lacto-N-biose / Galacto-N-biose phosphorylase (EC 2.4.1.211)Galactose (S7) MglABC Galactose/methyl galactoside ABC transport systemN-Acetylglucsoamine (S5), N-Acetylneuraminic acid (S6) NagA N-acetylglucosamine-6-phosphate deacetylase (EC 3.5.1.25)N-Acetylglucsoamine (S5), N-Acetylneuraminic acid (S6) NagB1 Glucosamine-6-phosphate deaminase [isomerizing], alternative (EC 3.5.99.6)N-Acetylglucsoamine (S5), N-Acetylneuraminic acid (S6) NagB2 Glucosamine-6-phosphate deaminase (EC 3.5.99.6)N-Acetylglucsoamine (S5) NagE PTS system, N-acetylglucosamine-specificN-Acetylglucsoamine (S5), N-Acetylneuraminic acid (S6) NagK1 N-acetylglucosamine kinase of eukaryotic type (EC 2.7.1.59)N-Acetylglucsoamine (S5), N-Acetylneuraminic acid (S6) NagK2 Predicted N-acetyl-glucosamine kinase 2, ROK family (EC 2.7.1.59)N-Acetylglucsoamine (S5) NagP N-acetylglucosamine permease, MFS familyN-Acetylneuraminic acid (S6) NanA N-acetylneuraminate lyase (EC 4.1.3.3)N-Acetylneuraminic acid (S6) NanABC Predicted N-acetylneuraminate ABC transporterN-Acetylneuraminic acid (S6) NanABC2 Predicted N-acetylneuraminate ABC transporterN-Acetylneuraminic acid (S6) NanE N-acetylmannosamine-6-phosphate 2-epimerase (EC 5.1.3.9)N-Acetylneuraminic acid (S6) NanE-II N-acetylglucosamine 2-epimerase (EC 5.1.3.8)N-Acetylneuraminic acid (S6) NanK N-acetylmannosamine kinase (EC 2.7.1.60)N-Acetylneuraminic acid (S6) NanP Sialidase precursor (EC 3.2.1.18)N-Acetylneuraminic acid (S6) NanT Sialic acid transporter (permease)N-Acetylneuraminic acid (S6) NanX Predicted sialic acid transporterN-Acetylneuraminic acid (S6) NeuT Predicted N-acetylneuraminate TRAP-type transport system
N-Acetylglucsoamine (S5) NgcABCD Predicted N-acetylglucosamine ABC transporter
N-Acetylglucsoamine (S5) NgcEFG N-acetyl-D-glucosamine ABC transporter somerase Kinase Aldolase Hydrolase I DehydrataseFucI FucK FucA FclA1 FclA2 FclB FclC FclD1 FclD2 FclE1 FclE2 FucU1 FucU2 FucP1 FucP2 AlfA29 AlfA42 AlfA95
Abiotrophia defectiva ATCC 49176 (592010.4) 2230 2229 2231 2235 2232, 2233, 2234 1484, 1611 Acidaminococcus sp. D21 (563191.3) Acidaminococcus sp. HPA0509 (1203555.3) Acinetobacter junii SH205 (575587.3) Actinomyces odontolyticus ATCC 17982 (411466.7) 1082 1083 1085 1079, 1080, 1081 396, 1383, 1505, 1897 L-fuculose phosphate aldolase is not foundActinomyces sp. HPA0247 (1203556.3) 1579 1578 1576 1580, 1581, 1582 424, 1050, 1900 L-fuculose phosphate aldolase is not foundAkkermansia muciniphila ATCC BAA-835 (349741.6) 2082 2080 2079 2403 2083 13, 172, 446, 962 Alistipes indistinctus YIT 12060 (742725.3) 339, 458, 861, 1048, 1997 Alistipes shahii WAL 8301 (717959.3) 2434 Anaerobaculum hydrogeniformans ATCC BAA-1850 (592015.5) Anaerococcus hydrogenalis DSM 7454 (561177.4) Anaerofustis stercorihominis DSM 17244 (445971.6) Anaerostipes caccae DSM 14662 (411490.6) Anaerostipes hadrus DSM 3319 (649757.3) Anaerostipes sp. 3_2_56FAA (665937.3) Anaerotruncus colihominis DSM 17241 (445972.6) 2663 2662, 2666 2664 L-fuculose phosphate aldolase is not foundBacillus smithii 7_3_47FAA (665952.3) Bacillus sp. 7_6_55CFAA_CT2 (665957.3) Bacillus subtilis subsp. subtilis str. 168 (224308.113) Bacteroides caccae ATCC 43185 (411901.7) 2065 2063 2064 2062 2061 82, 547, 1156, 1241, 1249, 2489, 2536, 2669, 3008, 3119, 3380, 3585 Bacteroides capillosus ATCC 29799 (411467.6) Bacteroides cellulosilyticus DSM 14838 (537012.5) 3622, 3623 3620 3621 3619 3618 1104, 1113, 1116, 1186, 1942, 1945, 2120, 2214, 4949 Bacteroides clarus YIT 12056 (762984.3) 2867 Bacteroides coprocola DSM 17136 (470145.6) 3113 2411 985, 1296, 1610 Bacteroides coprophilus DSM 18228 (547042.5) 3061 3058 3059 960 486, 3057 603, 1104, 1751, 1769, 1843, 1846, 1909, 2018, 2225, 2427, 2618, 3016, 3050, 3179
Hydrolases Problems (if any)Dehydrogenase II Permease ABC transporter Alfa-L-fucosidase
Table S3.
Genes involved in depletion and utilization of fucose. The PubSEED identifiers are shown. For details on analyzed organisms see Table S1, for details on gene functions see Table S2.
Organism (PubSEED ID) Catabolic Pahtway I TransportCatabolic Pathway II MutarotaseDehydrogenase I Hydrolase II acteroides dorei DSM 17855 (483217.6) 1641 1640 295, 460, 737, 1090, 1389, 1396, 1399, 1496, 1914, 2938 Bacteroides eggerthii 1_2_48FAA (665953.3) 1089 543, 1869, 1871, 1872, 1908 Bacteroides eggerthii DSM 20697 (483216.6) 2986 135 129, 134, 202, 239, 241, 1925 Bacteroides finegoldii DSM 17565 (483215.6) 1656 1654 1655 1653 808, 3068 Bacteroides fluxus YIT 12057 (763034.3) 758 755 756 754 100, 1084, 2884, 3259 Bacteroides fragilis 3_1_12 (457424.5) 2683 2680 2681 1557 2679 946, 1785, 1791, 3290, 3430, 3477, 3577, 4522 Bacteroides fragilis 638R (862962.3) 269 272 271 2669 273 29, 733, 882, 888, 3196, 3332, 3386, 3749 4535 Bacteroides fragilis NCTC 9343 (272559.17) 207 210 209 2619 211 29, 651, 792, 798, 1768, 3117, 3246, 3294, 3662 4376 Bacteroides fragilis YCH46 (295405.11) 283 286 285 2497 287 70, 747, 885, 891, 1671, 3113, 3240, 3287, 3648 4297 Bacteroides intestinalis DSM 17393 (471870.8) 1809 1811 1810 872, 1812 1813 223, 225, 787, 869, 2604, 3055 Bacteroides ovatus 3_8_47FAA (665954.3) 1475 1477 1476 1478 1479 2122, 4662, 4701 Bacteroides ovatus ATCC 8483 (411476.11) 3281 3283 3282 3284 3285 473, 1693, 3089, 3716, 3823, 3868, 3913 Bacteroides ovatus SD CC 2a (702444.3) 675 677 676 678 679 1611, 1861, 3887, 4703 Bacteroides ovatus SD CMC 3f (702443.3) 448 450 449 451 452 4198, 4578, 4613 Bacteroides pectinophilus ATCC 43243 (483218.5) Bacteroides plebeius DSM 17135 (484018.6) 2585 2583 2584 642, 1522, 1648 2582 35, 554, 1508, 1523, 1559, 1666, 1803, 2180, 3304 acteroides sp. 1_1_14 (469585.3) 4082 4079, 4080 4081 3598, 4078 4077 645, 1387, 1732, 1902, 2593, 3202, 3597, 3730, 4289 Bacteroides sp. 1_1_30 (457387.3) 747 749 748 750 751 2347, 2348, 4204, 4241, 5185 Bacteroides sp. 1_1_6 (469586.3) 1092 1094 1093 1095 1096 1323, 2469, 3466, 3597, 3883, 4088, 4248, 4803 Bacteroides sp. 2_1_16 (469587.3) 2451 2454 2453 1110 2455 1994, 2136, 2142, 2280, 2841, 2888, 3014, 3716 3941 Bacteroides sp. 2_1_22 (469588.3) 1567 1565 1566 1564 1563 754, 4210, 4244, 4549 Bacteroides sp. 2_1_33B (469589.3) 3830 3829 3790 Bacteroides sp. 2_1_56FAA (665938.3) 263 266 265 2813 267 86, 803, 954, 960, 1919, 3228, 3779, 3992, 4041 4349 Bacteroides sp. 2_1_7 (457388.5) 4130 4129 3810 Bacteroides sp. 2_2_4 (469590.5) 3688 3686 3687 3685 3684 145, 146, 147, 281, 317, 1316, 1318, 4737 Bacteroides sp. 20_3 (469591.4) 1471 1472 4663 Bacteroides sp. 3_1_19 (469592.4) 3940 4084 Bacteroides sp. 3_1_23 (457390.3) 4801 4803 4802 4804 4805 1587, 2978, 4916, 4951 Bacteroides sp. 3_1_33FAA (457391.3) 3286 1294, 1314 3285 1204, 1317, 1629, 1813, 2059, 3530, 3670, 3739, 3741 Bacteroides sp. 3_1_40A (469593.3) 635 3600, 3671 636 13, 403, 779, 1926, 1942, 3475, 3597, 3772, 4743 L-fuculokinase and L-fuculose phosphate aldolase are not foundBacteroides sp. 3_2_5 (457392.3) 916 913 914 4025 912 303, 309, 460, 1088, 1965, 2096, 2142, 3080 3345 Bacteroides sp. 4_1_36 (457393.3) 253 250, 256 251 770, 1511 L-fuculose phosphate aldolase is not foundacteroides sp. 4_3_47FAA (457394.3) 70 1598, 1620 71 156, 498, 852, 1505, 1623, 1708, 2741, 2787, 2800, 3236, 4184 L-fuculokinase and L-fuculose phosphate aldolase are not foundBacteroides sp. 9_1_42FAA (457395.6) 3147 53, 73 3146 76, 331, 586, 850, 3379, 3414, 3718, 3722, 3993 L-fuculokinase and L-fuculose phosphate aldolase are not foundBacteroides sp. D1 (556258.5) 3800 3802 3801 3803 3804 605, 3644, 3678, 4452 Bacteroides sp. D2 (556259.3) 4995 4993 4994 4992 4991 3077, 3113, 3267 Bacteroides sp. D20 (585543.3) 2023 2020 2021 15, 1520 L-fuculose phosphate aldolase is not foundBacteroides sp. D22 (585544.3) 4458 4460 4459 4461 4462 1170, 1205, 3485 Bacteroides sp. HPS0048 (1078089.3) 707 709 708 710 711 3184 Bacteroides stercoris ATCC 43183 (449673.7) 1321, 1462, 2247, 2811 Bacteroides thetaiotaomicron VPI-5482 (226186.12) 1300 1302 1301 1303, 3726 1304 1663, 1891, 2256, 3020, 3725, 3861, 4021, 4203, 4792 Bacteroides uniformis ATCC 8492 (411479.10) 517 514, 521 515 1323, 3291 L-fuculose phosphate aldolase is not foundBacteroides vulgatus ATCC 8482 (435590.9) 1430 197, 220 1429 106, 223, 550, 573, 574, 1080, 1296, 1812, 2515, 4161 L-fuculokinase and L-fuculose phosphate aldolase are not foundBacteroides vulgatus PC510 (702446.3) 138 2269, 2292 137 707, 1759, 1901, 1975, 2265, 2377, 2594, 3857 L-fuculokinase and L-fuculose phosphate aldolase are not foundBacteroides xylanisolvens SD CC 1b (702447.3) 4201 4203 4202 4204 4205 244, 279, 1159, 2102 Bacteroides xylanisolvens XB1A (657309.4) 3141 3139 3140 3138 3137 225, 261, 784, 3616 Barnesiella intestinihominis YIT 11860 (742726.3) 53, 315 Bifidobacterium adolescentis L2-32 (411481.5) Bifidobacterium angulatum DSM 20098 = JCM 7096 (518635.7) Bifidobacterium animalis subsp. lactis AD011 (442563.4) Bifidobacterium bifidum NCIMB 41171 (398513.5) 903 901 L-fuconolactone hydrolase, 2-keto-3-deoxy-L-fuconate dehydrogenase, 2,4-diketo-3-deoxy-L-fuconate hydrolase, and transporters are not foundBifidobacterium breve DSM 20213 = JCM 1192 (518634.7) 1312, 1715 1314, 1716 1310, 1714 1312, 1715 1315, 1717 1313 Bifidobacterium breve HPH0326 (1203540.3) 1250, 1369 1248, 1370 1252, 1368 1250, 1369 1247, 1371 1249 ifidobacterium catenulatum DSM 16992 = JCM 1194 (566552.6) Bifidobacterium dentium ATCC 27678 (473819.7) 802 Bifidobacterium gallicum DSM 20093 (561180.4) Bifidobacterium longum DJO10A (Prj:321) (205913.11) Bifidobacterium longum NCC2705 (206672.9) Bifidobacterium longum subsp. infantis 157F (565040.3) Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222 (391904.8) 2384, 2418 2382 354, 2385, 2419 2384, 2418 2417, 2425 2381, 2416 355, 2383 351, 352, 353, 2277, 2278, 2279, 2421, 2422, 2423 253, 439, 2415 295, 356 Bifidobacterium longum subsp. infantis ATCC 55813 (548480.3) Bifidobacterium longum subsp. infantis CCUG 52486 (537937.5) Bifidobacterium longum subsp. longum 2-2B (1161745.3) Bifidobacterium longum subsp. longum 44B (1161743.3) Bifidobacterium longum subsp. longum F8 (722911.3) Bifidobacterium longum subsp. longum JCM 1217 (565042.3) Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 (547043.8) 821 820 822 821 819 823, 824, 825 Bifidobacterium sp. 12_1_47BFAA (469594.3) Bilophila wadsworthia 3_1_6 (563192.3) 3386 Blautia hansenii DSM 20583 (537007.6) 2138 2574 Blautia hydrogenotrophica DSM 10507 (476272.5) 335, 2914 2911, 2915, 2916 2912 2913 Bryantella formatexigens DSM 14469 (478749.5) Burkholderiales bacterium 1_1_47 (469610.4) butyrate-producing bacterium SM4/1 (245012.3) butyrate-producing bacterium SS3/4 (245014.3) butyrate-producing bacterium SSC/2 (245018.3) Butyricicoccus pullicaecorum 1.2 (1203606.4) Butyrivibrio crossotus DSM 2876 (511680.4) Butyrivibrio fibrisolvens 16/4 (657324.3) Campylobacter coli JV20 (864566.3) Campylobacter upsaliensis JV21 (888826.3) Catenibacterium mitsuokai DSM 15897 (451640.5) Cedecea davisae DSM 4568 (566551.4) Citrobacter freundii 4_7_47CFAA (742730.3) 269 268 271 267 270 Citrobacter sp. 30_2 (469595.3) 2646 2647 2644 2648 2645 Citrobacter youngae ATCC 29220 (500640.5) 4208 4209 4206 4210 Clostridiales bacterium 1_7_47FAA (457421.5) 2905 2906 2907 2908 2909, 2910, 2911 Clostridium asparagiforme DSM 15981 (518636.5) Clostridium bartlettii DSM 16795 (445973.7) Clostridium bolteae 90A5 (997893.5) 5752 1153, 5753 5754 5755 5756, 5757, 5758 Clostridium bolteae ATCC BAA-613 (411902.9) 1944 1943, 3140 1942 1941 1938, 1939, 1940 Clostridium celatum DSM 1785 (545697.3) 299 300, 301 303 570 567, 568, 569 97, 2000 Clostridium cf. saccharolyticum K10 (717608.3) Clostridium citroniae WAL-17108 (742733.3) Clostridium clostridioforme 2_1_49FAA (742735.4) 342 343 344 345 346, 347, 348 Clostridium difficile CD196 (645462.3) Clostridium difficile NAP07 (525258.3) Clostridium difficile NAP08 (525259.3) Clostridium hathewayi WAL-18680 (742737.3) Clostridium hiranonis DSM 13275 (500633.7) Clostridium hylemonae DSM 15053 (553973.6) 1347, 1356 1352 1348, 1358 Clostridium leptum DSM 753 (428125.8) 869 1986 1987 749, 750, 751 371, 2627, 2637 745, 2447 Clostridium methylpentosum DSM 5476 (537013.3) 1311, 2438 1310 1307, 1308, 1309 874, 1258, 1261, 2299, 2382, 2383 422, 423, 452, 454, 1356, 1361 L-fuculokinase and L-fuculose phosphate aldolase are not foundlostridium nexile DSM 1787 (500632.7) 3649, 3652 2103, 2104, 2171 Clostridium perfringens WAL-14572 (742739.3) 499 500 502 501 503 1542 1541 Clostridium ramosum DSM 1402 (445974.6) Clostridium scindens ATCC 35704 (411468.9) 166 199 156, 158, 159, 196, 197, 198 155 L-fuculokinase and L-fuculose phosphate aldolase are not foundClostridium sp. 7_2_43FAA (457396.3) Clostridium sp. 7_3_54FAA (665940.3) Clostridium sp. D5 (556261.3) 2859 33, 394, 2858 30, 2796 1248, 2860 1693, 1694, 1695, 1696, 2848, 2850, 2851, 2852, 2853, 3603, 3604, 3605, 3709, 3710, 3711 129, 961, 2609, 3511, 3636, 3714, 3874 665, 3606 175 Clostridium sp. HGF2 (908340.3) Clostridium sp. L2-50 (411489.7) Clostridium sp. M62/1 (411486.3) Clostridium sp. SS2/1 (411484.7) Clostridium spiroforme DSM 1552 (428126.7) 1021 Clostridium sporogenes ATCC 15579 (471871.7) Clostridium symbiosum WAL-14163 (742740.3) Clostridium symbiosum WAL-14673 (742741.3) Collinsella aerofaciens ATCC 25986 (411903.6) Collinsella intestinalis DSM 13280 (521003.7) Collinsella stercoris DSM 13279 (445975.6) 933 Collinsella tanakaei YIT 12063 (742742.3) 921 923 920 922 Coprobacillus sp. 29_1 (469596.3) Coprobacillus sp. 3_3_56FAA (665941.3) Coprobacillus sp. 8_2_54BFAA (469597.4) Coprobacillus sp. D6 (556262.3) Coprococcus catus GD/7 (717962.3) Coprococcus comes ATCC 27758 (470146.3) Coprococcus eutactus ATCC 27759 (411474.6) Coprococcus sp. ART55/1 (751585.3) Coprococcus sp. HPP0048 (1078091.3) 911 910 909 914, 915, 916, 917 913, 1543 Coprococcus sp. HPP0074 (1078090.3) 886 887 888 880, 881, 882, 883 38, 884 Corynebacterium ammoniagenes DSM 20306 (649754.3) 1958 2488 1956 1958 1960 1954 1955 Corynebacterium sp. HFH0082 (1078764.3) Dermabacter sp. HFH0086 (1203568.3) Desulfitobacterium hafniense DP7 (537010.4) Desulfovibrio piger ATCC 29098 (411464.8) Desulfovibrio sp. 3_1_syn3 (457398.5) Dorea formicigenerans 4_6_53AFAA (742765.5) 3265 Dorea formicigenerans ATCC 27755 (411461.4) Dorea longicatena DSM 13814 (411462.6) Dysgonomonas gadei ATCC BAA-286 (742766.3) 3451 3454 3453 3452 549, 3282, 3804 Dysgonomonas mossii DSM 22836 (742767.3) 792 794 793 795 337, 342, 1513, 1867 Edwardsiella tarda ATCC 23685 (500638.3) 183 182 185 181 184 Eggerthella sp. 1_3_56FAA (665943.3) Eggerthella sp. HGA1 (910311.3) Enterobacter cancerogenus ATCC 35316 (500639.8) 2894 2890, 2895 2888 2896 2891, 2892, 2893 Enterobacter cloacae subsp. cloacae NCTC 9394 (718254.4) 1504 1503, 1508 1510 1502 1505, 1506, 1507 Enterobacteriaceae bacterium 9_2_54FAA (469613.3) 2798 2797 2800 2796 2799 Enterococcus faecalis PC1.1 (702448.3) Enterococcus faecalis TX0104 (491074.3) Enterococcus faecalis TX1302 (749513.3) Enterococcus faecalis TX1322 (525278.3) Enterococcus faecalis TX1341 (749514.3) Enterococcus faecalis TX1342 (749515.3) Enterococcus faecalis TX1346 (749516.3) Enterococcus faecalis TX2134 (749518.3) Enterococcus faecalis TX2137 (749491.3) Enterococcus faecalis TX4244 (749494.3) Enterococcus faecium PC4.1 (791161.5) Enterococcus faecium TX1330 (525279.3) nterococcus saccharolyticus 30_1 (742813.4) 386, 2522, 2526 Enterococcus sp. 7L76 (657310.3) Erysipelotrichaceae bacterium 2_2_44A (457422.3) Erysipelotrichaceae bacterium 21_3 (658657.3) Erysipelotrichaceae bacterium 3_1_53 (658659.3) Erysipelotrichaceae bacterium 5_2_54FAA (552396.3) Erysipelotrichaceae bacterium 6_1_45 (469614.3) Escherichia coli 4_1_47FAA (1127356.4) 1365 1366 1362 1367 1364 Escherichia coli MS 107-1 (679207.4) 782 781 784 780 783 Escherichia coli MS 115-1 (749537.3) 3801 3800 3804 3799 3802 Escherichia coli MS 116-1 (749538.3) 3708 3709 3706 3710 3707 Escherichia coli MS 119-7 (679206.4) 382 383 380 384 381 Escherichia coli MS 124-1 (679205.4) 3056 3057 3054 3058 3055 Escherichia coli MS 145-7 (679204.3) 2409 2410 2407 2411 2408 Escherichia coli MS 146-1 (749540.3) 1802 1801 1804 1800 1803 Escherichia coli MS 175-1 (749544.3) Escherichia coli MS 182-1 (749545.3) 1361 1360 1363 1359 1362 Escherichia coli MS 185-1 (749546.3) 3109 3108 3112 3107 3110 Escherichia coli MS 187-1 (749547.3) 3378 3374, 3379 3372 3380 3375, 3376, 3377 Escherichia coli MS 196-1 (749548.3) 2867 2866 2869 2865 2868 Escherichia coli MS 198-1 (749549.3) 2180 2179 2183 2178 2181 Escherichia coli MS 200-1 (749550.3) 768 769 765 770 767 Escherichia coli MS 21-1 (749527.3) 1203 1202 1206 1201 1204 Escherichia coli MS 45-1 (749528.3) 1770 1771 1767 1772 1769 Escherichia coli MS 69-1 (749531.3) 5232 5231 5235 5230 5233 Escherichia coli MS 78-1 (749532.3) 754 755 752 756 753 Escherichia coli MS 79-10 (796392.4) 1561 1562 1559 1563 1560 Escherichia coli MS 84-1 (749533.3) 4099 4098 4101 4097 4100 Escherichia coli MS 85-1 (679202.3) 1194 1195 1192 1196 1193 Escherichia coli O157:H7 str. Sakai (386585.9) 3828 3829 3826 3830 3827 Escherichia coli SE11 (409438.11) 3234 3235 3232 3236 3233 Escherichia coli SE15 (431946.3) 2718 2719 2715, 4404 2720 2717 Escherichia coli str. K-12 substr. MG1655 (511145.12) 2902 2903 2900 2904 2901 Escherichia coli UTI89 (364106.8) 3153 3154 3150 3155 3152 Escherichia sp. 1_1_43 (457400.3) 794 795 792 796 793 Escherichia sp. 3_2_53FAA (469598.5) 1725 1724 1728, 3622 1723 1726 Escherichia sp. 4_1_40B (457401.3) 2744 2743 2746 2742 2745 Eubacterium biforme DSM 3989 (518637.5) 1701 Eubacterium cylindroides T2-87 (717960.3) Eubacterium dolichum DSM 3991 (428127.7) Eubacterium hallii DSM 3353 (411469.3) Eubacterium rectale DSM 17629 (657318.4) Eubacterium rectale M104/1 (657317.3) Eubacterium siraeum 70/3 (657319.3) 1103 1102 1100 1101 1111 Eubacterium siraeum DSM 15702 (428128.7) 1218 1219 1221 1220 2078 1212 Eubacterium siraeum V10Sc8a (717961.3) 2292 2293 2295 2294 2286 Eubacterium sp. 3_1_31 (457402.3) Eubacterium ventriosum ATCC 27560 (411463.4) Faecalibacterium cf. prausnitzii KLE1255 (748224.3) Faecalibacterium prausnitzii A2-165 (411483.3) Faecalibacterium prausnitzii L2-6 (718252.3) Faecalibacterium prausnitzii M21/2 (411485.10) Faecalibacterium prausnitzii SL3/3 (657322.3) Fusobacterium gonidiaformans ATCC 25563 (469615.3) Fusobacterium mortiferum ATCC 9817 (469616.3) Fusobacterium necrophorum subsp. funduliforme 1_1_36S (742814.3) Fusobacterium sp. 1_1_41FAA (469621.3) Fusobacterium sp. 11_3_2 (457403.3) Fusobacterium sp. 12_1B (457404.3) Fusobacterium sp. 2_1_31 (469599.3) Fusobacterium sp. 21_1A (469601.3) Fusobacterium sp. 3_1_27 (469602.3) Fusobacterium sp. 3_1_33 (469603.3) Fusobacterium sp. 3_1_36A2 (469604.3) Fusobacterium sp. 3_1_5R (469605.3) Fusobacterium sp. 4_1_13 (469606.3) Fusobacterium sp. 7_1 (457405.3) Fusobacterium sp. D11 (556264.3) Fusobacterium sp. D12 (556263.3) Fusobacterium ulcerans ATCC 49185 (469617.3) Fusobacterium varium ATCC 27725 (469618.3) 792 791 793 788 789 ordonibacter pamelaeae 7-10-1-b (657308.3) Hafnia alvei ATCC 51873 (1002364.3) 2555 2556 2553 2557 2554 Helicobacter bilis ATCC 43879 (613026.4) Helicobacter canadensis MIT 98-5491 (Prj:30719) (537970.9) Helicobacter cinaedi ATCC BAA-847 (1206745.3) Helicobacter cinaedi CCUG 18818 (537971.5) Helicobacter pullorum MIT 98-5489 (537972.5) Helicobacter winghamensis ATCC BAA-430 (556267.4) Holdemania filiformis DSM 12042 (545696.5) 1989 1988 1987 749, 2038 Klebsiella pneumoniae 1162281 (1037908.3) 632 631 634 630 633 Klebsiella pneumoniae subsp. pneumoniae WGLW5 (1203547.3) 3406 3407 3404 3408 3405 Klebsiella sp. 1_1_55 (469608.3) 3083 3085 3081 3086 3082 Klebsiella sp. 4_1_44FAA (665944.3) 2325 2326, 2327 2323 2328 2324 Lachnospiraceae bacterium 1_1_57FAA (658081.3) 1329, 1582 Lachnospiraceae bacterium 1_4_56FAA (658655.3) 2064 2065 2063 2069, 2070, 2071, 2072 1116, 2725 L-fuculose phosphate aldolase is not foundLachnospiraceae bacterium 2_1_46FAA (742723.3) 378 1785, 1909, 1910 Lachnospiraceae bacterium 2_1_58FAA (658082.3) 1907 1908 1906 532, 533, 534, 816, 817, 818, 819, 1911, 1912, 1913, 1914, 1916 814, 1149 531 L-fuculose phosphate aldolase is not foundLachnospiraceae bacterium 3_1_46FAA (665950.3) 1265 1171, 1642 Lachnospiraceae bacterium 3_1_57FAA_CT1 (658086.3) 2094, 2095 2093 2092, 4203 733, 734, 735, 885, 886, 887, 888 144, 719, 720, 721, 971, 976, 1188, 1239, 2928, 2941, 3811, 3832, 4202, 5393, 5779, 7036 L-fuculose phosphate aldolase is not foundLachnospiraceae bacterium 4_1_37FAA (552395.3) 1624 1625 1626 1619, 1620, 1621, 1622 741, 1623 Lachnospiraceae bacterium 5_1_57FAA (658085.3) 146 137, 138, 139 136 L-fuculokinase and L-fuculose phosphate aldolase are not foundLachnospiraceae bacterium 5_1_63FAA (658089.3) Lachnospiraceae bacterium 6_1_63FAA (658083.3) 1461 1040 Lachnospiraceae bacterium 7_1_58FAA (658087.3) Lachnospiraceae bacterium 8_1_57FAA (665951.3) 1946 1188, 2069 Lachnospiraceae bacterium 9_1_43BFAA (658088.3) 331 330 329 334, 335, 336, 337 333, 1006 Lactobacillus acidophilus ATCC 4796 (525306.3) Lactobacillus acidophilus NCFM (272621.13) Lactobacillus amylolyticus DSM 11664 (585524.3) Lactobacillus antri DSM 16041 (525309.3) Lactobacillus brevis ATCC 367 (387344.15) Lactobacillus brevis subsp. gravesensis ATCC 27305 (525310.3) Lactobacillus buchneri ATCC 11577 (525318.3) Lactobacillus casei ATCC 334 (321967.11) 1797, 2695 Lactobacillus casei BL23 (543734.4) 1938, 2699, 2806 Lactobacillus crispatus 125-2-CHN (575595.3) Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842 (390333.7) Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365 (321956.7) Lactobacillus fermentum ATCC 14931 (525325.3) Lactobacillus fermentum IFO 3956 (334390.5) Lactobacillus gasseri ATCC 33323 (324831.13) Lactobacillus helveticus DPC 4571 (405566.6) Lactobacillus helveticus DSM 20075 (585520.4) Lactobacillus hilgardii ATCC 8290 (525327.3) actobacillus johnsonii NCC 533 (257314.6) Lactobacillus paracasei subsp. paracasei 8700:2 (537973.8) 844, 1584 Lactobacillus paracasei subsp. paracasei ATCC 25302 (525337.3) 678 Lactobacillus plantarum 16 (1327988.3) Lactobacillus plantarum subsp. plantarum ATCC 14917 (525338.3) Lactobacillus plantarum WCFS1 (220668.9) Lactobacillus reuteri CF48-3A (525341.3) Lactobacillus reuteri DSM 20016 (557436.4) Lactobacillus reuteri F275 (299033.6) Lactobacillus reuteri MM2-3 (585517.3) Lactobacillus reuteri MM4-1A (548485.3) Lactobacillus reuteri SD2112 (491077.3) Lactobacillus rhamnosus ATCC 21052 (1002365.5) 1776, 1907 Lactobacillus rhamnosus GG (Prj:40637) (568703.30) 2700 2696, 2699 2697 2698 1882, 2667, 2757 Lactobacillus rhamnosus LMS2-1 (525361.3) 810, 1104 Lactobacillus ruminis ATCC 25644 (525362.3) Lactobacillus sakei subsp. sakei 23K (314315.12) Lactobacillus salivarius ATCC 11741 (525364.3) Lactobacillus salivarius UCC118 (362948.14) Lactobacillus sp. 7_1_47FAA (665945.3) Lactobacillus ultunensis DSM 16047 (525365.3) Leuconostoc mesenteroides subsp. cremoris ATCC 19254 (586220.3) Listeria grayi DSM 20601 (525367.9) Listeria innocua ATCC 33091 (1002366.3) Megamonas funiformis YIT 11815 (742816.3) 2445 608 2444 609 610 Megamonas hypermegale ART12/1 (657316.3) 725, 726 722, 723 724 721 719, 720 Methanobrevibacter smithii ATCC 35061 (420247.6) Methanosphaera stadtmanae DSM 3091 (339860.6) Mitsuokella multacida DSM 20544 (500635.8) Mollicutes bacterium D7 (556270.3) Odoribacter laneus YIT 12061 (742817.3) 1543, 1594, 1703, 2078 Oxalobacter formigenes HOxBLS (556268.6) Oxalobacter formigenes OXCC13 (556269.4) Paenibacillus sp. HGF5 (908341.3) 2703 2701 2702 2700 2819, 2820, 2821 740, 1967, 3557, 3558, 3943, 3994, 4098, 4856 5680 Paenibacillus sp. HGF7 (944559.3) 83 84 85 3873 2441, 4089, 4594, 4601 Paenibacillus sp. HGH0039 (1078505.3) 4212 4213 4214 4211 3884, 3891, 4803, 5330 Parabacteroides distasonis ATCC 8503 (435591.13) 98 2711 Parabacteroides johnsonii DSM 18315 (537006.5) 1589 280, 401 Parabacteroides merdae ATCC 43184 (411477.4) 125, 263, 1035 Parabacteroides sp. D13 (563193.3) 4086 4087 4126 Parabacteroides sp. D25 (658661.3) 4209 4210 3962 Paraprevotella clara YIT 11840 (762968.3) 2939 2941 2940 2942 2943 1622, 1993, 2945, 2973 Paraprevotella xylaniphila YIT 11841 (762982.3) 897 895 896 894 893 863, 890, 891, 2026, 2122 Parvimonas micra ATCC 33270 (411465.10) Pediococcus acidilactici 7_4 (563194.3) 761 760, 763 757 758, 759 130, 766 Pediococcus acidilactici DSM 20284 (862514.3) 1263 Phascolarctobacterium sp. YIT 12067 (626939.3) Prevotella copri DSM 18205 (537011.5) revotella oralis HGA0225 (1203550.3) 910, 2398 Prevotella salivae DSM 15606 (888832.3) 1319, 1561, 2450 Propionibacterium sp. 5_U_42AFAA (450748.3) 1158, 1159 1160 1149, 1154, 1156 1157 L-fuculokinase is not foundPropionibacterium sp. HGH0353 (1203571.3) Proteus mirabilis WGLW6 (1125694.3) Proteus penneri ATCC 35198 (471881.3) Providencia alcalifaciens DSM 30120 (520999.6) Providencia rettgeri DSM 1131 (521000.6) Providencia rustigianii DSM 4541 (500637.6) Providencia stuartii ATCC 25827 (471874.6) Pseudomonas sp. 2_1_26 (665948.3) Ralstonia sp. 5_7_47FAA (658664.3) Roseburia intestinalis L1-82 (536231.5) 2317 Roseburia intestinalis M50/1 (657315.3) 3601 Roseburia intestinalis XB6B4 (718255.3) 2479 Roseburia inulinivorans DSM 16841 (622312.4) 1515 1531 1522 1517, 1518, 1519, 1520, 1521, 1977, 1978, 1979, 1980 1693, 1976 L-fuculokinase is not foundRuminococcaceae bacterium D16 (552398.3) Ruminococcus bromii L2-63 (657321.5) Ruminococcus gnavus ATCC 29149 (411470.6) 3426 929 931 922, 923, 924, 925, 926, 1098, 1099, 1100, 3314, 3315, 3316, 3317 2956, 3319 1101 717 L-fuculose phosphate aldolase is not foundRuminococcus lactaris ATCC 29176 (471875.6) 1096 1849 Ruminococcus obeum A2-162 (657314.3) 1696 1681 1714 L-fuculokinase is not foundRuminococcus obeum ATCC 29174 (411459.7) 3072 3092 3067 342, 343, 344 345 L-fuculokinase is not foundRuminococcus sp. 18P13 (213810.4) Ruminococcus sp. 5_1_39BFAA (457412.4) 1849 1864 3466 2466 2200, 2462 L-fuculokinase is not foundRuminococcus sp. SR1/5 (657323.3) 1662 1681 3509 2568, 2569 L-fuculokinase is not foundRuminococcus torques ATCC 27756 (411460.6) 1986 1649, 2451 Ruminococcus torques L2-14 (657313.3) 724 723 583 717 718, 719, 720, 721 678 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (99287.12) 3152 3153 3147 3154 3150, 3151 Staphylococcus sp. HGB0015 (1078083.3) Streptococcus anginosus 1_2_62CV (742820.3) Streptococcus equinus ATCC 9812 (525379.3) Streptococcus infantarius subsp. infantarius ATCC BAA-102 (471872.6) Streptococcus sp. 2_1_36FAA (469609.3) 153, 1790 Streptococcus sp. HPH0090 (1203590.3) 1211 1062 Streptomyces sp. HGB0020 (1078086.3) 1140 1138 1142 1141 5070 1139 1143, 1144, 1145 1166, 1168, 1586 Streptomyces sp. HPH0547 (1203592.3) 986 985 988 987 2325 2155 Transporters are not foundSubdoligranulum sp. 4_3_54A2FAA (665956.3) 2979 Subdoligranulum variabile DSM 15176 (411471.5) Succinatimonas hippei YIT 12066 (762983.3) 1625 1626 Sutterella wadsworthensis 3_1_45B (742821.3) Sutterella wadsworthensis HGA0223 (1203554.3) Tannerella sp. 6_1_58FAA_CT1 (665949.3) 973 Turicibacter sp. HGF1 (910310.3) 79, 1295 Turicibacter sp. PC909 (702450.3) 516, 1320 Veillonella sp. 3_1_44 (457416.3) Veillonella sp. 6_1_27 (450749.3) Weissella paramesenteroides ATCC 33313 (585506.3) Yokenella regensburgei ATCC 43003 (1002368.3) 1436 1437 1434 1438 1435 inase I Deacetylase Kinase II Aldolase Phospho-beta-galactosidase Phosphorylase ABC system Exo-alpha-N-acetylgalactosaminidaseAgaK AgaA AgaS AgaI AgaZ AgaY GnbG LnbP AgaPTS GnbPTS LnbABC Bha3 Bha20 Apr101 Apr129 AaeL
Abiotrophia defectiva ATCC 49176 (592010.4) 3045 758, 759, 760, 3041, 3042, 3043 2689 3047 Acidaminococcus sp. D21 (563191.3) Acidaminococcus sp. HPA0509 (1203555.3) Acinetobacter junii SH205 (575587.3) Actinomyces odontolyticus ATCC 17982 (411466.7) 1018 1019 Actinomyces sp. HPA0247 (1203556.3) 130 Akkermansia muciniphila ATCC BAA-835 (349741.6) 2416 421, 451, 986, 1169, 1892, 2063, 2191, 2301, 2302, 2446, 2460 Alistipes indistinctus YIT 12060 (742725.3) 913, 2149, 2200 Alistipes shahii WAL 8301 (717959.3) 3053, 3056, 3057 383, 2285, 3055, 3058, 3073 Anaerobaculum hydrogeniformans ATCC BAA-1850 (592015.5) 898 Anaerococcus hydrogenalis DSM 7454 (561177.4) Anaerofustis stercorihominis DSM 17244 (445971.6) 413 Anaerostipes caccae DSM 14662 (411490.6) 1040, 3509 746, 1039, 1941, 3511 1081 Anaerostipes hadrus DSM 3319 (649757.3) 1244 1242 1225 Anaerostipes sp. 3_2_56FAA (665937.3) 146, 2545, 2546 144, 429, 2543 188 Anaerotruncus colihominis DSM 17241 (445972.6) Bacillus smithii 7_3_47FAA (665952.3) 318 317 2068 Bacillus sp. 7_6_55CFAA_CT2 (665957.3) 1168 Bacillus subtilis subsp. subtilis str. 168 (224308.113) 3350, 3351 167 Bacteroides caccae ATCC 43185 (411901.7) 325, 2648 1016, 1017, 1021, 2633, 2643, 2667, 3165, 3362, 3410, 3423, 3502, 3508 Bacteroides capillosus ATCC 29799 (411467.6) 848 850, 851, 852 1352 Bacteroides cellulosilyticus DSM 14838 (537012.5) 1267, 2062, 2066, 2067, 2104 37, 950, 1188, 2126, 2422, 3129 Bacteroides clarus YIT 12056 (762984.3) 2102 1623, 2048, 3000 Bacteroides coprocola DSM 17136 (470145.6) 46, 1649, 1996 463, 908, 914, 915, 2401, 3707 Bacteroides coprophilus DSM 18228 (547042.5) 547, 1770, 2949 578, 782, 783, 896, 1099, 1246, 1558, 2137, 2288, 2913, 2914, 3123 Bacteroides dorei DSM 17855 (483217.6) 415, 575 474, 630, 634, 636, 1087, 1401, 1441, 2459, 3166, 3335 Bacteroides eggerthii 1_2_48FAA (665953.3) 3587, 3588 670, 1693 Bacteroides eggerthii DSM 20697 (483216.6) 2645 352 Bacteroides finegoldii DSM 17565 (483215.6) 3350, 3645 532, 1700, 2282, 2283, 3069 Bacteroides fluxus YIT 12057 (763034.3) 3105, 3106 1188, 2029, 2231, 2698, 2717, 3256, 3264 Bacteroides fragilis 3_1_12 (457424.5) 2412, 2413 387, 391, 393, 888, 952, 1609, 1929, 2578, 3292, 3295, 3302, 3599
Table S4.
Genes involved in depletion and utilization of N-acetylgalactosamine. The PubSEED identifiers are shown. For details on analyzed organisms see Table S1, for details on gene functions see Table S2.
Organism (PubSEED ID) Problems (if any)Isomerase Beta-hexosaminidases Endo-alpha-N-acetylgalactosaminidasesPTS systemsTransport HydrolasesCatabolic pathway acteroides fragilis 638R (862962.3) 576, 577 391, 738, 1038, 1739, 1743, 1745, 2289, 3199, 3202, 3210, 3823, 4278 Bacteroides fragilis NCTC 9343 (272559.17) 502, 503 321, 656, 943, 1778, 1782, 1784, 2181, 3119, 3122, 3130, 3685, 4157 Bacteroides fragilis YCH46 (295405.11) 581, 582 405, 752, 1030, 1679, 1683, 1685, 2074, 3116, 3119, 3127, 3668, 4100 Bacteroides intestinalis DSM 17393 (471870.8) 507, 512, 513, 1330 561, 789, 796, 797, 1715, 3500, 3952 Bacteroides ovatus 3_8_47FAA (665954.3) 4523 1381, 2124, 2395, 2808, 3273, 4373, 4374, 4576, 4727, 4728 Bacteroides ovatus ATCC 8483 (411476.11) 537, 2236, 2315 993, 994, 1351, 1728, 1872, 1873, 2004, 2490, 2619, 2959, 3245, 3718, 4371 Bacteroides ovatus SD CC 2a (702444.3) 2617, 4819 17, 351, 2781, 3077, 3387, 3388, 3417, 3889, 4736, 4737 Bacteroides ovatus SD CMC 3f (702443.3) 85, 4858 992, 1159, 1160, 2371, 2619, 2620, 3221, 3235, 4196, 4730, 4966 4964 Bacteroides pectinophilus ATCC 43243 (483218.5) Bacteroides plebeius DSM 17135 (484018.6) 38 130, 896, 897, 975, 1279, 2458, 2642 Bacteroides sp. 1_1_14 (469585.3) 4779 199, 257, 792, 1057, 1142, 1145, 1146, 1358, 1402, 1640, 3200, 3206, 3532, 4136, 4666 Bacteroides sp. 1_1_30 (457387.3) 4426 708, 1297, 1298, 1543, 3697, 3699, 4488, 4508, 5025, 5183 Bacteroides sp. 1_1_6 (469586.3) 4596 134, 137, 138, 411, 1045, 2012, 2068, 2556, 2810, 2823, 3389, 3851, 4611, 4797, 4798, 4805 Bacteroides sp. 2_1_16 (469587.3) 2732, 2733 591, 1325, 1888, 1892, 1894, 1999, 2563, 3001, 3009, 3012, 3739 Bacteroides sp. 2_1_22 (469588.3) 577, 4138 466, 1602, 1680, 1681, 2803, 2804, 3590, 4190, 4551 Bacteroides sp. 2_1_33B (469589.3) 930, 931, 2907 225, 808, 1625, 3100, 3882 acteroides sp. 2_1_56FAA (665938.3) 551, 552 381, 808, 1112, 1929, 1933, 1935, 2408, 3206, 3781, 3784, 3793 Bacteroides sp. 2_1_7 (457388.5) 2424 572, 1099, 1720, 3165, 3379, 4182 Bacteroides sp. 2_2_4 (469590.5) 378, 1260 14, 149, 1391, 1392, 1963, 3277, 3278, 3733, 3966, 5483, 5484 1394 Bacteroides sp. 20_3 (469591.4) 1686, 4443 1415, 2485, 3124, 3326, 4195 Bacteroides sp. 3_1_19 (469592.4) 2013 818, 1473, 2927, 3315, 3888, 4241 Bacteroides sp. 3_1_23 (457390.3) 1840, 1913, 3075 1589, 2061, 2417, 2840, 3135, 3642, 4446, 4721, 4722, 4762 2063 Bacteroides sp. 3_1_33FAA (457391.3) 1242 912, 1190, 1713, 1715, 1719, 1868, 2842, 3673, 3737 Bacteroides sp. 3_1_40A (469593.3) 3727, 3735 234, 401, 832, 1025, 1946, 2532, 2838, 3385, 3389, 3391, 3790, 3791 Bacteroides sp. 3_2_5 (457392.3) 604, 605 455, 797, 1514, 1967, 1970, 1978, 2336, 3149, 4354, 4356, 4360 Bacteroides sp. 4_1_36 (457393.3) 33, 34, 38, 894, 895 268, 1837, 2096, 3003, 3266 Bacteroides sp. 4_3_47FAA (457394.3) 1545 550, 765, 769, 771, 1365, 1489, 1710, 2458, 2952, 4574 Bacteroides sp. 9_1_42FAA (457395.6) 636 420, 422, 426, 572, 2484, 2735, 3470, 3724, 3995 Bacteroides sp. D1 (556258.5) 429, 3517 304, 1565, 1566, 1810, 3291, 3292, 3465, 3765, 4450 Bacteroides sp. D2 (556259.3) 2130, 4854 392, 393, 1206, 1647, 2103, 2592, 3265, 3716, 3717, 3971, 4792, 5047 Bacteroides sp. D20 (585543.3) 1651, 1652, 1802, 1803, 1807 62, 292, 1194, 2336, 2558 Bacteroides sp. D22 (585544.3) 1093, 2778, 3070 145, 146, 1092, 1094, 1095, 1315, 1319, 1320, 1907, 2835, 3302, 3483, 3778, 4367 Bacteroides sp. HPS0048 (1078089.3) 1104, 1105 5, 729, 730, 1199, 1200, 1558, 2876, 2942, 2943, 2953, 3179, 3943, 3948, 3967 Bacteroides stercoris ATCC 43183 (449673.7) 379 548, 1455, 1461, 2245, 2379, 2694, 3236 acteroides thetaiotaomicron VPI-5482 (226186.12) 2501 191, 456, 459, 460, 507, 1068, 1659, 1665, 2517, 3240, 3657, 3930, 4413, 4472, 4761 Bacteroides uniformis ATCC 8492 (411479.10) 689, 690, 3474, 3475, 3478 43, 999, 1376, 1724, 3172 Bacteroides vulgatus ATCC 8482 (435590.9) 150 89, 404, 552, 1244, 2282, 3342, 4247, 4249, 4253 Bacteroides vulgatus PC510 (702446.3) 1436 216, 649, 709, 763, 765, 769, 1958, 2250, 2425, 2896 Bacteroides xylanisolvens SD CC 1b (702447.3) 2034, 4399 129, 130, 350, 1720, 1721, 2100, 3926, 3927, 4163, 4692 Bacteroides xylanisolvens XB1A (657309.4) 520, 984 73, 74, 573, 1113, 2296, 3256, 3618, 3931, 4504, 4505 Barnesiella intestinihominis YIT 11860 (742726.3) 942 941 2312 101, 308, 379, 380, 513, 2614, 2835, 2904, 2964, 2975 Bifidobacterium adolescentis L2-32 (411481.5) 1012 Bifidobacterium angulatum DSM 20098 = JCM 7096 (518635.7) 1101 Bifidobacterium animalis subsp. lactis AD011 (442563.4) 490, 492 1067 Bifidobacterium bifidum NCIMB 41171 (398513.5) 481, 905 482, 483, 484 133 441, 1540, 1769 1379 Bifidobacterium breve DSM 20213 = JCM 1192 (518634.7) 1473 524, 527, 1469, 1471, 1472 744, 745 1506 977 Bifidobacterium breve HPH0326 (1203540.3) 1077 507, 509, 510, 612, 613, 615, 616, 1078, 1079, 1081 1986, 1987 Bifidobacterium catenulatum DSM 16992 = JCM 1194 (566552.6) 948 Bifidobacterium dentium ATCC 27678 (473819.7) Bifidobacterium gallicum DSM 20093 (561180.4) 75 Bifidobacterium longum DJO10A (Prj:321) (205913.11) 1835 918, 923, 1022, 1023, 1837, 1838, 1839 359 1253 125 Bifidobacterium longum NCC2705 (206672.9) 1696 875, 880, 995, 997, 1692, 1693, 1694 735 59 520 Bifidobacterium longum subsp. infantis 157F (565040.3) 1729 359, 360, 361, 1731, 1732, 1733 625, 1342 1471 938 Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222 (391904.8) 2251 909, 910, 911, 2252, 2253, 2254 1915 471, 748, 2431 1541 Bifidobacterium longum subsp. infantis ATCC 55813 (548480.3) 648 645, 646, 647 104 892 12 Bifidobacterium longum subsp. infantis CCUG 52486 (537937.5) 1177 1173, 1174, 1175 12 2008 1133 Bifidobacterium longum subsp. longum 2-2B (1161745.3) 514 515, 516, 517, 838, 839 2072 1617 Bifidobacterium longum subsp. longum 44B (1161743.3) 1601 103, 104, 105, 1598, 1599, 1600 1807 1528 189 ifidobacterium longum subsp. longum F8 (722911.3) 1599 858, 859, 860, 1600, 1601, 1602 602 91 390 Bifidobacterium longum subsp. longum JCM 1217 (565042.3) 1679 458, 1680, 1681, 1682 618 1443 822 Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 (547043.8) 1008 1742 Bifidobacterium sp. 12_1_47BFAA (469594.3) 583 475, 476, 585, 586, 587 277 78 1871 Bilophila wadsworthia 3_1_6 (563192.3) 1035 Blautia hansenii DSM 20583 (537007.6) 1753 811, 812, 813, 1757, 1758 Blautia hydrogenotrophica DSM 10507 (476272.5) 1033 583 585, 586, 587 646 Bryantella formatexigens DSM 14469 (478749.5) 554 550, 555, 556, 557 1695, 1696 279 Burkholderiales bacterium 1_1_47 (469610.4) butyrate-producing bacterium SM4/1 (245012.3) 2299 butyrate-producing bacterium SS3/4 (245014.3) butyrate-producing bacterium SSC/2 (245018.3) 181 179, 2271 131 Butyricicoccus pullicaecorum 1.2 (1203606.4) 2195 2198 2192 2193 2199, 2201, 2202, 2203 2205 Butyrivibrio crossotus DSM 2876 (511680.4) Butyrivibrio fibrisolvens 16/4 (657324.3) 2729, 2730, 2731 1716 Campylobacter coli JV20 (864566.3) Campylobacter upsaliensis JV21 (888826.3) Catenibacterium mitsuokai DSM 15897 (451640.5) 1730 704, 705, 706, 1150, 1856 Cedecea davisae DSM 4568 (566551.4) 215 220 214 213 Citrobacter freundii 4_7_47CFAA (742730.3) 1446 934, 935, 1445 Citrobacter sp. 30_2 (469595.3) 2948 2949 2943 2950, 3862, 3863 2944, 2945, 2946, 2947 4080 Citrobacter youngae ATCC 29220 (500640.5) 3813 3814 3819 3808 141, 142, 3815 3809, 3810, 3811, 3812 Clostridiales bacterium 1_7_47FAA (457421.5) 2378 4154 4156, 4157, 4158 1584, 2883, 3168 Clostridium asparagiforme DSM 15981 (518636.5) 1805, 2939, 3111 Clostridium bartlettii DSM 16795 (445973.7) 2253 139, 323 Clostridium bolteae 90A5 (997893.5) 4411 4408, 4409, 4410 3453, 3548 Clostridium bolteae ATCC BAA-613 (411902.9) 140, 147 1483 1480, 1481, 1482 5814, 5902 Clostridium celatum DSM 1785 (545697.3) 577 578 585 574 2573, 2574 582, 583, 584 2577, 2578, 2579 163, 1196 2632 1671, 3216 Clostridium cf. saccharolyticum K10 (717608.3) 3073 Clostridium citroniae WAL-17108 (742733.3) 2512 132, 5679 Clostridium clostridioforme 2_1_49FAA (742735.4) 4527 2652 2653, 2655, 2656 2087 No transporters foundClostridium difficile CD196 (645462.3) 3389 3385 3387 2994, 3384 No transporters foundClostridium difficile NAP07 (525258.3) 513 509 511 508, 1052 No transporters foundClostridium difficile NAP08 (525259.3) 3486 3482 3484 1166, 3481 Clostridium hathewayi WAL-18680 (742737.3) 4106, 4107 4108, 4109, 4110 960, 1448, 1593, 3978, 4273 Clostridium hiranonis DSM 13275 (500633.7) 1060, 1113 1058 1544, 1546, 1549 Clostridium hylemonae DSM 15053 (553973.6) 1189 1192 3210 3213, 3214, 3215 Clostridium leptum DSM 753 (428125.8) 5 9 744 Clostridium methylpentosum DSM 5476 (537013.3) lostridium nexile DSM 1787 (500632.7) 1721 1712, 1713, 1714, 3026, 3027, 3028 2441 613, 614, 1955 Clostridium perfringens WAL-14572 (742739.3) 2682 1913 2683 1927 2689 1921, 1922, 1923 2776 679, 1027 930 Clostridium ramosum DSM 1402 (445974.6) 1039 1030, 1034, 1035, 1036, 1038 741, 1205, 1472, 1631, 2275 1501, 1517, 1518 Clostridium scindens ATCC 35704 (411468.9) 2580 2577 2966 117, 118, 119, 2960, 2961, 2962 Clostridium sp. 7_2_43FAA (457396.3) 2038 2040 2043 1396, 2042 3457 2032, 2033, 2034, 2037 3455, 3456, 3459 87, 117, 2545 69, 139, 2261 Clostridium sp. 7_3_54FAA (665940.3) 3618 4282 Clostridium sp. D5 (556261.3) 2836, 4279 2308, 2832, 4277 3342, 819 820, 821, 822, 2033, 2034, 2037, 2038, 2039 Clostridium sp. HGF2 (908340.3) 3550 3118 2391 1474, 2964 2962, 2965, 2966, 2967 Clostridium sp. L2-50 (411489.7) 1103, 2279 Clostridium sp. M62/1 (411486.3) 883 Clostridium sp. SS2/1 (411484.7) 1976 1178, 1974 1928 Clostridium spiroforme DSM 1552 (428126.7) 726 725 728 729 718, 719, 720, 724 110, 632, 1502, 1503 436, 1806, 1927, 2020, 2021 471 Clostridium sporogenes ATCC 15579 (471871.7) 1607 Clostridium symbiosum WAL-14163 (742740.3) 366 2861 Clostridium symbiosum WAL-14673 (742741.3) 150 3939 Collinsella aerofaciens ATCC 25986 (411903.6) 2045, 2053 2052 791, 2056 799 2047 2048, 2049, 2050, 2059 Collinsella intestinalis DSM 13280 (521003.7) 399 400 384 381 393, 394, 402, 403, 404, 406 769 Collinsella stercoris DSM 13279 (445975.6) 135 134 159 161, 776 127 150 128, 129, 130, 132 363, 1473 284, 945, 1661 672 Collinsella tanakaei YIT 12063 (742742.3) 743 744 741 704 746, 747, 748, 750 Coprobacillus sp. 29_1 (469596.3) 704 272, 705, 1430 1527 1528, 1530, 1531, 1532 242 Coprobacillus sp. 3_3_56FAA (665941.3) 1492 1483, 1487, 1488, 1489, 1491 2379, 2856, 3052 940, 941, 946, 3081, 3097, 3098 Coprobacillus sp. 8_2_54BFAA (469597.4) 596 586, 591, 592, 593, 595 1455, 2774 3167, 3174, 3175, 3518, 3519, 3535, 3563 Coprobacillus sp. D6 (556262.3) 1159 1158, 1407, 3455 3551 3552, 3554, 3555, 3556 1437 Coprococcus catus GD/7 (717962.3) 894 Coprococcus comes ATCC 27758 (470146.3) 1105, 1106, 1107, 1108 Coprococcus eutactus ATCC 27759 (411474.6) 1610 Coprococcus sp. ART55/1 (751585.3) 1312 Coprococcus sp. HPP0048 (1078091.3) 2284 2290, 2291, 2292 2618 Coprococcus sp. HPP0074 (1078090.3) 2064 2070, 2071, 2072 2765, 2846 Corynebacterium ammoniagenes DSM 20306 (649754.3) 1483 Corynebacterium sp. HFH0082 (1078764.3) Dermabacter sp. HFH0086 (1203568.3) esulfitobacterium hafniense DP7 (537010.4) 3905, 4278 2987 Desulfovibrio piger ATCC 29098 (411464.8) Desulfovibrio sp. 3_1_syn3 (457398.5) 2651 Dorea formicigenerans 4_6_53AFAA (742765.5) Dorea formicigenerans ATCC 27755 (411461.4) 351 Dorea longicatena DSM 13814 (411462.6) Dysgonomonas gadei ATCC BAA-286 (742766.3) 2324, 3483 1924, 4134 Dysgonomonas mossii DSM 22836 (742767.3) 48, 1500 1263, 1693 Edwardsiella tarda ATCC 23685 (500638.3) 1690 1695, 2062 1696 1685, 2067 1691, 1692, 1693, 1694 1775 Eggerthella sp. 1_3_56FAA (665943.3) Eggerthella sp. HGA1 (910311.3) Enterobacter cancerogenus ATCC 35316 (500639.8) 3741 3742 3736 3743 3737, 3738, 3739 4025 Enterobacter cloacae subsp. cloacae NCTC 9394 (718254.4) 2633 2634 2631 2635 2632 3658 Enterobacteriaceae bacterium 9_2_54FAA (469613.3) 33, 2719 32 38, 2788 364 Enterococcus faecalis PC1.1 (702448.3) 655, 1367, 2507 2508 Enterococcus faecalis TX0104 (491074.3) 440 438, 1218, 1241 439, 1221 437 433, 434, 435, 436 2801 Enterococcus faecalis TX1302 (749513.3) 2419 1698, 1722, 2417 2418 2416 2412, 2413, 2414, 2415 506 Enterococcus faecalis TX1322 (525278.3) 2212 294 297, 1533, 1567, 1931 295, 296, 1536, 1932 298 2210, 2211, 2213, 2214 299, 300, 301, 302 2575 Enterococcus faecalis TX1341 (749514.3) 2012 1915 1917, 2357 1916, 2354 1918 2010, 2011, 2013, 2014 1919, 1920, 1921, 1922 1112 1923 Enterococcus faecalis TX1342 (749515.3) 1078 2522 1315, 1339, 2520 2521 2519 1076, 1077, 1079, 1080 2515, 2516, 2517, 2518 Enterococcus faecalis TX1346 (749516.3) 1472 1833 950, 1835 947, 1834 1836 1470, 1471, 1473, 1474 1837, 1838, 1839, 1840 2280 Enterococcus faecalis TX2134 (749518.3) 2180 1250 290, 315, 1252 312, 1251 1253 2178, 2179, 2181, 2182 1254, 1255, 1256, 1257 1827 Enterococcus faecalis TX2137 (749491.3) 471 309 307, 2280, 2304 308, 2301 306 469, 470, 472, 473 302, 303, 304, 305 1356 Enterococcus faecalis TX4244 (749494.3) 160 1655 1653, 2031 1654 1652 158, 159, 161, 162 1648, 1649, 1650, 1651 1917 1647 Enterococcus faecium PC4.1 (791161.5) 671, 1416, 2587 2588 Enterococcus faecium TX1330 (525279.3) 391, 1613, 1732 1614, 1733 Enterococcus saccharolyticus 30_1 (742813.4) 1807 869, 1366 872, 1808, 1850 1809 1810, 1811, 1812, 1813 981 Enterococcus sp. 7L76 (657310.3) 2028 244 241, 242, 1664 243, 1661 240 2026, 2027, 2029, 2030 236, 237, 238, 239 Erysipelotrichaceae bacterium 2_2_44A (457422.3) 2843 4656 4296 1268, 4021 3495, 3496, 3497, 3500 Erysipelotrichaceae bacterium 21_3 (658657.3) 3476 1871 4471 3498, 531 4019, 4022, 4023, 4024 Erysipelotrichaceae bacterium 3_1_53 (658659.3) 3323 2681 4692 1540, 305 1537, 1538, 1539, 1542 Erysipelotrichaceae bacterium 5_2_54FAA (552396.3) 682 1672 2260, 2266 2257, 2258, 2261, 2262, 2263 2652 Erysipelotrichaceae bacterium 6_1_45 (469614.3) 805 3243 2178 1202, 4306 1200, 1203, 1204, 1205 scherichia coli 4_1_47FAA (1127356.4) 2226 2227 2233 2221, 3583 2228, 2229, 3582 2222, 2223, 2224, 2225 Escherichia coli MS 107-1 (679207.4) 2599 2598 2593 2604, 3851 2597, 3850 2600, 2601, 2602, 2603 Escherichia coli MS 115-1 (749537.3) 493 492 2524 498, 874, 875 491, 873, 1412 494, 495, 496, 497 Escherichia coli MS 116-1 (749538.3) 990 992 2176 985, 1312, 1313 993, 1041, 1314 986, 987, 988, 989 Escherichia coli MS 119-7 (679206.4) 1516 1517 1522 1510, 1576 1518, 1575 1511, 1512, 1513, 1514, 1515 Escherichia coli MS 124-1 (679205.4) 353 352 347 358, 2955 351, 2954 354, 355, 356, 357 Escherichia coli MS 145-7 (679204.3) 870 871 876 123, 865 124, 872 866, 867, 868, 869 Escherichia coli MS 146-1 (749540.3) 1422 1424 1429 17, 1417 16, 1425 1418, 1419, 1420, 1421 Escherichia coli MS 175-1 (749544.3) 761 763 924 756 764 757, 758, 759, 760 Escherichia coli MS 182-1 (749545.3) 3371 3372 3377 1678, 3366 1679, 3373 3367, 3368, 3369, 3370 Escherichia coli MS 185-1 (749546.3) 2090 2089 2084 2095, 2853 1418, 1419, 1830, 2088, 2854, 3978 2091, 2092, 2093, 2094 Escherichia coli MS 187-1 (749547.3) 1094 1093 1099, 3102 1092, 1100, 3101 1095, 1096, 1097, 1098 Escherichia coli MS 196-1 (749548.3) 2788 2786 2781 2793, 2946, 2947, 2948 2785, 2949 2789, 2790, 2791, 2792 Escherichia coli MS 198-1 (749549.3) 1971 1972 2024 1966, 5003 1973, 5002 1967, 1968, 1969, 1970 Escherichia coli MS 200-1 (749550.3) 1058 1060 1065 1053, 1569 301, 1061, 1312, 1568, 2297, 2298 1054, 1055, 1056, 1057 Escherichia coli MS 21-1 (749527.3) 2784, 2785 2786 2791 1495, 2779 1494, 2178, 2787, 3902, 3903 2780, 2781, 2782, 2783 Escherichia coli MS 45-1 (749528.3) 4101 4102, 4315 4107 1587, 4096 1586, 2935, 2936, 3037, 4103, 4217, 4313, 4314 4097, 4098, 4099, 4100 Escherichia coli MS 69-1 (749531.3) 2559 2560 2565 2055, 2554 2054, 2561 2555, 2556, 2557, 2558 Escherichia coli MS 78-1 (749532.3) 1630 1631 1636 1625, 4086 1632, 4085 1626, 1627, 1628, 1629 Escherichia coli MS 79-10 (796392.4) 1902 1903 1908 1421, 1897 1422, 1904 1898, 1899, 1900, 1901 Escherichia coli MS 84-1 (749533.3) 3485 3484 2282 419, 3490 418, 3483 3486, 3487, 3488, 3489 scherichia coli MS 85-1 (679202.3) 1017 1018 1023 1012, 2581 1019, 2580 1013, 1014, 1015, 1016 Escherichia coli O157:H7 str. Sakai (386585.9) 4190 4192 4197, 4198 3030, 4185 3031, 4193, 4548 4186, 4187, 4188, 4189 Escherichia coli SE11 (409438.11) 3590 3591 3596 2516, 3585 2517, 3592 3586, 3587, 3588, 3589 Escherichia coli SE15 (431946.3) 3107 3108 3113 2063, 3102 2064, 3109, 3221, 3641, 3642 3103, 3104, 3105, 3106 5Escherichia coli str. K-12 substr. MG1655 (511145.12) 3229 3231 3236 2172, 3226 2173, 3232 3227, 3228 Escherichia coli UTI89 (364106.8) 3533 3534 3539 1176, 2397, 3528 1174, 1175, 2398, 3535, 3647, 3921, 4110, 4111 3529, 3530, 3531, 3532 Escherichia sp. 1_1_43 (457400.3) Escherichia sp. 3_2_53FAA (469598.5) 1077 1076 1071 1082, 2678 962, 1075, 2679, 4279, 4486, 4487 1078, 1079, 1080, 1081 Escherichia sp. 4_1_40B (457401.3) 3052 3050 3045 2059, 3057 2058, 2554, 3049 3053, 3054, 3055, 3056 Eubacterium biforme DSM 3989 (518637.5) 21 29 1074 1075, 1077, 1078, 1079 Eubacterium cylindroides T2-87 (717960.3) 1442, 1443 1438, 1439, 1441 Eubacterium dolichum DSM 3991 (428127.7) 825, 1984 1786 44, 1823, 1958 721, 1589 42 Eubacterium hallii DSM 3353 (411469.3) 1337 Eubacterium rectale DSM 17629 (657318.4) 2888 2884, 2885, 2886 2338 Eubacterium rectale M104/1 (657317.3) 959 955, 956, 957, 2443, 2444, 2445 1569 Eubacterium siraeum 70/3 (657319.3) Eubacterium siraeum DSM 15702 (428128.7) 2364 Eubacterium siraeum V10Sc8a (717961.3) 2382 Eubacterium sp. 3_1_31 (457402.3) 2428 1386 231, 238 235, 236, 237, 240 1992 Eubacterium ventriosum ATCC 27560 (411463.4) Faecalibacterium cf. prausnitzii KLE1255 (748224.3) 1442 2586 2582, 2583, 2584 Faecalibacterium prausnitzii A2-165 (411483.3) 1155 1151, 1152, 1153 152 Faecalibacterium prausnitzii L2-6 (718252.3) 1293 1294 1292 1297 113 1295, 1300, 1301, 1302 115, 116, 117, 3087, 3088, 3089 Faecalibacterium prausnitzii M21/2 (411485.10) 2375 2377, 2378, 2379 Faecalibacterium prausnitzii SL3/3 (657322.3) 2621 2617, 2618, 2619 Fusobacterium gonidiaformans ATCC 25563 (469615.3) Fusobacterium mortiferum ATCC 9817 (469616.3) 506 507 509 508, 741 Fusobacterium necrophorum subsp. funduliforme 1_1_36S (742814.3) Fusobacterium sp. 1_1_41FAA (469621.3) Fusobacterium sp. 11_3_2 (457403.3) Fusobacterium sp. 12_1B (457404.3) 3263 3262 3260 3261 Fusobacterium sp. 2_1_31 (469599.3) Fusobacterium sp. 21_1A (469601.3) Fusobacterium sp. 3_1_27 (469602.3) Fusobacterium sp. 3_1_33 (469603.3) usobacterium sp. 3_1_36A2 (469604.3) Fusobacterium sp. 3_1_5R (469605.3) Fusobacterium sp. 4_1_13 (469606.3) Fusobacterium sp. 7_1 (457405.3) Fusobacterium sp. D11 (556264.3) Fusobacterium sp. D12 (556263.3) Fusobacterium ulcerans ATCC 49185 (469617.3) 3036 3037 722, 3039 721, 3038 Fusobacterium varium ATCC 27725 (469618.3) 1210 1211 1213 1212 Gordonibacter pamelaeae 7-10-1-b (657308.3) Hafnia alvei ATCC 51873 (1002364.3) 907, 3409 908 902, 2566 4030 Helicobacter bilis ATCC 43879 (613026.4) Helicobacter canadensis MIT 98-5491 (Prj:30719) (537970.9) Helicobacter cinaedi ATCC BAA-847 (1206745.3) Helicobacter cinaedi CCUG 18818 (537971.5) Helicobacter pullorum MIT 98-5489 (537972.5) Helicobacter winghamensis ATCC BAA-430 (556267.4) Holdemania filiformis DSM 12042 (545696.5) 1238 Klebsiella pneumoniae 1162281 (1037908.3) 4163 Klebsiella pneumoniae subsp. pneumoniae WGLW5 (1203547.3) Klebsiella sp. 1_1_55 (469608.3) 2810 2806, 4917 Klebsiella sp. 4_1_44FAA (665944.3) 4752 Lachnospiraceae bacterium 1_1_57FAA (658081.3) 265 269 262 263 613 270, 272, 273, 274 605, 606, 615, 616, 617, 620 471, 480, 1560 706, 719, 1762 Lachnospiraceae bacterium 1_4_56FAA (658655.3) 359 53, 54, 55, 56 1305, 1436, 2820 Lachnospiraceae bacterium 2_1_46FAA (742723.3) 1802 1388, 1390 1316, 1389 Lachnospiraceae bacterium 2_1_58FAA (658082.3) 1925 1929 1677 1671, 1683, 2212, 2213, 2214 507 Lachnospiraceae bacterium 3_1_46FAA (665950.3) 309 313 306 307 2413 314, 316, 317, 318 2406, 2407, 2415, 2416, 2417, 2420 1149, 2283 525 Lachnospiraceae bacterium 3_1_57FAA_CT1 (658086.3) 96 2098, 6940 2099, 2100, 2101 998, 3499 4301 Lachnospiraceae bacterium 4_1_37FAA (552395.3) 2536 2527, 2528, 2529 1742, 2355, 2915 Lachnospiraceae bacterium 5_1_57FAA (658085.3) 786 789 243 237, 238, 239, 1688, 1689, 1690 Lachnospiraceae bacterium 5_1_63FAA (658089.3) 1308 2486 Lachnospiraceae bacterium 6_1_63FAA (658083.3) 642 646, 647, 1608, 1609, 1610 Lachnospiraceae bacterium 7_1_58FAA (658087.3) 5075 Lachnospiraceae bacterium 8_1_57FAA (665951.3) 527 523 530 529 851 518, 519, 520, 522 844, 847, 848, 849, 857, 858 980, 2091 2579, 2591, 2654 Lachnospiraceae bacterium 9_1_43BFAA (658088.3) 2228 2220, 2221, 2222 31, 186, 2068, 2545, 2634, 2639 Lactobacillus acidophilus ATCC 4796 (525306.3) Lactobacillus acidophilus NCFM (272621.13) Lactobacillus amylolyticus DSM 11664 (585524.3) 1618 Lactobacillus antri DSM 16041 (525309.3) Lactobacillus brevis ATCC 367 (387344.15) Lactobacillus brevis subsp. gravesensis ATCC 27305 (525310.3) 1784 1041 Lactobacillus buchneri ATCC 11577 (525318.3) 1293 778 Lactobacillus casei ATCC 334 (321967.11) 680, 2598 681, 2540 315 Lactobacillus casei BL23 (543734.4) 275 274 705, 2694 386, 706, 2632 276 277, 278, 279, 280 271 Lactobacillus crispatus 125-2-CHN (575595.3) 1902 Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842 (390333.7) Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365 (321956.7) Lactobacillus fermentum ATCC 14931 (525325.3) Lactobacillus fermentum IFO 3956 (334390.5) Lactobacillus gasseri ATCC 33323 (324831.13) 115 114 147, 160 144 17 116, 117, 118, 119, 124 actobacillus helveticus DPC 4571 (405566.6) 531 Lactobacillus helveticus DSM 20075 (585520.4) 1139 Lactobacillus hilgardii ATCC 8290 (525327.3) 1543 653 Lactobacillus johnsonii NCC 533 (257314.6) 127 126 155, 170 152 16 128, 129, 130, 131, 135 Lactobacillus paracasei subsp. paracasei 8700:2 (537973.8) 2332 2331 1460, 2338, 2612 1099, 2613 2333 2334, 2335, 2336, 2337 2328, 2784 Lactobacillus paracasei subsp. paracasei ATCC 25302 (525337.3) 1054 1053 1849, 2392 1904, 2393 1132, 1133, 1134 1050 Lactobacillus plantarum 16 (1327988.3) 1691 Lactobacillus plantarum subsp. plantarum ATCC 14917 (525338.3) 2027 Lactobacillus plantarum WCFS1 (220668.9) 1773 Lactobacillus reuteri CF48-3A (525341.3) Lactobacillus reuteri DSM 20016 (557436.4) Lactobacillus reuteri F275 (299033.6) Lactobacillus reuteri MM2-3 (585517.3) Lactobacillus reuteri MM4-1A (548485.3) Lactobacillus reuteri SD2112 (491077.3) Lactobacillus rhamnosus ATCC 21052 (1002365.5) 426 425 433, 523, 2045, 2742 500, 2046, 2671 427, 428 429, 430, 431, 432 Lactobacillus rhamnosus GG (Prj:40637) (568703.30) 335 334 343, 667, 2662 415, 668, 2584 336, 337 338, 340, 341, 342 435 Lactobacillus rhamnosus LMS2-1 (525361.3) 1785 1784 1200, 1980, 2182 1264, 1953, 2183 1786 1787, 1788, 1789, 1791 Lactobacillus ruminis ATCC 25644 (525362.3) 520 602 Lactobacillus sakei subsp. sakei 23K (314315.12) Lactobacillus salivarius ATCC 11741 (525364.3) 1471, 1472 Lactobacillus salivarius UCC118 (362948.14) 241 1663 Lactobacillus sp. 7_1_47FAA (665945.3) 854 855 1111 843 849 850, 851, 852, 853 Lactobacillus ultunensis DSM 16047 (525365.3) Leuconostoc mesenteroides subsp. cremoris ATCC 19254 (586220.3) Listeria grayi DSM 20601 (525367.9) 645 Listeria innocua ATCC 33091 (1002366.3) 527, 778 1141 Megamonas funiformis YIT 11815 (742816.3) 1387, 1388 Megamonas hypermegale ART12/1 (657316.3) 1826 Methanobrevibacter smithii ATCC 35061 (420247.6) Methanosphaera stadtmanae DSM 3091 (339860.6) Mitsuokella multacida DSM 20544 (500635.8) 637 Mollicutes bacterium D7 (556270.3) 1624 1615, 1619, 1620, 1621, 1623 835, 1175, 1469, 1743, 1881 1910, 1927, 1928, 2482, 2483 Odoribacter laneus YIT 12061 (742817.3) 2659 783, 1217, 1614, 1720, 3233 Oxalobacter formigenes HOxBLS (556268.6) Oxalobacter formigenes OXCC13 (556269.4) Paenibacillus sp. HGF5 (908341.3) 6203 5909 3687, 5435 Paenibacillus sp. HGF7 (944559.3) 3326 3325 412, 1976, 3722 2816 Paenibacillus sp. HGH0039 (1078505.3) 4398 4399 1240, 2100, 3354 330 Parabacteroides distasonis ATCC 8503 (435591.13) 2321 46, 652, 1252, 2504, 2909 Parabacteroides johnsonii DSM 18315 (537006.5) 2863 398, 608, 651, 792, 1061, 1113, 1922, 3536 Parabacteroides merdae ATCC 43184 (411477.4) 728 248, 288, 370, 401, 433, 862, 1720, 1922, 2721 Parabacteroides sp. D13 (563193.3) 2866 743, 1422, 1983, 3485, 4031 Parabacteroides sp. D25 (658661.3) 144, 416, 1344, 2458, 3505, 4154 Paraprevotella clara YIT 11840 (762968.3) Paraprevotella xylaniphila YIT 11841 (762982.3) Parvimonas micra ATCC 33270 (411465.10) Pediococcus acidilactici 7_4 (563194.3) 194 193 1853 1858 188 187, 189, 190, 191 ediococcus acidilactici DSM 20284 (862514.3) 1196 1197 1410 1203 1199, 1200, 1201, 1202, 1204 Phascolarctobacterium sp. YIT 12067 (626939.3) Prevotella copri DSM 18205 (537011.5) 298, 4027 Prevotella oralis HGA0225 (1203550.3) 1139, 2050, 2182 Prevotella salivae DSM 15606 (888832.3) 518, 1151, 1565, 1571 Propionibacterium sp. 5_U_42AFAA (450748.3) 572 575, 576, 577 252, 2246 553, 2413 Propionibacterium sp. HGH0353 (1203571.3) 2212 1217 Proteus mirabilis WGLW6 (1125694.3) 2020 2025 2026 2031 2021, 2022, 2023, 2024 Proteus penneri ATCC 35198 (471881.3) 843, 844 851, 852, 853 854, 855 863 845, 846, 847, 848, 849, 850 Providencia alcalifaciens DSM 30120 (520999.6) Providencia rettgeri DSM 1131 (521000.6) 1206 1201 1200 1195 1202, 1203, 1204, 1205 1693 Providencia rustigianii DSM 4541 (500637.6) 404, 6686 398, 6692 397, 6693 391, 6699 399, 400, 401, 6688, 6689, 6690, 6691 Providencia stuartii ATCC 25827 (471874.6) 3067 3061 3060 3066 3062, 3063, 3064, 3065 3256 966, 2757 Pseudomonas sp. 2_1_26 (665948.3) Ralstonia sp. 5_7_47FAA (658664.3) 4146 Roseburia intestinalis L1-82 (536231.5) 3250 3251, 3252, 3253, 3255 423 1506 Roseburia intestinalis M50/1 (657315.3) 3559 3553, 3554, 3556, 3557, 3558 796 Roseburia intestinalis XB6B4 (718255.3) 2521 2522, 2523, 2524, 2526 2929 1473 Roseburia inulinivorans DSM 16841 (622312.4) 1688 1694, 1695, 1696 2587 Ruminococcaceae bacterium D16 (552398.3) 347 343, 344, 345 2512 Ruminococcus bromii L2-63 (657321.5) 848 Ruminococcus gnavus ATCC 29149 (411470.6) 915 911 1054 1048, 1393, 1394, 1395 Ruminococcus lactaris ATCC 29176 (471875.6) 1843 1845, 1846, 1847 1628, 1662, 2484 1632, 1871 Ruminococcus obeum A2-162 (657314.3) 1719 1715 2912 3540, 3541, 3542 Ruminococcus obeum ATCC 29174 (411459.7) 3062 3053, 3066 339 342, 343, 344, 347 Ruminococcus sp. 18P13 (213810.4) Ruminococcus sp. 5_1_39BFAA (457412.4) 611 1422, 1423, 1424 Ruminococcus sp. SR1/5 (657323.3) 3503 3507 1418 1413, 1414, 1415 Ruminococcus torques ATCC 27756 (411460.6) 613 609 616 615 1844 604, 605, 606, 608 1837, 1840, 1841, 1842, 1850 22, 1627, 2034 442, 984, 994 Ruminococcus torques L2-14 (657313.3) 554 558, 2221 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (99287.12) 3456 3452, 4000 Staphylococcus sp. HGB0015 (1078083.3) 1680 1672 1673 784, 1674 1675 1676, 1677, 1678, 1679 treptococcus anginosus 1_2_62CV (742820.3) 1750 118, 1751 1745 1746, 1747, 1748, 1749 Streptococcus equinus ATCC 9812 (525379.3) 297 Streptococcus infantarius subsp. infantarius ATCC BAA-102 (471872.6) 266, 654 653 Streptococcus sp. 2_1_36FAA (469609.3) 62 703, 1476, 1483 1475, 1482 57 58, 59, 60, 61 419 Streptococcus sp. HPH0090 (1203590.3) 1441 193, 397 398 1446 1442, 1443, 1444, 1445 1002, 1048, 1448 Streptomyces sp. HGB0020 (1078086.3) 3644 2898, 3737, 5165, 8190 1167, 2955, 4922, 5130, 8394 Streptomyces sp. HPH0547 (1203592.3) 4042 43, 2838, 5766 389, 2269, 2386, 2503 Subdoligranulum sp. 4_3_54A2FAA (665956.3) 447 443, 444, 445 204, 1927, 2746, 3106, 4057 Subdoligranulum variabile DSM 15176 (411471.5) 2375, 3110 2377, 2378, 2379, 3112, 3113, 3114 1056, 4229 Succinatimonas hippei YIT 12066 (762983.3) Sutterella wadsworthensis 3_1_45B (742821.3) Sutterella wadsworthensis HGA0223 (1203554.3) Tannerella sp. 6_1_58FAA_CT1 (665949.3) 1827 2544, 2545 Turicibacter sp. HGF1 (910310.3) 1114 35 1113 1099 1100, 1101, 1110, 1116 302 Turicibacter sp. PC909 (702450.3) 369 1430 370 384 367, 373, 382, 383 806 Veillonella sp. 3_1_44 (457416.3) 839, 889 Veillonella sp. 6_1_27 (450749.3) 879, 940 Weissella paramesenteroides ATCC 33313 (585506.3) Yokenella regensburgei ATCC 43003 (1002368.3) 1539 1538 1544 1537 1541, 1542, 1543 316 eacetylase Phospho-beta-galactosidase Phosphorylase Permease Alpha-N-acetylglucosaminidaseNagK1 NagK2 NagA NagB1 NagB2 GnbG LnbP NagE GnbPTS NgcEFG NgcABCD LnbABC NagP Bha3 Bha20 Ang
Abiotrophia defectiva ATCC 49176 (592010.4) 1693, 2925 1694, 2924 3045 1673, 1990, 1991, 2311, 2312, 2313, 2506, 2514, 2515, 2823, 2824 758, 759, 760, 3041, 3042, 3043 2689 Acidaminococcus sp. D21 (563191.3) 918 Acidaminococcus sp. HPA0509 (1203555.3) 1878 Acinetobacter junii SH205 (575587.3) Actinomyces odontolyticus ATCC 17982 (411466.7) 61, 1017 1628 1016 59 1022, 1023, 1024 Actinomyces sp. HPA0247 (1203556.3) 52 1177 50 130 Transporter is not foundAkkermansia muciniphila ATCC BAA-835 (349741.6) 1075 2070 421, 451, 986, 1169, 1892, 2063, 2191, 2301, 2302, 2446, 2460 2416 72, 1384 Alistipes indistinctus YIT 12060 (742725.3) 1108 1109, 1793, 1795 913, 2149, 2200 Alistipes shahii WAL 8301 (717959.3) 2772 2404, 2405 383, 2285, 3055, 3058, 3073 3053, 3056, 3057 1230 Anaerobaculum hydrogeniformans ATCC BAA-1850 (592015.5) Anaerococcus hydrogenalis DSM 7454 (561177.4) Anaerofustis stercorihominis DSM 17244 (445971.6) Anaerostipes caccae DSM 14662 (411490.6) 46 47, 2358, 3068 48, 48 1081 Anaerostipes hadrus DSM 3319 (649757.3) 1969 163 1970, 1970, 1971 1225 Anaerostipes sp. 3_2_56FAA (665937.3) 3347 269, 3346 3345, 3345 188 Anaerotruncus colihominis DSM 17241 (445972.6) 2267 2258, 2268, 2817 2270, 2270 Bacillus smithii 7_3_47FAA (665952.3) 1254 78 1752, 1752 2068 Bacillus sp. 7_6_55CFAA_CT2 (665957.3) 821 822 5203, 5203 Bacillus subtilis subsp. subtilis str. 168 (224308.113) 3601 235, 3602 801, 801 3350, 3351 167 Bacteroides caccae ATCC 43185 (411901.7) 321 771, 772 1643, 2122 1016, 1017, 1021, 2633, 2643, 2667, 3165, 3362, 3410, 3423, 3502, 3508 325, 2648 245, 1846, 2376 Bacteroides capillosus ATCC 29799 (411467.6) 2734 1155, 2735 848 850, 851, 852 1352 Bacteroides cellulosilyticus DSM 14838 (537012.5) 976, 2271 2425 3600 2424, 2830, 4912, 4996 975 37, 950, 1188, 2126, 2422, 3129 1267, 2062, 2066, 2067, 2104 1796, 2025 Bacteroides clarus YIT 12056 (762984.3) 2106, 2501 203, 337 336, 2802 2502 1623, 2048, 3000 2102 Bacteroides coprocola DSM 17136 (470145.6) 1566 538, 539 41, 42 463, 908, 914, 915, 2401, 3707 46, 1649, 1996 Bacteroides coprophilus DSM 18228 (547042.5) 2945 2344, 2345 788, 789 578, 782, 783, 896, 1099, 1246, 1558, 2137, 2288, 2913, 2914, 3123 547, 1770, 2949 2066, 3031, 3260 Bacteroides dorei DSM 17855 (483217.6) 364 505, 639 654, 655 474, 630, 634, 636, 1087, 1401, 1441, 2459, 3166, 3335 415, 575 2803, 4255
Table S5.
Genes involved in depletion and utilization of N-acetylglucosamine. The PubSEED identifiers are shown. For details on analyzed organisms see Table S1, for details on gene functions see Table S2.
Organism (PubSEED ID) Problems (if any)Beta-hexosaminidaseDeaminaseKinase PTS systems TransportCatabolic pathway ABC systems Hydrolases acteroides eggerthii 1_2_48FAA (665953.3) 2039, 3592 298, 626 297, 1611, 2158 2040 670, 1693 3587, 3588 Bacteroides eggerthii DSM 20697 (483216.6) 54, 2641 1738, 2008 1074, 1579, 1737 53 352 2645 Bacteroides finegoldii DSM 17565 (483215.6) 3013, 3346 2724, 2725 1318, 2171 3014 532, 1700, 2282, 2283, 3069 3350, 3645 2273 Bacteroides fluxus YIT 12057 (763034.3) 2480, 3111 692, 2829 693, 1162, 1850 1188, 2029, 2231, 2698, 2717, 3256, 3264 3105, 3106 1695, 2256 Bacteroides fragilis 3_1_12 (457424.5) 2418 2892, 3090 1880, 3091 387, 391, 393, 888, 952, 1609, 1929, 2578, 3292, 3295, 3302, 3599 2412, 2413 9 Bacteroides fragilis 638R (862962.3) 572 2840, 3043 987, 3044 391, 738, 1038, 1739, 1743, 1745, 2289, 3199, 3202, 3210, 3823, 4278 576, 577 670 Bacteroides fragilis NCTC 9343 (272559.17) 498 2771, 2978 894, 2979 321, 656, 943, 1778, 1782, 1784, 2181, 3119, 3122, 3130, 3685, 4157 502, 503 593 Bacteroides fragilis YCH46 (295405.11) 577 2648, 2983 982, 2984 405, 752, 1030, 1679, 1683, 1685, 2074, 3116, 3119, 3127, 3668, 4100 581, 582 689 Bacteroides intestinalis DSM 17393 (471870.8) 168, 528 2678, 4191, 4686 561, 789, 796, 797, 1715, 3500, 3952 507, 512, 513, 1330 1420 Bacteroides ovatus 3_8_47FAA (665954.3) 3368, 4519 1101, 1102, 2899 2900, 3004, 3613 3367 1381, 2124, 2395, 2808, 3273, 4373, 4374, 4576, 4727, 4728 4523 69, 73, 4744 Bacteroides ovatus ATCC 8483 (411476.11) 541, 4656 126, 127, 2864 1505, 2863, 4190 4655 993, 994, 1351, 1728, 1872, 1873, 2004, 2490, 2619, 2959, 3245, 3718, 4371 537, 2236, 2315 751, 755, 1396, 4409 Bacteroides ovatus SD CC 2a (702444.3) 434, 2613 1675, 4485, 4486 80, 301, 1676 435 17, 351, 2781, 3077, 3387, 3388, 3417, 3889, 4736, 4737 2617, 4819 4024, 4836, 4841, 4842 Bacteroides ovatus SD CMC 3f (702443.3) 4854, 5435 2084, 2579, 2580 1903, 2083, 4919 5436 992, 1159, 1160, 2371, 2619, 2620, 3221, 3235, 4196, 4730, 4966 85, 4858 731, 732, 2332, 3299, 3300, 3304 Bacteroides pectinophilus ATCC 43243 (483218.5) Bacteroides plebeius DSM 17135 (484018.6) 2792 1144, 1145 1772, 1773 130, 896, 897, 975, 1279, 2458, 2642 38 3368 Bacteroides sp. 1_1_14 (469585.3) 1329, 4768 2384, 2385, 3522 884, 1890, 3521 1328 199, 257, 792, 1057, 1142, 1145, 1146, 1358, 1402, 1640, 3200, 3206, 3532, 4136, 4666 4779 222, 223, 1120, 1121, 2642, 3524 acteroides sp. 1_1_30 (457387.3) 2726, 4422 2, 3, 2647 2082, 2646, 2976 2725 708, 1297, 1298, 1543, 3697, 3699, 4488, 4508, 5025, 5183 4426 2392, 2396 Bacteroides sp. 1_1_6 (469586.3) 3762, 4640 851, 852, 3379 387, 2281, 3378 3761 134, 137, 138, 411, 1045, 2012, 2068, 2556, 2810, 2823, 3389, 3851, 4611, 4797, 4798, 4805 4596 106, 2045, 3381 Bacteroides sp. 2_1_16 (469587.3) 658, 4134 3151, 3353 1274, 3150 591, 1325, 1888, 1892, 1894, 1999, 2563, 3001, 3009, 3012, 3739 2732, 2733 1943 Bacteroides sp. 2_1_22 (469588.3) 2728 22, 1957, 1958 23, 2634 2253 466, 1602, 1680, 1681, 2803, 2804, 3590, 4190, 4551 577, 4138 799, 803, 2786 Bacteroides sp. 2_1_33B (469589.3) 2254, 4134 2237, 3381, 3382 1848, 3380 225, 808, 1625, 3100, 3882 930, 931, 2907 Bacteroides sp. 2_1_56FAA (665938.3) 1691, 1827 4456, 4702 1060, 4455 381, 808, 1112, 1929, 1933, 1935, 2408, 3206, 3781, 3784, 3793 551, 552 733 Bacteroides sp. 2_1_7 (457388.5) 547 378, 3711, 3712 899, 3710 572, 1099, 1720, 3165, 3379, 4182 2424 Bacteroides sp. 2_2_4 (469590.5) 634, 878 3593, 5110, 5111 944, 1649, 3594 640 14, 149, 1391, 1392, 1963, 3277, 3278, 3733, 3966, 5483, 5484 378, 1260 2002, 4017, 4181, 4185, 5507 Bacteroides sp. 20_3 (469591.4) 383, 639 140, 1154, 1155 635, 1156 1415, 2485, 3124, 3326, 4195 1686, 4443 Bacteroides sp. 3_1_19 (469592.4) 11, 468 1012, 3516, 3517 448, 3518 818, 1473, 2927, 3315, 3888, 4241 2013 Bacteroides sp. 3_1_23 (457390.3) 3071, 3882 613, 614, 2739 953, 2738, 4269 3881 1589, 2061, 2417, 2840, 3135, 3642, 4446, 4721, 4722, 4762 1840, 1913, 3075 1372, 1376, 4498, 4705 Bacteroides sp. 3_1_33FAA (457391.3) 1295 1153, 1710 1694, 1695 912, 1190, 1713, 1715, 1719, 1868, 2842, 3673, 3737 1242 2250, 3916 Bacteroides sp. 3_1_40A (469593.3) 3670 3394, 3823 3409, 3410 234, 401, 832, 1025, 1946, 2532, 2838, 3385, 3389, 3391, 3790, 3791 3727, 3735 147, 3929 Bacteroides sp. 3_2_5 (457392.3) 609 1606, 1826 1565, 1827 455, 797, 1514, 1967, 1970, 1978, 2336, 3149, 4354, 4356, 4360 604, 605 518 Bacteroides sp. 4_1_36 (457393.3) 889 1614, 2968, 3374 268, 1837, 2096, 3003, 3266 33, 34, 38, 894, 895 Bacteroides sp. 4_3_47FAA (457394.3) 1599 774, 1459 787, 788 550, 765, 769, 771, 1365, 1489, 1710, 2458, 2952, 4574 1545 296, 2181 acteroides sp. 9_1_42FAA (457395.6) 54 417, 524 400, 401 420, 422, 426, 572, 2484, 2735, 3470, 3724, 3995 636 1032, 3912 Bacteroides sp. D1 (556258.5) 3521, 3924 2034, 2802, 2803 1395, 2035, 3157 3923 304, 1565, 1566, 1810, 3291, 3292, 3465, 3765, 4450 429, 3517 650, 654, 1548 Bacteroides sp. D2 (556259.3) 923, 4858 2681, 4490, 4491 617, 1394, 2682 924 392, 393, 1206, 1647, 2103, 2592, 3265, 3716, 3717, 3971, 4792, 5047 2130, 4854 1169, 1597, 2384, 2388 Bacteroides sp. D20 (585543.3) 1646 411, 936, 2501 62, 292, 1194, 2336, 2558 1651, 1652, 1802, 1803, 1807 Bacteroides sp. D22 (585544.3) 2774, 3855 1563, 1564, 2093 2092, 2582, 4263 3854 145, 146, 1092, 1094, 1095, 1315, 1319, 1320, 1907, 2835, 3302, 3483, 3778, 4367 1093, 2778, 3070 542, 546 Bacteroides sp. HPS0048 (1078089.3) 1377, 3765 5, 729, 730, 1199, 1200, 1558, 2876, 2942, 2943, 2953, 3179, 3943, 3948, 3967 1104, 1105 409, 413, 1204, 2093, 2951 Bacteroides stercoris ATCC 43183 (449673.7) 383, 3289 97, 1575 1574, 2872 548, 1455, 1461, 2245, 2379, 2694, 3236 379 Bacteroides thetaiotaomicron VPI-5482 (226186.12) 2545, 4734 689, 690, 3647 259, 3646, 4194 4733 191, 456, 459, 460, 507, 1068, 1659, 1665, 2517, 3240, 3657, 3930, 4413, 4472, 4761 2501 437, 3649, 4436 Bacteroides uniformis ATCC 8492 (411479.10) 696 181, 1567, 1758 43, 999, 1376, 1724, 3172 689, 690, 3474, 3475, 3478 Bacteroides vulgatus ATCC 8482 (435590.9) 198 60, 4244 4231, 4232 89, 404, 552, 1244, 2282, 3342, 4247, 4249, 4253 150 1927 Bacteroides vulgatus PC510 (702446.3) 2291 760, 1928 466, 467 216, 649, 709, 763, 765, 769, 1958, 2250, 2425, 2896 1436 517, 2736 Bacteroides xylanisolvens SD CC 1b (702447.3) 3634, 4395 2747, 2748, 4648 2400, 2508, 4647 3635 129, 130, 350, 1720, 1721, 2100, 3926, 3927, 4163, 4692 2034, 4399 1110, 1114, 2046 Bacteroides xylanisolvens XB1A (657309.4) 515, 2695 1696, 2448, 2449 1695, 2032, 3239 2694 73, 74, 573, 1113, 2296, 3256, 3618, 3931, 4504, 4505 520, 984 731, 735, 1850, 3263 Barnesiella intestinihominis YIT 11860 (742726.3) 2704, 2705 101, 308, 379, 380, 513, 2614, 2835, 2904, 2964, 2975 2312 2781, 2785, 2966 Bifidobacterium adolescentis L2-32 (411481.5) 1801 59 1797, 1798, 1799, 1800 1012 Deaminase is not foundBifidobacterium angulatum DSM 20098 = JCM 7096 (518635.7) 565 566, 567, 568, 569 1101 Bifidobacterium animalis subsp. lactis AD011 (442563.4) 490, 492 1067 ifidobacterium bifidum NCIMB 41171 (398513.5) 479, 1224, 1226, 1507 1228, 1610 1227 481, 905 912, 912, 912 1229, 1231, 1232, 1233 482, 483, 484 441, 1540, 1769 133 1567 Bifidobacterium breve DSM 20213 = JCM 1192 (518634.7) 882, 883, 1821 880, 1824 881, 1823 1473 18, 19, 19 1394 524, 527, 1469, 1471, 1472 1506 744, 745 Bifidobacterium breve HPH0326 (1203540.3) 1043, 1412 1415 1414 1077 19, 20, 20 1159 507, 509, 510, 612, 613, 615, 616, 1078, 1079, 1081 1986, 1987 Bifidobacterium catenulatum DSM 16992 = JCM 1194 (566552.6) 190 948 Bifidobacterium dentium ATCC 27678 (473819.7) 909, 1413 907 1414, 1415, 1416, 1417 Deaminase is not foundBifidobacterium gallicum DSM 20093 (561180.4) 1408 1559 75 Bifidobacterium longum DJO10A (Prj:321) (205913.11) 493, 494, 495 491 492 1835 488, 489, 490 918, 923, 1022, 1023, 1837, 1838, 1839 1253 359 Bifidobacterium longum NCC2705 (206672.9) 198, 199, 200, 1746 202 201 1696 203, 204, 205, 206 875, 880, 995, 997, 1692, 1693, 1694 59 735 Bifidobacterium longum subsp. infantis 157F (565040.3) 1332, 1333, 1334 1330 1331 1729 1326, 1327, 1328, 1329 359, 360, 361, 1731, 1732, 1733 1471 625, 1342 Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222 (391904.8) 905 908 907 2251 2545, 2546, 2546 909, 910, 911, 2252, 2253, 2254 471, 748, 2431 1915 Bifidobacterium longum subsp. infantis ATCC 55813 (548480.3) 1366, 1367 1369 1368 648 1371, 1372, 1373 645, 646, 647 892 104 Bifidobacterium longum subsp. infantis CCUG 52486 (537937.5) 1377, 1379, 1380 641, 1382 1381 1177 1383, 1384, 1385, 1386 1173, 1174, 1175 2008 12 Bifidobacterium longum subsp. longum 2-2B (1161745.3) 341, 342, 343 339 340 514 338, 1977, 1978, 1979 515, 516, 517, 838, 839 1617 2072 Bifidobacterium longum subsp. longum 44B (1161743.3) 584, 585, 586 582 583 1601 581, 1033, 1034, 1035 103, 104, 105, 1598, 1599, 1600 1528 1807 Bifidobacterium longum subsp. longum F8 (722911.3) 1929, 1930, 1931 1933 1932 1599 1934, 1935, 1936, 1937 858, 859, 860, 1600, 1601, 1602 91 602 Bifidobacterium longum subsp. longum JCM 1217 (565042.3) 1308, 1309, 1310 1306 1307 1679 1302, 1303, 1304, 1305 458, 1680, 1681, 1682 1443 618 Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 (547043.8) 630, 1743 1740 1741 625, 626, 627, 628 1742 1008 Bifidobacterium sp. 12_1_47BFAA (469594.3) 1513, 1514, 1515 1518 1517 583 1519, 1913, 1914, 1915 475, 476, 585, 586, 587 78 277 Bilophila wadsworthia 3_1_6 (563192.3) 1035 Blautia hansenii DSM 20583 (537007.6) 2031, 2798 817, 2799 1753 2600, 2600, 2601 811, 812, 813, 1757, 1758 Blautia hydrogenotrophica DSM 10507 (476272.5) 3234 1236, 3311 583 585, 586, 587 646 Bryantella formatexigens DSM 14469 (478749.5) 4208 1279, 2475 1280, 2474 554 635, 756, 757, 771, 809, 810, 2012, 2013, 2014, 2497, 2499, 3680, 3841, 3842, 3994, 3995, 4151, 4152, 4153 550, 555, 556, 557 279 1695, 1696 Burkholderiales bacterium 1_1_47 (469610.4) butyrate-producing bacterium SM4/1 (245012.3) 1055 2299 butyrate-producing bacterium SS3/4 (245014.3) 646 647 butyrate-producing bacterium SSC/2 (245018.3) 1999 473 1992, 1993, 1993 131 utyricicoccus pullicaecorum 1.2 (1203606.4) 641, 2843 640, 640, 640, 1200, 1200, 1200 2205 Deacetylase is not foundButyrivibrio crossotus DSM 2876 (511680.4) Butyrivibrio fibrisolvens 16/4 (657324.3) 2729, 2730, 2731 1716 Campylobacter coli JV20 (864566.3) Campylobacter upsaliensis JV21 (888826.3) Catenibacterium mitsuokai DSM 15897 (451640.5) 1825 429, 989 281, 281, 281 704, 705, 706, 1150, 1856 1730 Cedecea davisae DSM 4568 (566551.4) 1464 959 960 961, 961, 961 Citrobacter freundii 4_7_47CFAA (742730.3) 2811 2812 2813, 2813, 2813 2064 Citrobacter sp. 30_2 (469595.3) 1778 1321 1322 1323, 1323, 1323 4080 Citrobacter youngae ATCC 29220 (500640.5) 1202 3177 3178 3179, 3179, 3179 659 Clostridiales bacterium 1_7_47FAA (457421.5) 3312, 4354 4352, 4353, 5717 4154 1669, 1669, 1671 4156, 4157, 4158 1584, 2883, 3168 Clostridium asparagiforme DSM 15981 (518636.5) 1833, 2622, 3333 94, 465, 906, 1839, 1840, 3334 694, 696, 696, 2125, 2125, 2125 1805, 2939, 3111 Clostridium bartlettii DSM 16795 (445973.7) 139, 323 Clostridium bolteae 90A5 (997893.5) 5207 6127 4812, 4894 4411 1740, 1742, 1742 4408, 4409, 4410 3453, 3548 Clostridium bolteae ATCC BAA-613 (411902.9) 4493 936, 1657 1483 3975, 3975, 3977 1480, 1481, 1482 5814, 5902 Clostridium celatum DSM 1785 (545697.3) 3277 2387 2573, 2574 297, 298, 298 2577, 2578, 2579 2632 163, 1196 2671 Clostridium cf. saccharolyticum K10 (717608.3) 1503 1504 436, 438, 438, 438 3073 Clostridium citroniae WAL-17108 (742733.3) 2681, 5553, 6173 2682, 5759, 6182 2512 205, 205, 205 132, 5679 Clostridium clostridioforme 2_1_49FAA (742735.4) 5004 1363, 4630 2652 1259, 1259, 1259 2653, 2655, 2656 2087 Clostridium difficile CD196 (645462.3) 925 926 3021, 3021, 3021 2509 Clostridium difficile NAP07 (525258.3) 1900 1899 1034, 1034, 1034, 1046, 1046, 1046 Clostridium difficile NAP08 (525259.3) 1964 1965 1160, 1160, 1160, 1706, 1706, 1706 Clostridium hathewayi WAL-18680 (742737.3) 627, 3547, 4459, 4554 352 621, 3525, 4460, 5054 4106, 4107 2326, 2326, 2326, 5033, 5033, 5033 4108, 4109, 4110 960, 1448, 1593, 3978, 4273 Clostridium hiranonis DSM 13275 (500633.7) 1746 1747 1544, 1546, 1549 Clostridium hylemonae DSM 15053 (553973.6) 2858 1168, 2865, 3353 3210 3213, 3214, 3215 Clostridium leptum DSM 753 (428125.8) 602 755 744 Clostridium methylpentosum DSM 5476 (537013.3) Clostridium nexile DSM 1787 (500632.7) 656 655 1721 3724, 3724, 3725 1712, 1713, 1714, 3026, 3027, 3028 613, 614, 1955 2441 Clostridium perfringens WAL-14572 (742739.3) 1842 2487 1927 515, 515, 515, 3169, 3170, 3170 1921, 1922, 1923 679, 1027 2776 305, 307 Clostridium ramosum DSM 1402 (445974.6) 861 2050, 2352 575, 1785, 1946, 2908 1039 501, 501, 501, 2453, 2453, 2454 1030, 1034, 1035, 1036, 1038 1501, 1517, 1518 741, 1205, 1472, 1631, 2275 Clostridium scindens ATCC 35704 (411468.9) 432 2964 2966 117, 118, 119, 2960, 2961, 2962 lostridium sp. 7_2_43FAA (457396.3) 2860 21 3457 1466, 1466, 1466, 3463, 3464, 3464 3455, 3456, 3459 69, 139, 2261 87, 117, 2545 Clostridium sp. 7_3_54FAA (665940.3) 2695 1895, 4893 3618 4282 Clostridium sp. D5 (556261.3) 748 967, 4582 1045, 4581 3342, 819 4585, 4586, 4586 820, 821, 822, 2033, 2034, 2037, 2038, 2039 Clostridium sp. HGF2 (908340.3) 1346, 1992, 2904 1341, 2679, 2681, 2682 1474, 2964 2962, 2965, 2966, 2967 Clostridium sp. L2-50 (411489.7) 1103, 2279 Clostridium sp. M62/1 (411486.3) 2355 2354 2007, 2007, 2009 883 Clostridium sp. SS2/1 (411484.7) 986 2340 979, 980, 980 1928 Clostridium spiroforme DSM 1552 (428126.7) 1540 366, 367, 367 436, 1806, 1927, 2020, 2021 110, 632, 1502, 1503 2029 Deacetylase is not foundClostridium sporogenes ATCC 15579 (471871.7) 804 805, 1535 799, 799, 800, 895, 895, 895 2051, 2052 Clostridium symbiosum WAL-14163 (742740.3) 2736 2149, 4897 366 2861 Clostridium symbiosum WAL-14673 (742741.3) 3393 2975, 3644 150 3939 Collinsella aerofaciens ATCC 25986 (411903.6) 658 2047 2048, 2049, 2050, 2059 Collinsella intestinalis DSM 13280 (521003.7) 314 769 Collinsella stercoris DSM 13279 (445975.6) 635 294, 636 127 128, 129, 130, 132 284, 945, 1661 363, 1473 581 Kinase is not foundCollinsella tanakaei YIT 12063 (742742.3) 1224 Coprobacillus sp. 29_1 (469596.3) 1355, 1361, 2040, 2663 2041, 3024, 3096, 3832 1527 249, 250, 250 1528, 1530, 1531, 1532 242 Coprobacillus sp. 3_3_56FAA (665941.3) 2598 1314 2932, 3323 1994, 2330, 2561, 3427 1492 669, 670, 670, 1891, 1891, 1891, 2636, 2636, 2636 1483, 1487, 1488, 1489, 1491 940, 941, 946, 3081, 3097, 3098 2379, 2856, 3052 Coprobacillus sp. 8_2_54BFAA (469597.4) 2541 414 1380, 3382 1035, 2587, 2822, 3276 596 933, 933, 933, 1837, 1837, 1838, 2502, 2502, 2502 586, 591, 592, 593, 595 3167, 3174, 3175, 3518, 3519, 3535, 3563 1455, 2774 Coprobacillus sp. D6 (556262.3) 285, 2085, 3380, 3386 2086, 2441, 2512, 3558 3551 1429, 1429, 1430 3552, 3554, 3555, 3556 1437 Coprococcus catus GD/7 (717962.3) 1169 1168 894 Kinase is not foundCoprococcus comes ATCC 27758 (470146.3) 921 920 922, 923, 924, 925 1105, 1106, 1107, 1108 Coprococcus eutactus ATCC 27759 (411474.6) 1610 Coprococcus sp. ART55/1 (751585.3) 1312 Coprococcus sp. HPP0048 (1078091.3) 1628 2398 2284 2658, 2658, 2659, 2662 2290, 2291, 2292 2618 Coprococcus sp. HPP0074 (1078090.3) 2570 2160 2064 2799, 2799, 2801 2070, 2071, 2072 2765, 2846 Corynebacterium ammoniagenes DSM 20306 (649754.3) 1162 1163, 1365 1366, 1366, 1366 1483 Corynebacterium sp. HFH0082 (1078764.3) 1058 Dermabacter sp. HFH0086 (1203568.3) 1885 1448 1303, 1303, 1303 Desulfitobacterium hafniense DP7 (537010.4) 2421 3307 2987 Desulfovibrio piger ATCC 29098 (411464.8) Desulfovibrio sp. 3_1_syn3 (457398.5) 2651 Dorea formicigenerans 4_6_53AFAA (742765.5) 2580 446, 2581 703 Kinase is not foundDorea formicigenerans ATCC 27755 (411461.4) 298 291, 2352 2626, 2627 351 Kinase is not foundorea longicatena DSM 13814 (411462.6) 1626 1532, 1619 Dysgonomonas gadei ATCC BAA-286 (742766.3) 692 2316 2317, 2594, 2595 1924, 4134 2324, 3483 Dysgonomonas mossii DSM 22836 (742767.3) 2584 660, 661 1263, 1693 48, 1500 Edwardsiella tarda ATCC 23685 (500638.3) 1136 1782 1781 1780, 1780, 1780 1775 Eggerthella sp. 1_3_56FAA (665943.3) 2466 2467 Eggerthella sp. HGA1 (910311.3) 209 208 Enterobacter cancerogenus ATCC 35316 (500639.8) 942 2210 2211 2212, 2212, 2212 4025 Enterobacter cloacae subsp. cloacae NCTC 9394 (718254.4) 1109 1518 1108, 1108, 1108 3658 Enterobacteriaceae bacterium 9_2_54FAA (469613.3) 358 359 360, 360, 360 364 Enterococcus faecalis PC1.1 (702448.3) 45 1967 1848, 1848, 1848 Enterococcus faecalis TX0104 (491074.3) 15 2461, 2476 437 139, 139, 139 433, 434, 435, 436 2298, 2299, 2300 2801 Enterococcus faecalis TX1302 (749513.3) 2003 133 2416 2138, 2138, 2138, 2489, 2489, 2489 2412, 2413, 2414, 2415 1499, 1500 506 Enterococcus faecalis TX1322 (525278.3) 703 2324 298 583, 583, 583 299, 300, 301, 302 1350, 1351 2575 Enterococcus faecalis TX1341 (749514.3) 2552 1562 1918 498, 498, 498 1919, 1920, 1921, 1922 2836, 2837 1112 Enterococcus faecalis TX1342 (749515.3) 2106 1412, 1427 2519 2233, 2233, 2233 2515, 2516, 2517, 2518 1957, 1958 Enterococcus faecalis TX1346 (749516.3) 537 1072, 1088 1836 2628, 2628, 2628 1837, 1838, 1839, 1840 1257, 1258 2280 Enterococcus faecalis TX2134 (749518.3) 2963 1085 1253 579, 579, 579 1254, 1255, 1256, 1257 2660 1827 Enterococcus faecalis TX2137 (749491.3) 877 1795 306 752, 752, 752 302, 303, 304, 305 2801, 2802 1356 Enterococcus faecalis TX4244 (749494.3) 1240 2109 1652 1381, 1381, 1381 1648, 1649, 1650, 1651 2253, 2254 1917 Enterococcus faecium PC4.1 (791161.5) 46 2035 1910, 1910, 1910 Enterococcus faecium TX1330 (525279.3) 1138 1885 2166, 2166, 2166 Enterococcus saccharolyticus 30_1 (742813.4) 2285 1520 1809 1810, 1811, 1812, 1813 981 Enterococcus sp. 7L76 (657310.3) 2584 1762, 1776 240 2773, 2773, 2773 236, 237, 238, 239 545 Erysipelotrichaceae bacterium 2_2_44A (457422.3) 785, 2394, 3564 791, 1901, 1903, 1904, 2307 1268, 4021 3495, 3496, 3497, 3500 Erysipelotrichaceae bacterium 21_3 (658657.3) 1077, 2652, 3964 1072, 2200, 2202, 2203, 2568 3498, 531 4019, 4022, 4023, 4024 Erysipelotrichaceae bacterium 3_1_53 (658659.3) 53, 902, 1588 47, 3873 1540, 305 1537, 1538, 1539, 1542 Erysipelotrichaceae bacterium 5_2_54FAA (552396.3) 56, 1943, 2205 2201 2260, 2266 73, 73 2257, 2258, 2261, 2262, 2263 2652 2413, 2593 Erysipelotrichaceae bacterium 6_1_45 (469614.3) 1143, 2928, 4186 399, 400, 402, 2847, 4181 1202, 4306 1200, 1203, 1204, 1205 Escherichia coli 4_1_47FAA (1127356.4) 479 480 482, 482, 482 Escherichia coli MS 107-1 (679207.4) 1836 2785 2784 2782, 2782, 2782 scherichia coli MS 115-1 (749537.3) 3985 3984 3982, 3982, 3982 Escherichia coli MS 116-1 (749538.3) 2112 4287 4288 4290, 4290, 4290 Escherichia coli MS 119-7 (679206.4) 871 4582, 5234 4583 4585, 4585, 4585 Escherichia coli MS 124-1 (679205.4) 4108 682 683 685, 685, 685 Escherichia coli MS 145-7 (679204.3) 3623 2594 2593 2591, 2591, 2591 Escherichia coli MS 146-1 (749540.3) 1147 2459 2458 2456, 2456, 2456 Escherichia coli MS 175-1 (749544.3) 1972 Escherichia coli MS 182-1 (749545.3) 839 4959 4958 4956, 4956, 4956 Escherichia coli MS 185-1 (749546.3) 4731 129 130 132, 132, 132 Escherichia coli MS 187-1 (749547.3) 666 3717 3718 3720, 3720, 3720 Escherichia coli MS 196-1 (749548.3) 5030 4456 4455 4453, 4453, 4453 Escherichia coli MS 198-1 (749549.3) 1124 4821 4822 4824, 4824, 4824 Escherichia coli MS 200-1 (749550.3) 2046 4782 4781 4779, 4779, 4779 Escherichia coli MS 21-1 (749527.3) 3367 2619 2618 2616, 2616, 2616 Escherichia coli MS 45-1 (749528.3) 764 3971 3970 3968, 3968, 3968 Escherichia coli MS 69-1 (749531.3) 3045 4037 4036 4034, 4034, 4034 Escherichia coli MS 78-1 (749532.3) 3612 3613 3615, 3615, 3615 Escherichia coli MS 79-10 (796392.4) 4513 2328 2329 2331, 2331, 2331 Escherichia coli MS 84-1 (749533.3) 650 5347 5348 5350, 5350, 5350 Escherichia coli MS 85-1 (679202.3) 4732 2801 2800 2798, 2798, 2798 Escherichia coli O157:H7 str. Sakai (386585.9) 1599 819 820 822, 822, 822 Escherichia coli SE11 (409438.11) 1320 861 862 864, 864, 864 Escherichia coli SE15 (431946.3) 1068 631 632 634, 634, 634 Escherichia coli str. K-12 substr. MG1655 (511145.12) 1165 702 703 705, 705, 705 Escherichia coli UTI89 (364106.8) 1322 766 767 769, 769, 769 Escherichia sp. 1_1_43 (457400.3) Escherichia sp. 3_2_53FAA (469598.5) 819 341 340 338, 338, 338 Escherichia sp. 4_1_40B (457401.3) 1071 1840 1839 1837, 1837, 1837 Eubacterium biforme DSM 3989 (518637.5) 272 30 1074 2113, 2113, 2113 1075, 1077, 1078, 1079 Eubacterium cylindroides T2-87 (717960.3) 1444 1442, 1443 1438, 1439, 1441 Eubacterium dolichum DSM 3991 (428127.7) 276, 845 282 721, 1589 44, 1823, 1958 31 Eubacterium hallii DSM 3353 (411469.3) 1642 1639 1337 Eubacterium rectale DSM 17629 (657318.4) 602 601 2888 603, 604, 604 2884, 2885, 2886 2338 Eubacterium rectale M104/1 (657317.3) 1724 1725 959 1722, 1722, 1723 955, 956, 957, 2443, 2444, 2445 1569 Eubacterium siraeum 70/3 (657319.3) Eubacterium siraeum DSM 15702 (428128.7) 2364 Eubacterium siraeum V10Sc8a (717961.3) 2382 Eubacterium sp. 3_1_31 (457402.3) 303, 1628, 2852 307 231, 238 2834, 2834, 2834 235, 236, 237, 240 1992 Eubacterium ventriosum ATCC 27560 (411463.4) 865 864, 1748, 2197 861, 862, 862 Faecalibacterium cf. prausnitzii KLE1255 (748224.3) 7 2586 1728, 1728, 1728 2582, 2583, 2584 Faecalibacterium prausnitzii A2-165 (411483.3) 104 105 1155 106, 106 137 1151, 1152, 1153 152 aecalibacterium prausnitzii L2-6 (718252.3) 1289 113 115, 116, 117, 3087, 3088, 3089 Faecalibacterium prausnitzii M21/2 (411485.10) 1937 498, 1059 2375 1936, 1936, 1936, 1938 2377, 2378, 2379 Faecalibacterium prausnitzii SL3/3 (657322.3) 1777 847, 901 2621 1776, 1776, 1778 2617, 2618, 2619 Fusobacterium gonidiaformans ATCC 25563 (469615.3) 53 1472 374, 374, 374 Fusobacterium mortiferum ATCC 9817 (469616.3) 1073, 1669 1668 2480, 2480, 2480 Fusobacterium necrophorum subsp. funduliforme 1_1_36S (742814.3) 1309, 1310 1481, 1482 1332, 1332, 1332, 2260, 2260, 2260 Fusobacterium sp. 1_1_41FAA (469621.3) 980 1079 1513, 1513, 1513 Fusobacterium sp. 11_3_2 (457403.3) 178 442 1444, 1444, 1444 Fusobacterium sp. 12_1B (457404.3) 625 1423 47, 47, 47, 1116, 1116, 1116, 1267, 1267, 1267, 2580, 2580, 2580 Fusobacterium sp. 2_1_31 (469599.3) 525 398 1457, 1457, 1457 Fusobacterium sp. 21_1A (469601.3) 733 933 198, 198, 198 Fusobacterium sp. 3_1_27 (469602.3) 828 818 1665, 1665, 1665 Fusobacterium sp. 3_1_33 (469603.3) 768 550 1391, 1391, 1391 Fusobacterium sp. 3_1_36A2 (469604.3) 1169 1179 509, 509, 509 Fusobacterium sp. 3_1_5R (469605.3) 150 72 353, 353, 353 Fusobacterium sp. 4_1_13 (469606.3) 1527 1537 722, 722, 722 Fusobacterium sp. 7_1 (457405.3) 780 470 1659, 1659, 1659 Fusobacterium sp. D11 (556264.3) 1986 239 1019, 1019, 1019 Fusobacterium sp. D12 (556263.3) 1492 1065 787, 787, 787 Fusobacterium ulcerans ATCC 49185 (469617.3) 195 2144 654, 654, 654, 1200, 1200, 1200, 2284, 2284, 2284 Fusobacterium varium ATCC 27725 (469618.3) 2033 2614 1725, 1725, 1725, 2388, 2388, 2388, 2433, 2433, 2849, 2849, 2849 Gordonibacter pamelaeae 7-10-1-b (657308.3) 1694 Hafnia alvei ATCC 51873 (1002364.3) 4024 2230, 4025 4026, 4026, 4026 4030 Helicobacter bilis ATCC 43879 (613026.4) Helicobacter canadensis MIT 98-5491 (Prj:30719) (537970.9) Helicobacter cinaedi ATCC BAA-847 (1206745.3) Helicobacter cinaedi CCUG 18818 (537971.5) Helicobacter pullorum MIT 98-5489 (537972.5) Helicobacter winghamensis ATCC BAA-430 (556267.4) Holdemania filiformis DSM 12042 (545696.5) 1184, 1185, 2175 1188, 1784, 2076 2165, 2165, 2165 1238 Klebsiella pneumoniae 1162281 (1037908.3) 2760 2761 2762, 2762, 2762 lebsiella pneumoniae subsp. pneumoniae WGLW5 (1203547.3) 849 850 851, 851, 851 Klebsiella sp. 1_1_55 (469608.3) 2261 1792 1793 1794, 1794, 1794 Klebsiella sp. 4_1_44FAA (665944.3) 1579 1580 1581, 1581, 1581 Lachnospiraceae bacterium 1_1_57FAA (658081.3) 1668 613 605, 606, 615, 616, 617, 620 471, 480, 1560 1077 Lachnospiraceae bacterium 1_4_56FAA (658655.3) 2720 941 359 938, 938, 939 53, 54, 55, 56 1305, 1436, 2820 Lachnospiraceae bacterium 2_1_46FAA (742723.3) 1212 1213 1802 481, 482, 482 1316, 1389 1388, 1390 1922 Lachnospiraceae bacterium 2_1_58FAA (658082.3) 2454 618 1677 615, 615, 615 1671, 1683, 2212, 2213, 2214 507 Lachnospiraceae bacterium 3_1_46FAA (665950.3) 1250 2413 2406, 2407, 2415, 2416, 2417, 2420 1149, 2283 2534 Lachnospiraceae bacterium 3_1_57FAA_CT1 (658086.3) 7342 7343 2098, 6940 7344, 7344, 7347 2099, 2100, 2101 4301 998, 3499 Lachnospiraceae bacterium 4_1_37FAA (552395.3) 1969 2419 2536 2948, 2948, 2949, 2952 2527, 2528, 2529 1742, 2355, 2915 Lachnospiraceae bacterium 5_1_57FAA (658085.3) 1669 241 243 237, 238, 239, 1688, 1689, 1690 Lachnospiraceae bacterium 5_1_63FAA (658089.3) 982 1692 983, 983, 984 2486 Lachnospiraceae bacterium 6_1_63FAA (658083.3) 1271, 2492 1272, 1614 642 1066, 1066, 1067 646, 647, 1608, 1609, 1610 Lachnospiraceae bacterium 7_1_58FAA (658087.3) 3534, 3860 3535, 3861 Lachnospiraceae bacterium 8_1_57FAA (665951.3) 1984 851 844, 847, 848, 849, 857, 858 980, 2091 1478 Lachnospiraceae bacterium 9_1_43BFAA (658088.3) 1719 2131 2228 2582, 2582, 2583, 2586 2220, 2221, 2222 31, 186, 2068, 2545, 2634, 2639 Lactobacillus acidophilus ATCC 4796 (525306.3) 39 1612 Lactobacillus acidophilus NCFM (272621.13) 1433 140 1852 1564 Lactobacillus amylolyticus DSM 11664 (585524.3) 417 1310 909 1618 Transporter is not foundLactobacillus antri DSM 16041 (525309.3) 1891 1892 Lactobacillus brevis ATCC 367 (387344.15) 520 666 Lactobacillus brevis subsp. gravesensis ATCC 27305 (525310.3) 2620 1041 Lactobacillus buchneri ATCC 11577 (525318.3) 1815 778 Lactobacillus casei ATCC 334 (321967.11) 1787 2831 315 Lactobacillus casei BL23 (543734.4) 1929 2971 276 277, 278, 279, 280 271 Lactobacillus crispatus 125-2-CHN (575595.3) 764 1861 1510 Transporter is not foundLactobacillus delbrueckii subsp. bulgaricus ATCC 11842 (390333.7) 177 1918 Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365 (321956.7) 171 1913 Transporter is not foundLactobacillus fermentum ATCC 14931 (525325.3) Lactobacillus fermentum IFO 3956 (334390.5) Lactobacillus gasseri ATCC 33323 (324831.13) 1559 1776 17 116, 117, 118, 119, 124 Lactobacillus helveticus DPC 4571 (405566.6) 1656, 1657 2205 Lactobacillus helveticus DSM 20075 (585520.4) 1317 60 Lactobacillus hilgardii ATCC 8290 (525327.3) 2003 653 Lactobacillus johnsonii NCC 533 (257314.6) 1610 1824 16 128, 129, 130, 131, 135 Lactobacillus paracasei subsp. paracasei 8700:2 (537973.8) 835 1126 2333 2334, 2335, 2336, 2337 2328, 2784 Lactobacillus paracasei subsp. paracasei ATCC 25302 (525337.3) 687 1689 1132, 1133, 1134 1050 Lactobacillus plantarum 16 (1327988.3) 501 207 2068, 2068, 2068, 2408, 2408, 2408 actobacillus plantarum subsp. plantarum ATCC 14917 (525338.3) 1151 160 990, 990, 990, 991, 991, 991, 2851, 2851, 2851 Lactobacillus plantarum WCFS1 (220668.9) 466 188 2129, 2129, 2129, 2478, 2478, 2478 Lactobacillus reuteri CF48-3A (525341.3) 1764 Lactobacillus reuteri DSM 20016 (557436.4) 1035 Lactobacillus reuteri F275 (299033.6) 1010 Lactobacillus reuteri MM2-3 (585517.3) 1454 Lactobacillus reuteri MM4-1A (548485.3) 967 Lactobacillus reuteri SD2112 (491077.3) 1846 Lactobacillus rhamnosus ATCC 21052 (1002365.5) 1920 1648 427, 428 429, 430, 431, 432 Lactobacillus rhamnosus GG (Prj:40637) (568703.30) 1869 2936 336, 337 338, 340, 341, 342 435 Lactobacillus rhamnosus LMS2-1 (525361.3) 799 1698 1786 1787, 1788, 1789, 1791 Lactobacillus ruminis ATCC 25644 (525362.3) 2024 234 602 Lactobacillus sakei subsp. sakei 23K (314315.12) 1555 409 58, 58, 58 Lactobacillus salivarius ATCC 11741 (525364.3) 1583 1584 1471, 1472 Lactobacillus salivarius UCC118 (362948.14) 1549 1548 1663 Lactobacillus sp. 7_1_47FAA (665945.3) 1083 617 718 849 850, 851, 852, 853 1052 Lactobacillus ultunensis DSM 16047 (525365.3) 1503 1964 1115 Transporter is not foundLeuconostoc mesenteroides subsp. cremoris ATCC 19254 (586220.3) 791 850 Listeria grayi DSM 20601 (525367.9) 963 754, 964, 2263 Listeria innocua ATCC 33091 (1002366.3) 1546 800, 1468, 1547, 2734 49, 50, 51, 2452, 2453 Kinase is not foundMegamonas funiformis YIT 11815 (742816.3) 1644 2074 1536, 1536 1387, 1388 Megamonas hypermegale ART12/1 (657316.3) 440 1094 2021, 2021 1826 Methanobrevibacter smithii ATCC 35061 (420247.6) Methanosphaera stadtmanae DSM 3091 (339860.6) Mitsuokella multacida DSM 20544 (500635.8) 348 449 637 Mollicutes bacterium D7 (556270.3) 2290 1547, 2043 882, 2580, 3191, 3284 1624 46, 46, 46, 404, 405, 405 1615, 1619, 1620, 1621, 1623 1910, 1927, 1928, 2482, 2483 835, 1175, 1469, 1743, 1881 Odoribacter splanchnicus DSM 20712 (709991.3) 2356 247, 348, 2552, 2553 3376 Oxalobacter formigenes HOxBLS (556268.6) Oxalobacter formigenes OXCC13 (556269.4) Paenibacillus sp. HGF5 (908341.3) 3284, 6169 2275, 2485, 5378 2274, 2486, 5379 390, 390, 390, 1379, 1379, 1379 3687, 5435 Paenibacillus sp. HGF7 (944559.3) 3153 3152 1305, 1305, 1305, 3133, 3133, 3133 2816 412, 1976, 3722 Paenibacillus sp. HGH0039 (1078505.3) 2034 4055 4400 4056 896, 896, 896, 4076, 4076, 4076 330 1240, 2100, 3354 Parabacteroides distasonis ATCC 8503 (435591.13) 2842, 3552 225, 226, 3115 227, 3530 46, 652, 1252, 2504, 2909 2321 Parabacteroides johnsonii DSM 18315 (537006.5) 3317 2442, 2443, 2444 2441, 3494 398, 608, 651, 792, 1061, 1113, 1922, 3536 2863 353 Parabacteroides merdae ATCC 43184 (411477.4) 1578 3334, 3335 1695, 3333 248, 288, 370, 401, 433, 862, 1720, 1922, 2721 728 200, 1856 Parabacteroides sp. D13 (563193.3) 11, 432 1058, 3904, 3905 411, 3903 743, 1422, 1983, 3485, 4031 2866 arabacteroides sp. D25 (658661.3) 2922 807, 3683, 3684 2944, 3685 144, 416, 1344, 2458, 3505, 4154 Paraprevotella clara YIT 11840 (762968.3) Paraprevotella xylaniphila YIT 11841 (762982.3) 682 Parvimonas micra ATCC 33270 (411465.10) Pediococcus acidilactici 7_4 (563194.3) 1492 1057 188 187, 189, 190, 191 Pediococcus acidilactici DSM 20284 (862514.3) 965 1780 1203 1199, 1200, 1201, 1202, 1204 Phascolarctobacterium sp. YIT 12067 (626939.3) Prevotella copri DSM 18205 (537011.5) 384, 2765 642, 771, 4375, 4510 298, 4027 Prevotella oralis HGA0225 (1203550.3) 208 2046, 2049 1139, 2050, 2182 1976 Prevotella salivae DSM 15606 (888832.3) 2547 1558, 1559 518, 1151, 1565, 1571 Propionibacterium sp. 5_U_42AFAA (450748.3) 1698 1020 1012 572 1236 575, 576, 577 553, 2413 252, 2246 Propionibacterium sp. HGH0353 (1203571.3) 1668 1660 2212 1217 Proteus mirabilis WGLW6 (1125694.3) 387 388 389, 389, 389 Proteus penneri ATCC 35198 (471881.3) 1305 4620 4619 4617, 4617, 4617, 4618, 4618, 4618 Providencia alcalifaciens DSM 30120 (520999.6) 3402 3264 3263 3262, 3262, 3262 Providencia rettgeri DSM 1131 (521000.6) 1547 3087, 3112 3086, 3113 3114, 3114, 3114 1693 Providencia rustigianii DSM 4541 (500637.6) 90, 6992 2653, 4581 2654, 4580 2655, 2655, 2655, 4579, 4579, 4579 Providencia stuartii ATCC 25827 (471874.6) 3144 756 757 758, 758, 758 966, 2757 3256 Pseudomonas sp. 2_1_26 (665948.3) 480 479 477, 477, 477 Ralstonia sp. 5_7_47FAA (658664.3) Roseburia intestinalis L1-82 (536231.5) 2027 2028 3250 2535, 2535, 2536 644 3251, 3252, 3253, 3255 1506 423 Roseburia intestinalis M50/1 (657315.3) 1783 1782 3559 3031, 3032, 3032 2089, 3161 3553, 3554, 3556, 3557, 3558 796 Roseburia intestinalis XB6B4 (718255.3) 3120, 3121 3119 2521 1973, 1974, 1974, 1974, 1975, 1975, 1975 1188, 1308, 1315, 2076, 3368, 3369 2522, 2523, 2524, 2526 1473 2929 Roseburia inulinivorans DSM 16841 (622312.4) 2448, 3995 795, 2449 1688 3682, 3682, 3683 1694, 1695, 1696 2587 Ruminococcaceae bacterium D16 (552398.3) 52 51 347 343, 344, 345 2512 Ruminococcus bromii L2-63 (657321.5) 848 Ruminococcus gnavus ATCC 29149 (411470.6) 3204 1071, 2646 1054 2649, 2649, 2649 1048, 1393, 1394, 1395 Ruminococcus lactaris ATCC 29176 (471875.6) 2329 1814 1843 1817, 1817, 1817 1845, 1846, 1847 1632, 1871 1628, 1662, 2484 1299 Ruminococcus obeum A2-162 (657314.3) 1118 3354 2912 3112, 3112, 3112 3540, 3541, 3542 Ruminococcus obeum ATCC 29174 (411459.7) 2341 200 339 342, 343, 344, 347 Ruminococcus sp. 18P13 (213810.4) Ruminococcus sp. 5_1_39BFAA (457412.4) 2698 2699 611 1422, 1423, 1424 Ruminococcus sp. SR1/5 (657323.3) 1960 1214 972 1418 2355, 2355, 2356 1413, 1414, 1415 Ruminococcus torques ATCC 27756 (411460.6) 1971 1844 1837, 1840, 1841, 1842, 1850 22, 1627, 2034 1404 Ruminococcus torques L2-14 (657313.3) 808, 2281 809, 2273 776, 776 almonella enterica subsp. enterica serovar Typhimurium str. LT2 (99287.12) 1289 713 714 715, 715, 715 Staphylococcus sp. HGB0015 (1078083.3) 56 1675 1676, 1677, 1678, 1679 Streptococcus anginosus 1_2_62CV (742820.3) 1108 858 1745 1746, 1747, 1748, 1749 Streptococcus equinus ATCC 9812 (525379.3) 1465 1070 Streptococcus infantarius subsp. infantarius ATCC BAA-102 (471872.6) 176 497, 1165 Streptococcus sp. 2_1_36FAA (469609.3) 556 1537 57 58, 59, 60, 61 419 Streptococcus sp. HPH0090 (1203590.3) 1120 696 1446 1442, 1443, 1444, 1445 1002, 1048, 1448 Streptomyces sp. HGB0020 (1078086.3) 3801, 5253 3295, 6873 6874 3645 8192 5255, 5256, 5257 1167, 2955, 4922, 5130, 8394 2898, 3737, 5165, 8190 Streptomyces sp. HPH0547 (1203592.3) 4620, 4638 5571 5570 2839, 4043 389, 2269, 2386, 2503 43, 2838, 5766 1769 Transporter is not foundSubdoligranulum sp. 4_3_54A2FAA (665956.3) 303, 518, 4373 297, 476, 4374 447 443, 444, 445 204, 1927, 2746, 3106, 4057 Subdoligranulum variabile DSM 15176 (411471.5) 1467, 1900, 4520, 4957 1466, 1899, 4519, 4956 2375, 3110 1465, 1465, 1465, 4518, 4518, 4518 2377, 2378, 2379, 3112, 3113, 3114 1056, 4229 Succinatimonas hippei YIT 12066 (762983.3) 1293 Sutterella wadsworthensis 3_1_45B (742821.3) Sutterella wadsworthensis HGA0223 (1203554.3) Tannerella sp. 6_1_58FAA_CT1 (665949.3) 2008, 2009 2544, 2545 1827 Turicibacter sp. HGF1 (910310.3) 2230, 2553 1326, 2552 1099 2551, 2551 1100, 1101, 1110, 1116 302 Turicibacter sp. PC909 (702450.3) 2042, 2454 2286, 2455 384 2456, 2456 367, 373, 382, 383 806 Veillonella sp. 3_1_44 (457416.3) 839, 889 Veillonella sp. 6_1_27 (450749.3) 879, 940 Weissella paramesenteroides ATCC 33313 (585506.3) 1380 578 1538 Kinase is not foundYokenella regensburgei ATCC 43003 (1002368.3) 2353 2354 2355, 2355, 2355 316 ydrolasesKinase I Epimerase I Epimerase II Lyase Deacetylase Permease Na + symporter TRAP transproter SialydaseNanK NanE NanE-II NagK1 NagK2 NanA NagA NagB1 NagB2 NanT NanX NanABC NanABC2 NeuT NanP Abiotrophia defectiva ATCC 49176 (592010.4) 606 1693, 2925 1694, 2924 193Acidaminococcus sp. D21 (563191.3) 1146 918 Acidaminococcus sp. HPA0509 (1203555.3) 1254 1878 Acinetobacter junii SH205 (575587.3) Actinomyces odontolyticus ATCC 17982 (411466.7) 1055 1056 61, 1017 1054 1628 1016 59 276 1052 277, 1482Actinomyces sp. HPA0247 (1203556.3) 1600 1599 52 1601 1177 50 273 1604, 1605 276, 1996Akkermansia muciniphila ATCC BAA-835 (349741.6) 2221 2220 1075 2070 707, 913, 2085Alistipes indistinctus YIT 12060 (742725.3) 203 1108 1109, 1793, 1795 Alistipes shahii WAL 8301 (717959.3) 2772 2404, 2405 1555, 1556, 3051 Anaerobaculum hydrogeniformans ATCC BAA-1850 (592015.5) Anaerococcus hydrogenalis DSM 7454 (561177.4) Anaerofustis stercorihominis DSM 17244 (445971.6) 795 Anaerostipes caccae DSM 14662 (411490.6) 1603 46 47, 2358, 3068 1736 Anaerostipes hadrus DSM 3319 (649757.3) 165 1969 163 589 Anaerostipes sp. 3_2_56FAA (665937.3) 1377 3347 269, 3346 1546 Anaerotruncus colihominis DSM 17241 (445972.6) 2088 2004, 2082 2267 2258, 2268, 2817 2083, 2084, 2085 Bacillus smithii 7_3_47FAA (665952.3) 1254 78 Bacillus sp. 7_6_55CFAA_CT2 (665957.3) 5162 821 822 Bacillus subtilis subsp. subtilis str. 168 (224308.113) 3601 235, 3602 Bacteroides caccae ATCC 43185 (411901.7) 1025 321 1026, 2256 771, 772 1643, 2122 1027, 2258 166, 1022, 1985, 2257, 2262 Bacteroides capillosus ATCC 29799 (411467.6) 2734 1155, 2735 Bacteroides cellulosilyticus DSM 14838 (537012.5) 3590 976, 2271 2425 3600 2424, 2830, 4912, 4996 Bacteroides clarus YIT 12056 (762984.3) 425 2106, 2501 424 203, 337 336, 2802 423 426, 427, 431, 529 Bacteroides coprocola DSM 17136 (470145.6) 3706 1566 538, 539 41, 42 1294 Bacteroides coprophilus DSM 18228 (547042.5) 2023 2945 2022 2344, 2345 788, 789 2024 736, 787, 2026 Bacteroides dorei DSM 17855 (483217.6) 657 364 658 505, 639 654, 655 656 629, 3327 Bacteroides eggerthii 1_2_48FAA (665953.3) 534 2039, 3592 533 298, 626 297, 1611, 2158 532 1104 Bacteroides eggerthii DSM 20697 (483216.6) 1918 54, 2641 1917 1738, 2008 1074, 1579, 1737 1916 2972, 2982 Bacteroides finegoldii DSM 17565 (483215.6) 2263, 2279 3013, 3346 2724, 2725 1318, 2171 718, 2281, 4174
Problems (if any)
Table S6.
Genes involved in depletion and utilization of N-acetylglneuramic acid. The PubSEED identifiers are shown. For details on analyzed organisms see Table S1, for details on gene functions see Table S2.
Kinase IICatabolic pathway II DeaminaseOrganism (PubSEED ID) ABC TransportersTranspotersCommon part of the pathwaysCatabolic pathway I acteroides fluxus YIT 12057 (763034.3) 3253 2480, 3111 3252 692, 2829 693, 1162, 1850 3254 1561, 2077, 3269 Bacteroides fragilis 3_1_12 (457424.5) 368 2418 367 2892, 3090 1880, 3091 369 386, 2166, 4179 Bacteroides fragilis 638R (862962.3) 1725, 4272 572 1724, 3935 2840, 3043 987, 3044 1726, 3930, 4273 732, 1347, 1738, 3931, 4240, 4269, 4270 Bacteroides fragilis NCTC 9343 (272559.17) 1673, 4150 498 1672, 3796 2771, 2978 894, 2979 1674, 3791, 4151 1290, 1777, 3792, 4126, 4148 Bacteroides fragilis YCH46 (295405.11) 1659, 4094 577 1658, 3784 2648, 2983 982, 2984 1660, 3779, 4095 1311, 1678, 3780, 4064, 4092 Bacteroides intestinalis DSM 17393 (471870.8) 2564 168, 528 2678, 4191, 4686 3956, 4189 Bacteroides ovatus 3_8_47FAA (665954.3) 4733, 4759 3368, 4519 1898 1101, 1102, 2899 2900, 3004, 3613 1896 1893, 1897, 2892, 4731, 5126 Bacteroides ovatus ATCC 8483 (411476.11) 429, 1654, 1674 541, 4656 430, 3571 126, 127, 2864 1505, 2863, 4190 427, 3569 696, 1875, 2871, 3566, 3570 Bacteroides ovatus SD CC 2a (702444.3) 434, 2613 2455 1675, 4485, 4486 80, 301, 1676 2453 949, 1667, 2450, 2454, 3390 Bacteroides ovatus SD CMC 3f (702443.3) 719, 744 4854, 5435 2084, 2579, 2580 1903, 2083, 4919 1162, 2091, 3529 Bacteroides pectinophilus ATCC 43243 (483218.5) Bacteroides plebeius DSM 17135 (484018.6) 1286 2792 841, 1287 1144, 1145 1772, 1773 1285 842 837, 1283, 1870 Bacteroides sp. 1_1_14 (469585.3) 797, 798, 1052, 1122, 3539 1329, 4768 796 2384, 2385, 3522 884, 1890, 3521 799 791, 1141, 1401, 2809, 3542 Bacteroides sp. 1_1_30 (457387.3) 354, 3674, 3693 2726, 4422 355, 4148 2, 3, 2647 2082, 2646, 2976 352, 4150 2655, 3695, 4149, 4153, 5080 Bacteroides sp. 1_1_6 (469586.3) 2818, 3396 3762, 4640 2819 851, 852, 3379 387, 2281, 3378 2817 1482 133, 1655, 2824, 3399 Bacteroides sp. 20_3 (469591.4) 1805 4190 658, 4134 4189 3151, 3353 1274, 3150 4191 3740 1608, 4194, 4547 Bacteroides sp. 2_1_16 (469587.3) 1878 2728 1877, 3843 22, 1957, 1958 23, 2634 1879, 3838 1887, 3839, 4137 Bacteroides sp. 2_1_22 (469588.3) 2780, 2799 2254, 4134 3926 2237, 3381, 3382 1848, 3380 3924 15, 886, 2801, 3921, 3925 Bacteroides sp. 2_1_33B (469589.3) 2409 1631 1691, 1827 1632 4456, 4702 1060, 4455 1629, 1630 946 1626, 3009, 3596 Bacteroides sp. 2_1_56FAA (665938.3) 1909 547 1908, 3059 378, 3711, 3712 899, 3710 1910, 3064 1928, 3063, 4158 Bacteroides sp. 2_1_7 (457388.5) 1938 577 634, 878 578 3593, 5110, 5111 944, 1649, 3594 576 573, 2518, 3113 Bacteroides sp. 2_2_4 (469590.5) 2219, 5686 383, 639 2220 140, 1154, 1155 635, 1156 2217 3586, 4408, 5486 Bacteroides sp. 3_1_19 (469592.4) 2439 813 11, 468 812 1012, 3516, 3517 448, 3518 814 3649 817, 1265, 1918 Bacteroides sp. 3_1_23 (457390.3) 4692, 4717 3071, 3882 1444 613, 614, 2739 953, 2738, 4269 1442 40, 690, 1439, 1443, 2747, 4719 acteroides sp. 3_1_33FAA (457391.3) 1692 1295 1691 1153, 1710 1694, 1695 1693 920, 1720 Bacteroides sp. 3_1_40A (469593.3) 3412 3670 3413 3394, 3823 3409, 3410 3411 4072 2263, 3384, 4178 Bacteroides sp. 3_2_5 (457392.3) 3 609 4, 3258 1606, 1826 1565, 1827 2, 3253 1232, 3254, 3540, 4361 Bacteroides sp. 4_1_36 (457393.3) 1019 889 1614, 2968, 3374 Bacteroides sp. 4_3_47FAA (457394.3) 790 1599 791 774, 1459 787, 788 789 3113 764, 2404, 2447 Bacteroides sp. 9_1_42FAA (457395.6) 398 54 397 417, 524 400, 401 399 427, 2498 Bacteroides sp. D1 (556258.5) 1542, 1561 3521, 3924 2332 2034, 2802, 2803 1395, 2035, 3157 2334 738, 1219, 1563, 2027, 2333, 2337 Bacteroides sp. D2 (556259.3) 397, 415 923, 4858 3430, 3431 2681, 4490, 4491 617, 1394, 2682 3433 395, 2673, 3432, 3436, 5119 Bacteroides sp. D20 (585543.3) 329 1646 3523 411, 936, 2501 3524 3520 Bacteroides sp. D22 (585544.3) 1298, 1741 2774, 3855 1297, 1742, 2327 1563, 1564, 2093 2092, 2582, 4263 1296, 1739, 2325 1299, 1300, 1314, 1802, 2100, 2322, 2326, 3551 Bacteroides sp. HPS0048 (1078089.3) 511 2880 1377, 3765 91, 2877, 3949 Bacteroides stercoris ATCC 43183 (449673.7) 1658 383, 3289 1657 97, 1575 1574, 2872 1656 1659, 1660, 1729 Bacteroides thetaiotaomicron VPI-5482 (226186.12) 436, 453, 3664 2545, 4734 689, 690, 3647 259, 3646, 4194 455, 2798, 3667 Bacteroides uniformis ATCC 8492 (411479.10) 2164 696 2787 181, 1567, 1758 2789 2784 Bacteroides vulgatus ATCC 8482 (435590.9) 4229 198 4228 60, 4244 4231, 4232 4230 635, 2271, 4254 Bacteroides vulgatus PC510 (702446.3) 469 2291 470 760, 1928 466, 467 468 205, 770 Bacteroides xylanisolvens SD CC 1b (702447.3) 2059, 2740 3634, 4395 4031 2747, 2748, 4648 2400, 2508, 4647 4033 1718, 2312, 4032, 4036, 4278, 4657 Bacteroides xylanisolvens XB1A (657309.4) 3244, 3265, 3893 515, 2695 3461, 3892 1696, 2448, 2449 1695, 2032, 3239 3459, 3895 668, 1704, 3456, 3460, 4507 Barnesiella intestinihominis YIT 11860 (742726.3) 2704, 2705 342, 732 Bifidobacterium adolescentis L2-32 (411481.5) 1801 59 Bifidobacterium angulatum DSM 20098 = JCM 7096 (518635.7) 565 Bifidobacterium animalis subsp. lactis AD011 (442563.4) Bifidobacterium bifidum NCIMB 41171 (398513.5) 479, 1224, 1226, 1507 1228, 1610 1227 1282, 1283 Bifidobacterium breve DSM 20213 = JCM 1192 (518634.7) 1536 206 882, 883, 1821 212 880, 1824 881, 1823 208, 210, 211 214 Bifidobacterium breve HPH0326 (1203540.3) 237 238 1043, 1412 245 1415 1414 244 248, 1934 Bifidobacterium catenulatum DSM 16992 = JCM 1194 (566552.6) 190 ifidobacterium dentium ATCC 27678 (473819.7) 909, 1413 907 Bifidobacterium gallicum DSM 20093 (561180.4) 1521 1560 1408 1559 1561, 1562, 1563, 1564 Bifidobacterium longum DJO10A (Prj:321) (205913.11) 493, 494, 495 491 492 Bifidobacterium longum NCC2705 (206672.9) 198, 199, 200, 1746 202 201 Bifidobacterium longum subsp. infantis 157F (565040.3) 1332, 1333, 1334 1330 1331 Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222 (391904.8) 652 653, 2477 905 660 908 907 654, 2424 Bifidobacterium longum subsp. infantis ATCC 55813 (548480.3) 1366, 1367 1369 1368 Bifidobacterium longum subsp. infantis CCUG 52486 (537937.5) 1377, 1379, 1380 641, 1382 1381 Bifidobacterium longum subsp. longum 2-2B (1161745.3) 33 341, 342, 343 339 340 Bifidobacterium longum subsp. longum 44B (1161743.3) 1649 584, 585, 586 582 583 Bifidobacterium longum subsp. longum F8 (722911.3) 1929, 1930, 1931 1933 1932 Bifidobacterium longum subsp. longum JCM 1217 (565042.3) 1308, 1309, 1310 1306 1307 Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 (547043.8) 630, 1743 1740 1741 Bifidobacterium sp. 12_1_47BFAA (469594.3) 1513, 1514, 1515 1518 1517 Bilophila wadsworthia 3_1_6 (563192.3) 2980, 3193 Blautia hansenii DSM 20583 (537007.6) 2021 2023 2022 2031, 2798 817, 2799 2025 Blautia hydrogenotrophica DSM 10507 (476272.5) 3219 1099, 3189 2917, 3190 3234 1236, 3311 3191 Bryantella formatexigens DSM 14469 (478749.5) 184 185 4208 3, 183 1279, 2475 1280, 2474 4, 5, 187, 188, 189 769 Burkholderiales bacterium 1_1_47 (469610.4) butyrate-producing bacterium SM4/1 (245012.3) 1049, 1050 1053 1055 84, 85 butyrate-producing bacterium SS3/4 (245014.3) 646 647 butyrate-producing bacterium SSC/2 (245018.3) 471, 1995 1999 473 Butyricicoccus pullicaecorum 1.2 (1203606.4) 641, 2843 Butyrivibrio crossotus DSM 2876 (511680.4) Butyrivibrio fibrisolvens 16/4 (657324.3) Campylobacter coli JV20 (864566.3) Campylobacter upsaliensis JV21 (888826.3) Catenibacterium mitsuokai DSM 15897 (451640.5) 500 1825 429, 989 Cedecea davisae DSM 4568 (566551.4) 346 1464 959 960 Citrobacter freundii 4_7_47CFAA (742730.3) 1520 294 1522 2811 2812 1521 2100 Citrobacter sp. 30_2 (469595.3) 3019 2620 1778 3021 1321 1322 3020 3187 Citrobacter youngae ATCC 29220 (500640.5) 3896 3897, 4183 1202 3899 3177 3178 3898 613 lostridiales bacterium 1_7_47FAA (457421.5) 1141 1147 1145 3312, 4354 4352, 4353, 5717 1143 890, 3112, 4350 Clostridium asparagiforme DSM 15981 (518636.5) 3603 3430, 3604, 5452 3594, 3909 1833, 2622, 3333 94, 465, 906, 1839, 1840, 3334 2141, 2143 5177 Clostridium bartlettii DSM 16795 (445973.7) Clostridium bolteae 90A5 (997893.5) 3770 3775, 3960 5207 273, 2663, 3774, 3962 6127 4812, 4894 3772 4050 4302, 5479 Clostridium bolteae ATCC BAA-613 (411902.9) 2131 2136, 4204 595, 2135, 4202, 6013 4493 936, 1657 2133 4119 83 Clostridium celatum DSM 1785 (545697.3) 976 3006 3277 2387 143 Clostridium cf. saccharolyticum K10 (717608.3) 1509 1505 1506 1503 1504 1507 2059, 2060, 3207 Clostridium citroniae WAL-17108 (742733.3) 4302, 5276 1963, 4307 1964, 4306, 4353 2681, 5553, 6173 2682, 5759, 6182 4304, 4305 11, 1199, 1200, 1959, 1960, 1961, 4639, 4640, 4641 2322, 4847 Clostridium clostridioforme 2_1_49FAA (742735.4) 1884 1693, 1879 1691, 1880, 4223 5004 1363, 4630 1882 476, 1604, 4225, 4226, 4227 1613, 1613, 2769, 3193 Clostridium difficile CD196 (645462.3) 2195 2200 2199 925 926 2198 2507 Clostridium difficile NAP07 (525258.3) 1835 1830 1831 1900 1899 1832 1490 Clostridium difficile NAP08 (525259.3) 1095 1090 1091 1964 1965 1092 778 Clostridium hathewayi WAL-18680 (742737.3) 1003, 4245 4246 4896, 5127 627, 3547, 4459, 4554 352 621, 3525, 4460, 5054 143, 4240, 4241, 4242 5013 854 Clostridium hiranonis DSM 13275 (500633.7) 384 380 381 1746 1747 382 Clostridium hylemonae DSM 15053 (553973.6) 2860 2864 2863 2858 1168, 2865, 3353 2862 3500 Clostridium leptum DSM 753 (428125.8) 602 755 Clostridium methylpentosum DSM 5476 (537013.3) Clostridium nexile DSM 1787 (500632.7) 656 655 261 489, 2775 Clostridium perfringens WAL-14572 (742739.3) 1742, 2740 2744 2743 1842 2487 2742 152, 1947, 2737 Clostridium ramosum DSM 1402 (445974.6) 2081 590, 803 861 2050, 2352 575, 1785, 1946, 2908 143, 1584 Clostridium scindens ATCC 35704 (411468.9) 430 425 426 432 2964 427 2284 Clostridium sp. 7_2_43FAA (457396.3) 55 171, 1989, 3419 180, 1993 2860 21 175, 176, 177 179 Clostridium sp. 7_3_54FAA (665940.3) 238 237 246 2695 1895, 4893 1241, 2299, 2300 Clostridium sp. D5 (556261.3) 4580 4579 748 38, 1421 967, 4582 1045, 4581 lostridium sp. HGF2 (908340.3) 1586, 2540 1557, 1704, 1765 1346, 1992, 2904 1341, 2679, 2681, 2682 4037 Clostridium sp. L2-50 (411489.7) Clostridium sp. M62/1 (411486.3) 2348 2353 2352 2355 2354 2350, 2351 1916, 1917 Clostridium sp. SS2/1 (411484.7) 982, 2338 986 2340 506 Clostridium spiroforme DSM 1552 (428126.7) 2087 1540 Clostridium sporogenes ATCC 15579 (471871.7) 804 805, 1535 214, 2570 Clostridium symbiosum WAL-14163 (742740.3) 3352 3353 3344 2736 2149, 4897 1824, 3839, 3840, 4346 Clostridium symbiosum WAL-14673 (742741.3) 2560 2559 2568 3393 2975, 3644 4358, 4482, 4483 Collinsella aerofaciens ATCC 25986 (411903.6) 1949 1948 1950 658 1953, 1954, 1955, 1956 Collinsella intestinalis DSM 13280 (521003.7) 935 936 934 314 931, 932 733 Collinsella stercoris DSM 13279 (445975.6) 536, 1466, 1688 635 294, 636 Collinsella tanakaei YIT 12063 (742742.3) 28 29 27 1224 Coprobacillus sp. 29_1 (469596.3) 212, 1614, 1737 476 1355, 1361, 2040, 2663 2041, 3024, 3096, 3832 248, 518, 519, 1064 Coprobacillus sp. 3_3_56FAA (665941.3) 3290 1245, 2545 2598 1314 2932, 3323 1994, 2330, 2561, 3427 672, 801, 3166 Coprobacillus sp. 8_2_54BFAA (469597.4) 3413 142, 363, 1145, 2602 2541 414 1380, 3382 1035, 2587, 2822, 3276 45, 149, 152, 1639, 1835 Coprobacillus sp. D6 (556262.3) 1467, 1674, 2903 1381 285, 2085, 3380, 3386 2086, 2441, 2512, 3558 1341, 1342, 1343, 1431, 3093 Coprococcus catus GD/7 (717962.3) 1169 1168 Coprococcus comes ATCC 27758 (470146.3) 921 920 2991 Coprococcus eutactus ATCC 27759 (411474.6) 2177 Coprococcus sp. ART55/1 (751585.3) 707 Coprococcus sp. HPP0048 (1078091.3) 1629 1631 1630 1628 2398 1634, 1635, 1636 412, 2182 Coprococcus sp. HPP0074 (1078090.3) 2570 2160 1447, 1942 Corynebacterium ammoniagenes DSM 20306 (649754.3) 1161 1160 1164 1162 1163, 1365 1166, 1167, 1168, 1169 Corynebacterium sp. HFH0082 (1078764.3) 1058 Dermabacter sp. HFH0086 (1203568.3) 448 449 447 1885 1448 446, 451Desulfitobacterium hafniense DP7 (537010.4) 2421 733, 1247, 1248, 2966, 2966 Desulfovibrio piger ATCC 29098 (411464.8) Desulfovibrio sp. 3_1_syn3 (457398.5) 1676 Dorea formicigenerans 4_6_53AFAA (742765.5) 2582 2583 2580 446, 2581 701Dorea formicigenerans ATCC 27755 (411461.4) 296 292 293 298 291, 2352 294 2628 Dorea longicatena DSM 13814 (411462.6) 1624 1620 1621 1626 1532, 1619 1622 ysgonomonas gadei ATCC BAA-286 (742766.3) 692 2316 2317, 2594, 2595 Dysgonomonas mossii DSM 22836 (742767.3) 2522 2584 660, 661 Edwardsiella tarda ATCC 23685 (500638.3) 428, 999 429 1136 1001, 1002, 1030 1782 1781 1000 1032 Eggerthella sp. 1_3_56FAA (665943.3) 2463 2464 2462 2466 2467 2457, 2459, 2460, 2461 Eggerthella sp. HGA1 (910311.3) 212 211 213 209 208 214, 215, 216, 218 Enterobacter cancerogenus ATCC 35316 (500639.8) 3823 3824 942 3826 2210 2211 3825 3087 Enterobacter cloacae subsp. cloacae NCTC 9394 (718254.4) 2724 2253 2726 1109 1518 2725 1878 Enterobacteriaceae bacterium 9_2_54FAA (469613.3) 3352 3351 1738 358 359 1737 Enterococcus faecalis PC1.1 (702448.3) 1197, 2176 117 45 1967 Enterococcus faecalis TX0104 (491074.3) 1617 1371, 2138 15 2461, 2476 Enterococcus faecalis TX1302 (749513.3) 2523 355, 548 2003 133 Enterococcus faecalis TX1322 (525278.3) 219 1965, 2618 703 2324 Enterococcus faecalis TX1341 (749514.3) 1855 1074, 1611 2552 1562 Enterococcus faecalis TX1342 (749515.3) 2596 842 2106 1412, 1427 Enterococcus faecalis TX1346 (749516.3) 654 757 537 1072, 1088 Enterococcus faecalis TX2134 (749518.3) 1167 1609, 1789 2963 1085 Enterococcus faecalis TX2137 (749491.3) 1986 453, 1394 877 1795 Enterococcus faecalis TX4244 (749494.3) 1726 31, 2666 1240 2109 Enterococcus faecium PC4.1 (791161.5) 1238, 2249 119 46 2035 Enterococcus faecium TX1330 (525279.3) 727 256 1138 1885 Enterococcus saccharolyticus 30_1 (742813.4) 179, 1708, 2243, 2529 2353 2285 1520 Enterococcus sp. 7L76 (657310.3) 276 2684 2584 1762, 1776 Erysipelotrichaceae bacterium 21_3 (658657.3) 1389, 2061 1358, 1508, 2832 785, 2394, 3564 791, 1901, 1903, 1904, 2307 111 Erysipelotrichaceae bacterium 2_2_44A (457422.3) 403, 4061 285, 441, 2576 1077, 2652, 3964 1072, 2200, 2202, 2203, 2568 1677 Erysipelotrichaceae bacterium 3_1_53 (658659.3) 451, 4493 399, 3300 53, 902, 1588 47, 3873 1310 Erysipelotrichaceae bacterium 5_2_54FAA (552396.3) 1806, 2695 56, 1943, 2205 2201 874 Erysipelotrichaceae bacterium 6_1_45 (469614.3) 539, 4836 3111, 4727, 4865 1143, 2928, 4186 399, 400, 402, 2847, 4181 1706 Escherichia coli 4_1_47FAA (1127356.4) 2310 2311 2313 479 480 2312 1551 Escherichia coli MS 107-1 (679207.4) 2517 2516 1836 2514 2785 2784 2515 scherichia coli MS 115-1 (749537.3) 2602 2603 2605 3985 3984 2604 Escherichia coli MS 116-1 (749538.3) 3534 3535 2112 3537 4287 4288 3536 Escherichia coli MS 119-7 (679206.4) 4133 4134 871 4136 4582, 5234 4583 4135 Escherichia coli MS 124-1 (679205.4) 2806 2805 4108 2803 682 683 2804 Escherichia coli MS 145-7 (679204.3) 954 955 3623 957 2594 2593 65, 956 Escherichia coli MS 146-1 (749540.3) 1508 1509 1147 1511 2459 2458 1510 Escherichia coli MS 175-1 (749544.3) 1972 Escherichia coli MS 182-1 (749545.3) 3862 3860, 3861 839 3858 4959 4958 3859 Escherichia coli MS 185-1 (749546.3) 2013 2012 4731 2010 129 130 2011 1920 Escherichia coli MS 187-1 (749547.3) 2153 2154 666 2156 3717 3718 2155 Escherichia coli MS 196-1 (749548.3) 4352 4351 5030 4349 4456 4455 4350 732 Escherichia coli MS 198-1 (749549.3) 7, 2097 2098 1124 6, 1976 4821 4822 8, 2099 4035 Escherichia coli MS 200-1 (749550.3) 1350 1349 2046 1347 4782 4781 136, 1348 3916, 4065 Escherichia coli MS 21-1 (749527.3) 2863 2864 3367 2866 2619 2618 2865 2224 Escherichia coli MS 45-1 (749528.3) 343, 4178 4179 764 344, 4181 3971 3970 342, 4180 510 Escherichia coli MS 69-1 (749531.3) 1041, 2639 2640 3045 1042, 2642 4037 4036 1040, 2641 1944 Escherichia coli MS 78-1 (749532.3) 1272 1271 1269 3612 3613 1270 Escherichia coli MS 79-10 (796392.4) 2687 2688 4513 2690 2328 2329 2689 Escherichia coli MS 84-1 (749533.3) 2360 2361 650 2363 5347 5348 2362 Escherichia coli MS 85-1 (679202.3) 1097 1098 4732 1100 2801 2800 1099 Escherichia coli O157:H7 str. Sakai (386585.9) 4275 4276 1599 4278 819 820 4277 Escherichia coli SE11 (409438.11) 3671 3672 1320 3674 861 862 3673 Escherichia coli SE15 (431946.3) 3181 3182, 4345 1068 3184 631 632 3183 2979 Escherichia coli str. K-12 substr. MG1655 (511145.12) 3318 3319 1165 3321 702 703 3320 Escherichia coli UTI89 (364106.8) 3608 3609 1322 3611 766 767 3610 3410 Escherichia sp. 1_1_43 (457400.3) 874, 1160 1161 875, 1163 873, 1162 Escherichia sp. 3_2_53FAA (469598.5) 1001 1000, 3565 819 998 341 340 999 1200 Escherichia sp. 4_1_40B (457401.3) 2964 2963 1071 2961 1840 1839 2962 Eubacterium biforme DSM 3989 (518637.5) 1891, 2228 272 30 941 Eubacterium cylindroides T2-87 (717960.3) 695, 1246, 1551 1444 Kinase I is not foundEubacterium dolichum DSM 3991 (428127.7) 1792 276, 845 282 Eubacterium hallii DSM 3353 (411469.3) 1640 1642 1639 587 Eubacterium rectale DSM 17629 (657318.4) 602 601 2275 Eubacterium rectale M104/1 (657317.3) 1724 1725 1649 Transporter is not foundEubacterium siraeum 70/3 (657319.3) 2128 Eubacterium siraeum DSM 15702 (428128.7) 2046 Eubacterium siraeum V10Sc8a (717961.3) 2523 Eubacterium sp. 3_1_31 (457402.3) 1250, 1950 303, 1628, 2852 307 Eubacterium ventriosum ATCC 27560 (411463.4) 865 864, 1748, 2197 Faecalibacterium cf. prausnitzii KLE1255 (748224.3) 1956 1955 1953 7 1950, 1951, 1952 77 Faecalibacterium prausnitzii A2-165 (411483.3) 1817 1816 1814 104 105 1811, 1812, 1813 Faecalibacterium prausnitzii L2-6 (718252.3) 2400 2401 2403 1289 2405, 2406, 2407 656 Faecalibacterium prausnitzii M21/2 (411485.10) 231 232 234 1937 498, 1059 235, 236, 237 1412 Faecalibacterium prausnitzii SL3/3 (657322.3) 1517 1515 1777 847, 901 1512, 1513, 1514 2058 Transporter is not foundFusobacterium gonidiaformans ATCC 25563 (469615.3) 322 324 323 53 1472 320, 321, 321 Fusobacterium mortiferum ATCC 9817 (469616.3) 2503 799, 2505 2361 1073, 1669 1668 2499 2501, 2502, 2502 usobacterium necrophorum subsp. funduliforme 1_1_36S (742814.3) 2378, 2379, 2380 2376 2377 1309, 1310 1481, 1482 2381, 2381, 2382 Fusobacterium sp. 11_3_2 (457403.3) 1345 1347 1346 980 1079 930, 1343, 1344, 1344 Fusobacterium sp. 12_1B (457404.3) 2966 1042, 2962, 2963 2964 178 442 2968, 2968, 2969 Fusobacterium sp. 1_1_41FAA (469621.3) 671 669 670 625 1423 672, 672, 673, 800 Fusobacterium sp. 21_1A (469601.3) 525 398 1343 Fusobacterium sp. 2_1_31 (469599.3) 733 933 50 Fusobacterium sp. 3_1_27 (469602.3) 1736 1734 1735 828 818 687, 1737, 1737, 1738 Fusobacterium sp. 3_1_33 (469603.3) 768 550 250 Fusobacterium sp. 3_1_36A2 (469604.3) 442 444 443 1169 1179 440, 441, 441, 1302 Fusobacterium sp. 3_1_5R (469605.3) 403 401 402 150 72 404, 404, 405 Fusobacterium sp. 4_1_13 (469606.3) 653 655 654 1527 1537 318, 651, 652, 652 Fusobacterium sp. 7_1 (457405.3) 780 470 1329 Fusobacterium sp. D11 (556264.3) 1088 1090, 1697 1089 1986 239 1086, 1087, 1087, 1341 Fusobacterium sp. D12 (556263.3) 731 733 732 1492 1065 729, 730, 730 Fusobacterium ulcerans ATCC 49185 (469617.3) 2319 732, 2322 2321 195 2144 1276, 2316, 2317, 2317 Fusobacterium varium ATCC 27725 (469618.3) 324 327, 2930 326 2033 2614 321, 322, 322, 645 Gordonibacter pamelaeae 7-10-1-b (657308.3) 1691 1690 1694 1686, 1687, 1688, 1689 Hafnia alvei ATCC 51873 (1002364.3) 1352 1353 134 4024 2230, 4025 133 Helicobacter bilis ATCC 43879 (613026.4) Helicobacter canadensis MIT 98-5491 (Prj:30719) (537970.9) 941 Helicobacter cinaedi ATCC BAA-847 (1206745.3) 1116 Helicobacter cinaedi CCUG 18818 (537971.5) 1243 Helicobacter pullorum MIT 98-5489 (537972.5) 362 Helicobacter winghamensis ATCC BAA-430 (556267.4) 941 Holdemania filiformis DSM 12042 (545696.5) 132, 217, 501, 925 1184, 1185, 2175 1188, 1784, 2076 Klebsiella pneumoniae 1162281 (1037908.3) 4821 1170 2760 2761 Klebsiella pneumoniae subsp. pneumoniae WGLW5 (1203547.3) 3084 3896 849 850 Klebsiella sp. 1_1_55 (469608.3) 86 2889 2261 1792 1793 Klebsiella sp. 4_1_44FAA (665944.3) 4348 4533 1579 1580 Lachnospiraceae bacterium 1_1_57FAA (658081.3) 1668 1719, 1809, 2267, 2539, 2540 Lachnospiraceae bacterium 1_4_56FAA (658655.3) 286 287 2720 941 Lachnospiraceae bacterium 2_1_46FAA (742723.3) 1212 1213 1454 Lachnospiraceae bacterium 2_1_58FAA (658082.3) 2454 618 Lachnospiraceae bacterium 3_1_46FAA (665950.3) 1250 571, 1075, 2928 achnospiraceae bacterium 3_1_57FAA_CT1 (658086.3) 5697, 7047 5699, 7049 5701 7342 7343 5702, 5703, 5704 2757 Lachnospiraceae bacterium 4_1_37FAA (552395.3) 1970 1972 1971 1969 2419 1975, 1976, 1977 268, 2689 Lachnospiraceae bacterium 5_1_57FAA (658085.3) 1671 1676 1675 1669 241 1674 2127 Lachnospiraceae bacterium 5_1_63FAA (658089.3) 1694 1124 982 1692 731 Lachnospiraceae bacterium 6_1_63FAA (658083.3) 1271, 2492 1272, 1614 Lachnospiraceae bacterium 7_1_58FAA (658087.3) 3868 3862 3534, 3860 3535, 3861 3863, 3864, 3865 1408 Lachnospiraceae bacterium 8_1_57FAA (665951.3) 1984 1695, 1800, 1801, 1937, 2355 Lachnospiraceae bacterium 9_1_43BFAA (658088.3) 1719 2131 842, 1278, 2348 Lactobacillus acidophilus ATCC 4796 (525306.3) 39 1612 Lactobacillus acidophilus NCFM (272621.13) 1433 140 1852 Lactobacillus amylolyticus DSM 11664 (585524.3) 417 1310 909 Lactobacillus antri DSM 16041 (525309.3) 1895 1894 1896 1891 1892 1898 Lactobacillus brevis ATCC 367 (387344.15) 520 666 Lactobacillus brevis subsp. gravesensis ATCC 27305 (525310.3) 2620 Lactobacillus buchneri ATCC 11577 (525318.3) 1815 Lactobacillus casei ATCC 334 (321967.11) 1787 2831 Lactobacillus casei BL23 (543734.4) 2706 1929 2971 Lactobacillus crispatus 125-2-CHN (575595.3) 764 1861 1510 Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842 (390333.7) 177 1918 Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365 (321956.7) 171 1913 Lactobacillus fermentum ATCC 14931 (525325.3) Lactobacillus fermentum IFO 3956 (334390.5) Lactobacillus gasseri ATCC 33323 (324831.13) 195 1615 1559 1776 Lactobacillus helveticus DPC 4571 (405566.6) 1656, 1657 2205 Lactobacillus helveticus DSM 20075 (585520.4) 1317 60 Lactobacillus hilgardii ATCC 8290 (525327.3) 2003 Lactobacillus johnsonii NCC 533 (257314.6) 207 1666 1610 1824 Lactobacillus paracasei subsp. paracasei 8700:2 (537973.8) 1220, 1475 835 1126 Lactobacillus paracasei subsp. paracasei ATCC 25302 (525337.3) 1832 687 1689 Lactobacillus plantarum 16 (1327988.3) 2400, 2859 2861 2860 501 207 2855 Lactobacillus plantarum subsp. plantarum ATCC 14917 (525338.3) 324, 646, 2855 595 1151 160 Lactobacillus plantarum WCFS1 (220668.9) 361, 2474, 2976, 3030 2979 2977 466 188 2973 Lactobacillus reuteri CF48-3A (525341.3) 1764 Lactobacillus reuteri DSM 20016 (557436.4) 1035 Lactobacillus reuteri F275 (299033.6) 1010 Lactobacillus reuteri MM2-3 (585517.3) 1454 Lactobacillus reuteri MM4-1A (548485.3) 967 Lactobacillus reuteri SD2112 (491077.3) 1846 Lactobacillus rhamnosus ATCC 21052 (1002365.5) 1920 1648 actobacillus rhamnosus GG (Prj:40637) (568703.30) 98, 2688 1869 2936 Lactobacillus rhamnosus LMS2-1 (525361.3) 1581 799 1698 Lactobacillus ruminis ATCC 25644 (525362.3) 677 2024 234 Lactobacillus sakei subsp. sakei 23K (314315.12) 118, 1610 1608 1607 1555 409 1609 Lactobacillus salivarius ATCC 11741 (525364.3) 312 310 311 1583 1584 316 Lactobacillus salivarius UCC118 (362948.14) 2059 2061 2060 1549 1548 2052, 2053 Lactobacillus sp. 7_1_47FAA (665945.3) 1083 617 718 Lactobacillus ultunensis DSM 16047 (525365.3) 1503 1964 1115 Leuconostoc mesenteroides subsp. cremoris ATCC 19254 (586220.3) 791 850 Listeria grayi DSM 20601 (525367.9) 1178, 1406, 1443, 1911 1511 963 754, 964, 2263 Listeria innocua ATCC 33091 (1002366.3) 2666, 2688 2661 1546 800, 1468, 1547, 2734 Megamonas funiformis YIT 11815 (742816.3) 2072 2067 2068 1644 2074 2069 Megamonas hypermegale ART12/1 (657316.3) 1097, 1098 1104, 1105 1102, 1103 440 1094 1101 Methanobrevibacter smithii ATCC 35061 (420247.6) Methanosphaera stadtmanae DSM 3091 (339860.6) Mitsuokella multacida DSM 20544 (500635.8) 359, 1512 348 449 Mollicutes bacterium D7 (556270.3) 2076 1843, 2566 2290 1547, 2043 882, 2580, 3191, 3284 1995, 2402 Odoribacter laneus YIT 12061 (742817.3) 1750 1748 2356 1749 1709 2156, 2674 Oxalobacter formigenes HOxBLS (556268.6) Oxalobacter formigenes OXCC13 (556269.4) Paenibacillus sp. HGF5 (908341.3) 5364 3284, 6169 2275, 2485, 5378 2274, 2486, 5379 888 4097 Paenibacillus sp. HGF7 (944559.3) 951 3153 3152 Paenibacillus sp. HGH0039 (1078505.3) 2189 2034 4055 4400 4056 4868 1485, 1486 Parabacteroides distasonis ATCC 8503 (435591.13) 1847 2904 2842, 3552 2903 225, 226, 3115 227, 3530 2905 1676, 2414, 2908 Parabacteroides johnsonii DSM 18315 (537006.5) 419 3317 418 2442, 2443, 2444 2441, 3494 420 421, 2117 Parabacteroides merdae ATCC 43184 (411477.4) 285 1578 284, 1788 3334, 3335 1695, 3333 286 1787 287, 596, 1792, 1794 Parabacteroides sp. D13 (563193.3) 3313 737 11, 432 736 1058, 3904, 3905 411, 3903 738 2021 742, 1205, 2768 Parabacteroides sp. D25 (658661.3) 2028 1349 2922 1350 807, 3683, 3684 2944, 3685 1348 199, 1345, 1438 Paraprevotella clara YIT 11840 (762968.3) Paraprevotella xylaniphila YIT 11841 (762982.3) 682 Parvimonas micra ATCC 33270 (411465.10) Pediococcus acidilactici 7_4 (563194.3) 735, 793 1907 789 1492 1057 790, 791 Pediococcus acidilactici DSM 20284 (862514.3) 31, 77 30 34, 1580 965 1780 33 41 Phascolarctobacterium sp. YIT 12067 (626939.3) 381 Prevotella copri DSM 18205 (537011.5) 384, 2765 642, 771, 4375, 4510 Prevotella oralis HGA0225 (1203550.3) 1528, 2124 208 2123 2046, 2049 2122 834 Prevotella salivae DSM 15606 (888832.3) 1624 2547 1625, 1842 1558, 1559 1626 1564, 1839 ropionibacterium sp. 5_U_42AFAA (450748.3) 573 92, 833 1698 93 1020 1012 95, 1242, 1428 54, 1240, 1241, 2302 Propionibacterium sp. HGH0353 (1203571.3) 683, 1494 684 1668 1660 686, 2058 Proteus mirabilis WGLW6 (1125694.3) 2583 2582 2587 387 388 2584 Proteus penneri ATCC 35198 (471881.3) 1438, 1439 1436, 1437 1305 1443, 1444 4620 4619 1440 Providencia alcalifaciens DSM 30120 (520999.6) 3402 3264 3263 Providencia rettgeri DSM 1131 (521000.6) 3568 3569 1547 3564 3087, 3112 3086, 3113 3567 Providencia rustigianii DSM 4541 (500637.6) 90, 6992 2653, 4581 2654, 4580 Providencia stuartii ATCC 25827 (471874.6) 3144 756 757 Pseudomonas sp. 2_1_26 (665948.3) 480 479 450, 2388, 4078 Ralstonia sp. 5_7_47FAA (658664.3) Roseburia intestinalis L1-82 (536231.5) 2027 2028 1146, 1550 Roseburia intestinalis M50/1 (657315.3) 3689 3695 1783 1782 2807, 3086 Roseburia intestinalis XB6B4 (718255.3) 2396 2390 3120, 3121 3119 1204, 2027 Roseburia inulinivorans DSM 16841 (622312.4) 803 802 800 2448, 3995 795, 2449 797, 798, 799 1563 Ruminococcaceae bacterium D16 (552398.3) 2573 2013 2014 52 51 2015 Ruminococcus bromii L2-63 (657321.5) Ruminococcus gnavus ATCC 29149 (411470.6) 2355 2357 2356 3204 1071, 2646 2360, 2361, 2362 2358 Ruminococcus lactaris ATCC 29176 (471875.6) 2329 1814 756 1195, 2021 Ruminococcus obeum A2-162 (657314.3) 1118 3354 1558 Ruminococcus obeum ATCC 29174 (411459.7) 2080 2341 200 3232 Ruminococcus sp. 18P13 (213810.4) Ruminococcus sp. 5_1_39BFAA (457412.4) 2689 2697 2691 2698 2699 Ruminococcus sp. SR1/5 (657323.3) 1960 1214 972 Ruminococcus torques ATCC 27756 (411460.6) 1971 395, 1279 Ruminococcus torques L2-14 (657313.3) 2279 2275 2276 808, 2281 809, 2273 2277 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (99287.12) 3537 1196, 3538 1289 3540 713 714 1199, 3539 1195 3361 978 Staphylococcus sp. HGB0015 (1078083.3) 2076 55 573, 2074 56 574, 2073 576, 1266, 1267 Streptococcus anginosus 1_2_62CV (742820.3) 1767 1760 1766 1108 858 1761, 1762, 1763 Streptococcus equinus ATCC 9812 (525379.3) 1614 1465 1070 Streptococcus infantarius subsp. infantarius ATCC BAA-102 (471872.6) 662 176 497, 1165 Streptococcus sp. 2_1_36FAA (469609.3) 133, 1786 128 129 556 1537 130 Streptococcus sp. HPH0090 (1203590.3) 1212, 1556 1219 1213 1120 696 1216, 1217, 1218 197, 1220 Streptomyces sp. HGB0020 (1078086.3) 2157 3801, 5253 3295, 6873 5490 6874 3645 8192 5493, 5494 1717, 5489, 5824 Streptomyces sp. HPH0547 (1203592.3) 3641 4658 4620, 4638 5571 58 5570 2839, 4043 59 55, 1802 Subdoligranulum sp. 4_3_54A2FAA (665956.3) 1667 1664 303, 518, 4373 297, 476, 4374 1661, 1662, 1663, 3401 2382, 2467, 2970, 2978, 3483 Subdoligranulum variabile DSM 15176 (411471.5) 1467, 1900, 4520, 4957 1466, 1899, 4519, 4956 124, 959, 5083, 5651 Succinatimonas hippei YIT 12066 (762983.3) 1293 1977, 1978 Sutterella wadsworthensis 3_1_45B (742821.3) Sutterella wadsworthensis HGA0223 (1203554.3) annerella sp. 6_1_58FAA_CT1 (665949.3) 341 2008, 2009 Turicibacter sp. HGF1 (910310.3) 1327, 2390 326 1330 2230, 2553 1326, 2552 603, 604, 605 Turicibacter sp. PC909 (702450.3) 664, 808, 2285 2575 2282 2042, 2454 2286, 2455 2402, 2403, 2404 Veillonella sp. 3_1_44 (457416.3) Veillonella sp. 6_1_27 (450749.3) Weissella paramesenteroides ATCC 33313 (585506.3) 1042 1380 578 Yokenella regensburgei ATCC 43003 (1002368.3) 1461 1858 1459 2353 2354 1460 ridylyltransferase I Epimerase I Kinase I Uridylyltransferase II Uridylyltransferase III Epimerase II Phosphorylase Isomerase Kinase II Aldolase Phospho-beta-galactosidase Na + symporterGalU GalM GalK GalT GalY GalE LnbP LacAB LacC LacD GnbG MglABC LnbABC GalP1 GalP2 GalP3 GalPTS GnbPTS Bga2 Bga35 Bga42 Aga4 Aga27 Aga36 Aga43 Abiotrophia defectiva ATCC 49176 (592010.4) 1505 265 1211 3049 3045 1913, 1914, 1915, 1916 758, 759, 760, 3041, 3042, 3043 761 1670 2310 2310 Acidaminococcus sp. D21 (563191.3) 419, 1505 548, 1926, 1967 Acidaminococcus sp. HPA0509 (1203555.3) 622, 1197 486, 1612, 1835 Acinetobacter junii SH205 (575587.3) 2884 961, 1635, 2887 Actinomyces odontolyticus ATCC 17982 (411466.7) 327 176 120, 1876 1813 1018 1019 1696 1025 Galactose-1-phosphate uridylyltransferase is not foundActinomyces sp. HPA0247 (1203556.3) 353 172 114, 1434 1362 1248 269, 868, 1249 Galactose-1-phosphate uridylyltransferase is not foundAkkermansia muciniphila ATCC BAA-835 (349741.6) 1975 1482 1100 37, 38 36, 1274 1101 336, 608, 936, 1885, 1887, 1888, 1890 874, 1912 971, 1346 971 Alistipes indistinctus YIT 12060 (742725.3) 983, 1894 2233 982 1028 984 145, 1251, 1406, 1986, 2368 422, 2225 2225 Alistipes shahii WAL 8301 (717959.3) 1826, 2802 439 703 296 184 35, 38, 767, 932, 933, 1311, 2716 34, 105, 1071, 1807, 2088 105, 1071, 2088 Anaerobaculum hydrogeniformans ATCC BAA-1850 (592015.5) 883 1437, 1671 898 Anaerococcus hydrogenalis DSM 7454 (561177.4) 1885, 1886 Anaerofustis stercorihominis DSM 17244 (445971.6) 413 Anaerostipes caccae DSM 14662 (411490.6) 279 1024 1025 1023 1021, 1022 1040, 3509 746, 1039, 1941, 3511 1026 1879 1879 Anaerostipes hadrus DSM 3319 (649757.3) 2309, 2320, 2680 2319 2321 320, 1705, 2322 1244 1242 2318 2143, 2144 Anaerostipes sp. 3_2_56FAA (665937.3) 2945 129 130 128 127 146, 2545, 2546 144, 429, 2543 131 3397 3397 Anaerotruncus colihominis DSM 17241 (445972.6) 2937 3172 57 58 893, 1163, 1167 679, 681, 682, 686 Bacillus smithii 7_3_47FAA (665952.3) 1614, 1939, 3590 951, 1611, 3587 315, 316 318 317 319, 320, 321 1628 1628 Bacillus sp. 7_6_55CFAA_CT2 (665957.3) 4442, 4795 5468 1471, 1624, 4445, 4460, 5844 1168 Galactose kinase and transporter are not foundBacillus subtilis subsp. subtilis str. 168 (224308.113) 1878, 3174, 3670, 3675 1897 3929 3928 760, 3107, 3997 3350, 3351 740, 3513 745, 3119 Transporter is not foundBacteroides caccae ATCC 43185 (411901.7) 2174, 3292 2172 3128 665, 826, 842, 2903 2173 10, 1150, 1273, 1424, 1598, 1715, 1960, 2446, 2668, 2714, 3365, 3629 247, 1659, 1845, 3023 260, 1271, 3244 1271, 3244 Bacteroides capillosus ATCC 29799 (411467.6) 1888 867 3502 3504 855, 3503 848 733, 737, 738, 739 850, 851, 852 1144, 2810, 2828, 3217, 3522 3081
Problems (if any)Organism (PubSEED ID)
Table S7.
Genes involved in depletion and utilization of galactose. The PubSEED identifiers are shown. For details on analyzed organisms see Table S1, for details on gene functions see Table S2.
PTS systemsCatabolic pathway II Permeases Beta-galactosidases Alpha-galactosidasesHydrolasesABC systemsCatabolic pathway I Transport acteroides cellulosilyticus DSM 14838 (537012.5) 983, 1946, 4504, 4885 4506 102, 103 377, 656, 3700, 3858, 3924 4505 2323 178, 179, 205, 214, 406, 407, 408, 621, 1187, 1206, 1248, 1368, 1375, 1498, 1551, 1618, 1757, 1764, 1896, 1974, 2122, 2294, 2316, 2328, 2543, 2548, 2550, 2676, 2992, 3116, 3280, 4047, 180, 637, 2542, 3102 108, 785, 1893, 2999 1770, 1771, 1772, 3605, 4025, 4642, 4781, 5064 1772, 4025, 4642, 4781, 5064 Bacteroides clarus YIT 12056 (762984.3) 373 371 2589 798 372 225, 587, 1659, 1664, 1769, 1777, 2168 2116, 2124, 2674 2116, 2674 Bacteroides coprocola DSM 17136 (470145.6) 2943 2685, 3092, 3121 3094 3155 573, 2177 3093 1295, 1650, 1685, 1744, 2155, 2166, 2554, 3214, 3495, 3660, 3661 377, 2763, 3565 377, 3565 Bacteroides coprophilus DSM 18228 (547042.5) 3047 3045 2303 660 3046 2729 80, 121, 299, 950, 1117, 2609, 2610, 2723, 2728, 2781, 2782, 2832, 3146, 3173, 3262 1773, 3141, 3144 531, 2028 2028 Bacteroides dorei DSM 17855 (483217.6) 1375, 3350, 3466, 3469, 4170 3467 59, 890 891, 2494, 2504 3468 44, 134, 328, 373, 395, 638, 1023, 1088, 1633, 1861, 2100, 2848, 2849, 2878, 2882, 2908, 3007, 3154, 3309, 3349, 3964, 3972, 3973, 4281, 4293 1136 374, 375 992, 4166 4166 Bacteroides eggerthii 1_2_48FAA (665953.3) 1890, 3240, 3253 3242 1197 2383, 2669, 3214 3241 504, 505, 674, 675, 1018, 1026, 1155, 1165, 1166, 1167, 1170, 2146, 2342, 2897, 3387, 3546, 3776 668, 673, 2274 2323 2323 acteroides eggerthii DSM 20697 (483216.6) 216, 1162, 1174 1172 612 82, 1197, 1202, 2162, 2386 1173 570, 579, 580, 581, 584, 659, 1085, 1898, 1899, 2344, 2680, 3059, 3067 951 Bacteroides finegoldii DSM 17565 (483215.6) 2218, 2226 2224 2955 1794, 1811, 2793, 3155 2225 127, 342, 1297, 1310, 1951, 1956, 1957, 1959, 2992, 3068, 3116, 3818 2207, 2832 1309 125, 3512, 4046 3512 Bacteroides fluxus YIT 12057 (763034.3) 517, 654 656 1246 164, 1058, 2206, 2392, 3194 655 193, 198, 226, 509, 554, 556, 1086, 1673, 2321, 3096, 3267 207, 225, 1563 119, 1662, 3492 119, 3492 Bacteroides fragilis 3_1_12 (457424.5) 320, 2600, 4068 318 4636 219, 480, 1527, 1562, 1994, 3668 319 328, 395, 398, 545, 864, 947, 1828, 1834, 2129, 2292, 2579, 2614, 2618, 2782, 3291, 3435, 3653, 4521 2291, 3652, 4334 152, 2660, 2665, 4062 2660 Bacteroides fragilis 638R (862962.3) 361, 1672, 4454 1670 4122 809, 1463, 1464, 1574, 1903, 2653, 2662, 2674, 3896 1671 30, 146, 342, 346, 390, 639, 734, 932, 937, 1681, 1747, 1941, 3197, 3336 640, 3880, 4015, 4282, 4283, 4319 287, 293, 561, 1512, 4461 293, 561 Bacteroides fragilis NCTC 9343 (272559.17) 293, 1622, 4301 1620 4012 1011, 1527, 1889, 2603, 2612, 2624, 3727, 3728, 3765 1621 30, 153, 273, 277, 320, 563, 652, 841, 846, 1631, 1786, 1923, 3118, 3250 564, 3748, 3876, 4162 223, 228, 486, 1386, 4307 228, 486 Bacteroides fragilis YCH46 (295405.11) 377, 1605, 4225 1603 3958 1512, 1797, 2476, 2502, 3500 1604 71, 224, 355, 359, 404, 640, 748, 932, 937, 1614, 1687, 1690, 1834, 3115, 3244 642, 3741, 3867, 4104 301, 311, 565, 1451, 4231 311, 565 acteroides intestinalis DSM 17393 (471870.8) 175, 867, 1175, 2613, 2628 2615 4579 2172, 2372, 2503, 2515, 2897, 2900 2614 323, 350, 539, 788, 799, 829, 865, 901, 1009, 1016, 1108, 1163, 1246, 1353, 1467, 1470, 1472, 1618, 2242, 2596, 2682, 2839, 2864, 2975, 4059, 4115, 4116, 4499, 4502, 4505, 4510, 4542 303, 3973 4049, 4574 1002, 2550, 2881, 3023, 4544 2881, 3023 Bacteroides ovatus 3_8_47FAA (665954.3) 2943, 4833, 4840 4835 2667 1000, 1209, 1226, 1547, 1742, 3406 4834 127, 258, 308, 310, 315, 317, 376, 592, 976, 1291, 2123, 2340, 2704, 2800, 2958, 2981, 3385, 3709, 3738, 3739, 3743, 4093, 4563, 5006, 5020 2492, 2829, 4120, 5049, 5180 2979, 2980, 4592 129, 415, 3516, 4460, 4748, 4919 415, 3516, 4919 Bacteroides ovatus ATCC 8483 (411476.11) 1581, 1585, 2824 1583 3102 24, 210, 3172, 4710 1584 232, 400, 419, 420, 422, 811, 1182, 1541, 1731, 1732, 1748, 1820, 1821, 1827, 2172, 2189, 2225, 2265, 2279, 2285, 2331, 2348, 2599, 2810, 2967, 3066, 3717, 4205, 4241, 4317, 4673 2940, 4408 4206, 4207 606, 800, 813, 1684, 2101, 2324 800, 2101 acteroides ovatus SD CC 2a (702444.3) 306, 1735, 1741 1739 2031 254, 775, 1727 1740 54, 55, 152, 284, 285, 286, 321, 502, 1056, 1934, 2304, 2712, 2715, 3670, 3888, 3976, 4176, 4287, 4334, 4680, 4794 1450, 1651, 2032 3216, 3801, 4288, 4348, 4350 2713, 3049, 3797, 4149, 4678 2713, 3049, 3797 Bacteroides ovatus SD CMC 3f (702443.3) 1595, 1599, 2021 1597 3011 1270, 1623, 1663, 1684, 1739, 1740, 4326 1596 1611 60, 256, 355, 815, 900, 1295, 1296, 1558, 2006, 2249, 2956, 3041, 3122, 3351, 3352, 3356, 3859, 3861, 3875, 4197, 5415 280, 2153, 2333, 2904 1559, 1560, 3227, 3229 1941, 2942, 2943, 2945, 3858, 3873, 4795 1941 Bacteroides pectinophilus ATCC 43243 (483218.5) 983 168, 251, 994, 2781 Bacteroides plebeius DSM 17135 (484018.6) 2011, 2124 2009 86 814, 1890 2010 45, 460, 471, 488, 895, 912, 979, 980, 1214, 1330, 1350, 1363, 1367, 1640, 1641, 1670, 2133, 2830, 3219, 3286, 3290, 3306, 3320 3341, 3415 984 463, 493, 1240, 2195, 3374, 3475 3374, 3475 Bacteroides sp. 1_1_14 (469585.3) 974, 990, 2690, 3477, 3480 988 3742 2271 989 21, 85, 646, 758, 761, 766, 767, 1147, 1345, 1361, 1799, 2189, 2206, 2207, 2208, 2212, 2213, 2476, 2594, 2687, 2884, 3201, 3330, 3459, 3909, 3910, 3956 770, 913, 1059, 3589 753 763, 2931, 3772, 4679, 4817 3772, 4817 acteroides sp. 1_1_30 (457387.3) 2585, 3597, 3602 3600 4626 82, 2774, 3024, 3347, 3367 3601 323, 344, 345, 348, 916, 1149, 1392, 1743, 1757, 2093, 2119, 2248, 2354, 2357, 2571, 2741, 4598, 4846, 5184 2717 2094, 2095, 2460, 4501 1729, 1730, 1732, 2246, 2355, 2455, 2509, 4367 2355, 2455, 2509 Bacteroides sp. 1_1_6 (469586.3) 1017, 1143, 1446, 3319, 3322 1141 3609 913, 1407 1142 139, 471, 475, 476, 485, 710, 1324, 1374, 1755, 1801, 2162, 2226, 2252, 2253, 2254, 2260, 2365, 3777, 3854, 4019, 4247, 4804, 5119, 5140 532, 2248, 2808, 3456 2259 1240, 1444, 1937, 2251, 3383, 4712 1444, 1937 Bacteroides sp. 20_3 (469591.4) 845, 1633 1631 2110 3604 1632 98, 120, 121, 1147, 1920, 2275, 2837, 3273, 3639, 4829, 4830 2164 1456, 2113, 3670 1456, 3670 Bacteroides sp. 2_1_16 (469587.3) 1827, 2534, 4010 1825 4486 119, 1091, 1115, 1392, 1622, 1727, 3572, 4464 1826 155, 1836, 1896, 1899, 1995, 2185, 2190, 2281, 2397, 2517, 2521, 2562, 2792, 2884, 3013 2793, 3797, 4272 1669, 2466, 2471, 2717, 4004 2471, 2717 Bacteroides sp. 2_1_22 (469588.3) 127, 2705, 2711 2709 982 1915, 2416, 2875, 3786 2710 142, 292, 552, 733, 760, 763, 1010, 1347, 1486, 2298, 2302, 2303, 2323, 2395, 2530, 3317, 3342, 3343, 3528, 4550 326, 1128, 3641 864, 3318, 4069, 4071 205, 731, 761, 860, 4058 205, 761, 860 Bacteroides sp. 2_1_33B (469589.3) 1431, 3623, 3683 3621 1139 1074, 3797 3622 551, 1040, 1279, 1470, 2131, 2270, 2271, 2525, 3388 1181 1013, 3682, 3845 1013, 3682, 3845 acteroides sp. 2_1_56FAA (665938.3) 350, 1855, 4275 1853 4863 889, 1184, 1758, 2040, 2053, 2797, 2818, 3096, 3159 1854 87, 205, 329, 334, 380, 704, 804, 1004, 1009, 1866, 1937, 2106, 3780, 3996 705, 3112, 4755 278, 283, 536, 1675, 4282 283, 536 Bacteroides sp. 2_1_7 (457388.5) 722, 3092 3094 2800 2870 3093 403, 404, 421, 1509, 2049, 2904, 3718 2751 2928, 4144 2928, 4144 Bacteroides sp. 2_2_4 (469590.5) 860, 872, 2667 862 3381 3806, 3881, 4617, 4820 861 884 148, 620, 1290, 1320, 1482, 1496, 1498, 1664, 1824, 1825, 1909, 2186, 2207, 2208, 2213, 2682, 2812, 2830, 3408, 4320, 4594, 4727, 4728, 4735, 4949 2001, 2879, 3527, 4973 4, 6, 1665, 1666, 1667, 2635 1056, 1484, 1499, 2740, 2841, 2843, 2844, 4318, 4742, 5656, 5657 1056, 2740, 4318 Bacteroides sp. 3_1_19 (469592.4) 645, 1286 1284 2555 733, 3787, 3864 1285 163, 967, 989, 1754, 2328, 2772, 3510, 3752 2606 2558, 3718, 3926 3718, 3926 Bacteroides sp. 3_1_23 (457390.3) 874, 880, 2675 876 2992 501, 782, 856, 1226, 3926 875 892 93, 97, 98, 118, 478, 920, 1588, 1693, 1707, 1709, 1831, 1875, 1877, 1882, 1884, 1947, 1948, 1967, 2472, 2490, 2649, 2783, 2849, 2956, 3281, 3898, 4283, 4309, 4310, 4392, 4881 2427, 2818, 3305, 4483 2703, 3141, 3143, 4284, 4285 1695, 1710, 2458, 2459, 2461, 2570, 3008 2570 acteroides sp. 3_1_33FAA (457391.3) 793, 796, 889, 2337, 3764 795 1444, 3025 119, 1443 794 164, 373, 374, 382, 890, 938, 1085, 1263, 1285, 1711, 1919, 2125, 2202, 2225, 2382, 3006, 3109, 3278, 3428, 3429, 3462, 3467, 3475, 3497, 3672 3568 1283, 1284 2341, 2348, 3472 2341 Bacteroides sp. 3_1A (469593.3) 1910, 2382, 2385 2383 2857, 4273 1396, 4225, 4274, 4385 2384 63, 276, 402, 643, 878, 1351, 2837, 2839, 2946, 3273, 3281, 3282, 3283, 3393, 3681, 3704, 3860, 3886, 4311, 4768 448 3682, 3683, 3684 227, 241, 902, 3380 227 Bacteroides sp. 3_2_5 (457392.3) 56, 826, 3419 58 4308 149, 1445, 2725, 2948, 3192, 3193, 3238, 3696, 3708, 4020 57 47, 256, 261, 459, 546, 798, 841, 845, 974, 1087, 1966, 2100, 3747, 4352 545, 3213, 4085 208, 620, 893, 898, 3413 620, 893 Bacteroides sp. 4_1_36 (457393.3) 184, 1569, 1573, 2207 1571 3694 1065, 1197, 1212, 1368 1570 194, 643, 696, 699, 771, 773, 780, 902, 1002, 1070, 1813, 2053, 2141, 2142, 2213, 3026, 3511 2042 772 1312, 2138 1312 Bacteroides sp. 4_3_47FAA (457394.3) 1935, 1938, 2815 1937 1016, 2935 966, 1017 1936 78, 205, 596, 773, 1053, 1566, 1589, 1709, 1786, 2676, 2698, 2718, 2951, 2953, 3618, 3810, 4381, 4382, 4390 1663 1587, 1588 616, 759, 760, 4348 acteroides sp. 9_1_42FAA (457395.6) 1121, 2369, 2372, 2467, 3694 2371 151, 2970 150, 2080 2370 20, 418, 616, 655, 678, 902, 996, 1008, 1349, 1570, 1571, 1579, 2121, 2468, 2469, 2516, 2950, 3053, 3139, 3285, 3286, 3317, 3321, 3347, 3523, 3994 3326, 3950 676, 677 1125, 1133 1125 Bacteroides sp. D1 (556258.5) 357, 1466, 1473 1471 2071 1051, 2471, 2760, 4268 1472 128, 372, 405, 584, 611, 614, 962, 1257, 1261, 1262, 1295, 1748, 2099, 2544, 2685, 3121, 3122, 3146, 3938, 4451 162, 1860, 1966 717, 3145, 3409, 3411 582, 612, 713, 875, 3449 612, 713, 875 Bacteroides sp. D2 (556259.3) 495, 505, 2754 497 1794 283, 878, 4349, 4377 496 66, 536, 590, 896, 1260, 1341, 1379, 1683, 1684, 1685, 1690, 1933, 1934, 1999, 2141, 2249, 2267, 2268, 2493, 2584, 2644, 2770, 2776, 2939, 2953, 3146, 3266, 3670, 3991, 4605, 4891, 5010, 565, 1124, 1170, 2613, 3003 1377, 1378, 4769, 4771 1939, 2247, 2856, 2964, 2966, 2967, 4955 2856 Bacteroides sp. D20 (585543.3) 977, 981, 1943, 3518 979 641 200, 1135, 2907, 3088, 3207, 3471, 3485 980 84, 528, 1443, 1446, 1521, 1523, 1530, 1658, 1758, 1898, 1904, 1906, 1953, 1990, 1991, 2278, 2279, 2370, 2606, 3578 2379 1522 315, 317, 1080, 2281 1080 acteroides sp. D22 (585544.3) 1042, 4651, 4655 4653 2988 936, 1400, 1490, 1506, 1645, 2193, 3884 4654 286, 414, 882, 901, 1028, 1667, 1711, 1730, 1731, 1735, 2593, 2618, 2699, 2973, 3045, 3484, 3868, 4183 832, 2162 2594, 2595, 2845, 2847 412, 425, 867, 868, 871, 981, 2714 425, 981 Bacteroides sp. HPS0048 (1078089.3) 265, 813, 2515, 3721 3723 4790 1628, 2235, 2812, 2813, 3474, 3477, 3634, 4680 3722 23, 88, 235, 354, 636, 1055, 1419, 1963, 2090, 2518, 3180, 3183, 3947, 4402, 4404, 4412 466 120, 151, 1949, 4049 151, 1949, 4049 Bacteroides stercoris ATCC 43183 (449673.7) 1612, 2824 1610 334 1097 1611 537, 809, 1435, 1454, 2246, 3212 2341 2341 Bacteroides thetaiotaomicron VPI-5482 (226186.12) 355, 370, 2896, 3593, 3596 368 3872 631 369 461, 773, 1000, 1009, 1010, 1013, 1664, 1815, 2254, 2255, 2721, 2969, 3019, 3153, 3177, 3241, 3359, 3360, 3407, 3577, 4112, 4218, 4223, 4248, 4312, 4748, 4765 289, 3714, 4227 4219 2706, 2898, 3123, 3194, 3651, 4224 2898, 3194 Bacteroides uniformis ATCC 8492 (411479.10) 1277, 1526, 1529, 2781, 2994 1528 2484 2346, 2727, 2745, 2892 1527 328, 424, 578, 682, 1223, 1289, 1395, 2888, 2988, 3061, 3062, 3218, 3280, 3287, 3290, 3382, 3385, 3436, 3904, 3912 3232 3289 2269, 3065 2269 acteroides vulgatus ATCC 8482 (435590.9) 770, 2297, 2399, 2402, 3717, 3718 2400 386, 3988 3047, 3987, 4127 2401 169, 189, 307, 403, 405, 551, 625, 1029, 1198, 1422, 1836, 1853, 1876, 1877, 2234, 2244, 2296, 2769, 2775, 2776, 3001, 3949, 4245 507 187, 188 660, 763 763 Bacteroides vulgatus PC510 (702446.3) 231, 323, 3430, 3433 3431 1253, 1628 172, 1254 3432 130, 230, 648, 650, 708, 761, 1063, 1761, 1844, 1878, 2301, 2338, 2345, 2346, 2643, 2775, 3179, 3196, 3205 919 2302, 2303 1033, 2486, 2889 2889 Bacteroides xylanisolvens SD CC 1b (702447.3) 2585, 2591, 4565 2589 2852 760, 1854, 4805 2590 31, 171, 400, 401, 1150, 1153, 1180, 1817, 2101, 2824, 3069, 3102, 3103, 3312, 3393, 3456, 3639, 3643, 3644, 3723, 4007, 4550 1252, 1551, 3690 158, 920, 2027, 2065, 2417 1152, 1182, 2031, 2142, 3241 1152, 2031, 3241 Bacteroides xylanisolvens XB1A (657309.4) 353, 364, 1616 362 3848 1837, 2756 363 764, 777, 805, 1008, 1420, 1444, 1603, 2043, 2069, 2158, 2708, 3617, 3818, 3900, 3903, 3904, 3957, 4643 1076, 1766 584, 586, 689, 2044, 2046 453, 694, 776, 807, 1405, 1406, 1408, 1536 694, 776, 1536 Barnesiella intestinihominis YIT 11860 (742726.3) 1724, 2373 1723 367 2491 941 511, 725, 738, 2376, 2871 108 2381 Bifidobacterium adolescentis L2-32 (411481.5) 1142 1788 137 138 706 1914, 63 25, 64, 1984 1376 60, 749, 1375, 1938 18, 318, 830, 1978 18, 318, 830, 1978 1977 Bifidobacterium angulatum DSM 20098 = JCM 7096 (518635.7) 849 280 281 282 285, 287 119, 283, 284 291, 1485 246, 728 246, 728 Bifidobacterium animalis subsp. lactis AD011 (442563.4) 1392 585 586 466 490, 492 481, 482 149, 271, 483 48, 491 921, 1598 921, 1598 Bifidobacterium bifidum NCIMB 41171 (398513.5) 403 1067 1066 474, 1614 481, 905 482, 483, 484 1612 833, 1143, 1478, 1479, 1611 849, 1704 1721 1721 Bifidobacterium breve DSM 20213 = JCM 1192 (518634.7) 1055 487 486 93, 1476 1473 524, 527, 1469, 1471, 1472 1513, 80 81, 1512 430, 525 8 8 ifidobacterium breve HPH0326 (1203540.3) 1736 575 574 119, 1074 1077 507, 509, 510, 612, 613, 615, 616, 1078, 1079, 1081 1038, 80 81, 1039 511, 614 8 8 Bifidobacterium catenulatum DSM 16992 = JCM 1194 (566552.6) 643 1028 1029 1151, 1153 1238 1237, 1268, 1310 287, 1112, 1529 201, 992, 1557 201, 992 Bifidobacterium dentium ATCC 27678 (473819.7) 1757 1165 1164 205 1304, 1305 505, 744 82, 1059 246, 500, 592, 849, 858, 895 246, 500, 592, 849, 895 856 Bifidobacterium gallicum DSM 20093 (561180.4) 227 407 408 989 809 1178 1178 Transporter is not foundBifidobacterium longum DJO10A (Prj:321) (205913.11) 314 438 437 1832 1835 918, 923, 1022, 1023, 1837, 1838, 1839 1820 1819 921, 1025 1053, 1308 1053 Bifidobacterium longum NCC2705 (206672.9) 436 926 927 1699, 1726 1696 875, 880, 995, 997, 1692, 1693, 1694 679 680 878, 994 1422, 1476 1422 Bifidobacterium longum subsp. infantis 157F (565040.3) 1039 426 425 1698, 1726 1729 359, 360, 361, 1731, 1732, 1733 680 679 362, 472 1934, 1985 1985 Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222 (391904.8) 1193 2146 2147 541, 633, 2248 2251 909, 910, 911, 2252, 2253, 2254 2199, 2410, 2411, 2448, 270, 523 1436 2413 2098, 2202, 2490 2534 2534 Bifidobacterium longum subsp. infantis ATCC 55813 (548480.3) 1185 297 298 651, 678, 1050 648 645, 646, 647 1893, 452, 794 453, 793 250, 1891 1009, 1598 1598 Bifidobacterium longum subsp. infantis CCUG 52486 (537937.5) 1657 206 207 1180, 1207 1177 1173, 1174, 1175 246, 975 974 157, 248 681, 1708 681 Bifidobacterium longum subsp. longum 2-2B (1161745.3) 1486 1294 1293 484, 511 514 515, 516, 517, 838, 839 281 282 836, 1341 138, 1514 1514 Bifidobacterium longum subsp. longum 44B (1161743.3) 766 1263 1264 1604, 1631, 1798 1601 103, 104, 105, 1598, 1599, 1600 1859 1858 102, 535 211, 375 375 Bifidobacterium longum subsp. longum F8 (722911.3) 299 798 799 1189, 1596 1599 858, 859, 860, 1600, 1601, 1602 549 550 752, 856 1549, 1837 1549 Bifidobacterium longum subsp. longum JCM 1217 (565042.3) 1119 413 412 1648, 1676 1679 458, 1680, 1681, 1682 1541, 366 1542 362, 459 1887, 1953 1953 Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 (547043.8) 1258, 1259 932 931 208, 210, 1612 1749, 734, 815 788, 816, 1750, 1753 110, 759, 835 1722, 1878 1722, 1878 Bifidobacterium sp. 12_1_47BFAA (469594.3) 1664 1013 1014 552, 580, 1894, 1899 583 475, 476, 585, 586, 587 331 330 478, 968 744, 1085 744 Bilophila wadsworthia 3_1_6 (563192.3) 954 32 986, 1355 Blautia hansenii DSM 20583 (537007.6) 542 719, 1523 1524 806 1753 653, 657, 658, 659 811, 812, 813, 1757, 1758 1683, 1812, 1930, 2045, 2332 88 88 Blautia hydrogenotrophica DSM 10507 (476272.5) 2869 372 373 596 583 1033 585, 586, 587 1073 Transporter is not foundBryantella formatexigens DSM 14469 (478749.5) 3236 1433 2156 2589 554 1634, 1637, 1638, 1639, 2753 550, 555, 556, 557 964, 965, 985, 1691, 1974, 2504, 2766, 2812, 2851, 3870 966 2871 674, 684, 4155 581, 681, 1952 581, 1952 Burkholderiales bacterium 1_1_47 (469610.4) 108 603, 1632 butyrate-producing bacterium SM4/1 (245012.3) 1722 2237 1849 1904, 1905 butyrate-producing bacterium SS3/4 (245014.3) 1361 1837 899 1013, 3086 968, 969, 970, 971 butyrate-producing bacterium SSC/2 (245018.3) 1126, 1138, 2276 1137 1139 1140, 2694 181 179, 2271 1136 Butyricicoccus pullicaecorum 1.2 (1203606.4) 1111, 1160 1163 1161 1162 2192 2193 1157, 1158, 1159, 2294, 2300, 2301, 2302 3040 2962 2962 Butyrivibrio crossotus DSM 2876 (511680.4) 2197 2195 453, 508, 2144, 2196 2198 2199 Butyrivibrio fibrisolvens 16/4 (657324.3) 514 2726 1942 1856, 2547, 2562 1516, 1517 2729, 2730, 2731 1385, 2728, 3236 613 220, 221 586, 587, 1389, 2056 586, 587, 1389 Campylobacter coli JV20 (864566.3) 693 204 Campylobacter upsaliensis JV21 (888826.3) 1343 750, 1037, 1409 Catenibacterium mitsuokai DSM 15897 (451640.5) 202, 1928 175, 556, 1389, 1879, 1897, 1927 1929 465, 546, 1926 1541 112 1268 1019 1019 Cedecea davisae DSM 4568 (566551.4) 1301, 2239, 2677 1015 1016 1017 1018, 1018 220 214 2774, 2775, 2776 3198 3198 Citrobacter freundii 4_7_47CFAA (742730.3) 3912, 4367 2888 2889 2890 449, 2891, 2891 1446 934, 935, 1445 4474, 4475, 4476 2462 766 Citrobacter sp. 30_2 (469595.3) 138, 483 1407 1408 1409 484, 1410, 1410, 2476 2943 2950, 3862, 3863 592, 593, 594 982 4479 Citrobacter youngae ATCC 29220 (500640.5) 1827, 2170 3256 3257 3258 3259, 3259, 4007 3808 141, 142, 3815 2288, 2289, 2290 1867, 2805, 2867, 3766 2801 2801 lostridiales bacterium 1_7_47FAA (457421.5) 609 2132 3194 1583, 5582, 5585 4154 2378 4998, 4999, 5000, 5001 4156, 4157, 4158 1332 325, 2539, 4566, 4895, 5089 2185, 2659 2185, 2659 Clostridium asparagiforme DSM 15981 (518636.5) 2178, 3861 1958 1874 862, 4490, 5292 2786, 2787, 2788, 4849, 4850, 4851, 4852, 4854 1702, 2459, 2562 3719 2268 170 170 Clostridium bartlettii DSM 16795 (445973.7) 2397 2219 2253 Clostridium bolteae 90A5 (997893.5) 2024 1518 6057 1821, 5447, 5449 4411 2040, 2041, 2042, 2565, 2566, 2567, 2568 4408, 4409, 4410 5864 69, 3740 1099, 1810, 4946 1130, 4831 1130, 4831 Clostridium bolteae ATCC BAA-613 (411902.9) 2646 5037 4426 3898, 4068, 4070 1483 140, 147 1313, 1314, 1315, 1316, 2628, 2629, 2630 1480, 1481, 1482 1864 538, 2103 885, 3192, 3909 1640, 3163 1640, 3163 Clostridium celatum DSM 1785 (545697.3) 1528, 2692 603 617 618 199 2573, 2574 585 574 2466, 2472, 2473, 2474 2577, 2578, 2579 1197 623, 2065, 2344, 2374, 3008 Clostridium cf. saccharolyticum K10 (717608.3) 817 3091 3552 55 1407, 1408, 1409, 1411 1341 Clostridium citroniae WAL-17108 (742733.3) 45 506 5650 131, 5404, 5406 2512 3498, 3499, 3500, 3501 979, 3594, 5806 573 142, 4585, 6067 815, 2890, 3231, 4589 2890, 4589 Clostridium clostridioforme 2_1_49FAA (742735.4) 3822 3497 4956 503, 3171, 3173, 3893 2652 4527 981, 983, 984, 3804, 3805, 3806, 4830, 4831, 4832 2653, 2655, 2656 4686, 4766 137, 4513 3904 273, 4653, 5156 273, 4653, 5156 Clostridium difficile CD196 (645462.3) 2677, 3445 1252 2676 3387 2994, 3384 Galactose kinase and transporter are not foundClostridium difficile NAP07 (525258.3) 550, 3473 3479 3472 511 508, 1052 Galactose kinase and transporter are not foundClostridium difficile NAP08 (525259.3) 3523, 3584 2724 3585 3484 1166, 3481 Galactose kinase and transporter are not foundClostridium hathewayi WAL-18680 (742737.3) 2395, 4478, 4917 1176 3179 699, 701, 714, 715, 812, 2327, 2713, 4774 4106, 4107 1251, 4810, 4812, 4813 4108, 4109, 4110 569, 1206, 4423 1002, 2910, 3196 4564 146, 4509 146, 4509 Clostridium hiranonis DSM 13275 (500633.7) 2125 996 787 1060, 1113 1058 Galactose kinase and transporter are not foundClostridium hylemonae DSM 15053 (553973.6) 382, 1946, 3355 941 940 2618, 3218 3210 1189 1192 216, 217, 218, 222 3213, 3214, 3215 383, 1518 507 507 Clostridium leptum DSM 753 (428125.8) 419 539, 972 1931 1925 1520 5 9 466, 497, 767, 2309 778 18 2455 489, 2128, 2635 489, 2128, 2635 Transporter is not foundClostridium methylpentosum DSM 5476 (537013.3) 186 414 Clostridium nexile DSM 1787 (500632.7) 3596 3598 3597 1686, 1707, 2694 1721 792, 793, 794, 798 1712, 1713, 1714, 3026, 3027, 3028 278, 2119, 3063, 3643 3029 275 275 Clostridium perfringens WAL-14572 (742739.3) 1992, 1996 1009 1010 1011 825, 1993, 2000, 2256 1927 1913 2683 1006, 1007, 1008 1921, 1922, 1923 205, 272, 932, 2783 2761 1990 1990 Clostridium ramosum DSM 1402 (445974.6) 2151 62 61 63 64, 223, 1696 1039 1030, 1034, 1035, 1036, 1038 55, 79, 1637 1047 47 47 Transporter is not foundClostridium scindens ATCC 35704 (411468.9) 35 3455 3454 124, 2957 2966 2580 2577 1656, 1661, 1662, 1663, 1667, 1668 117, 118, 119, 2960, 2961, 2962 125 123 Clostridium sp. 7_2_43FAA (457396.3) 269 425 1486 1484 488, 1485 3457 2043 1396, 2042 883, 884, 2641, 2646, 2647, 2648 3455, 3456, 3459 198, 199, 214, 430 160 2240 2240 Clostridium sp. 7_3_54FAA (665940.3) 3877 4266 560 2255, 3788, 3807 3618 4480, 4483, 4484, 4485 2989, 3332 Clostridium sp. D5 (556261.3) 4375 2938 2936 2937, 3669, 4678, 4767, 4915 3342, 819 2836, 4279 2308, 2832, 4277 4226, 4227, 4228 820, 821, 822, 2033, 2034, 2037, 2038, 2039 161, 1935 488, 1131, 2629, 2633, 3635, 4229, 4231 688, 689, 914 42, 691, 3437 4191 1807, 2325 1807, 2325 Clostridium sp. HGF2 (908340.3) 3232 3566, 4136 1474, 2964 2391 2962, 2965, 2966, 2967 2900 Clostridium sp. L2-50 (411489.7) 1067 1066 1994, 2086 1959, 1960, 1961, 1965 1416 1417 63, 64 63, 64 Clostridium sp. M62/1 (411486.3) 212 866 2512 320, 3363 2636, 2637, 2638 524 Clostridium sp. SS2/1 (411484.7) 852, 863, 1183 862 864 865, 2767 1976 1178, 1974 861 1517, 1518 Clostridium spiroforme DSM 1552 (428126.7) 235 838 728 729 1339, 2167, 2168, 2169, 2269 Clostridium sporogenes ATCC 15579 (471871.7) 463 868, 1901 1607 Clostridium symbiosum WAL-14163 (742740.3) 1568 2873 993 72, 1626, 3029 366 1782, 1783, 1784, 1785 587, 799 Clostridium symbiosum WAL-14673 (742741.3) 4226 3951 670, 2301 519, 800, 4158 150 2016, 2017, 2018, 2019 671 565, 672, 883, 884 Collinsella aerofaciens ATCC 25986 (411903.6) 948 768 794 444, 793 1712 788, 789 791, 2056 799 2047 2048, 2049, 2050, 2059 Collinsella intestinalis DSM 13280 (521003.7) 253 487 386, 387 384 381 Collinsella stercoris DSM 13279 (445975.6) 359 138, 829 137, 828 136, 827 625 155, 156 159 161, 776 127 831, 832, 833 128, 129, 130, 132 1635 Collinsella tanakaei YIT 12063 (742742.3) 622, 1893 1362 1363 1364 981 730, 731 741 704 Transporter is not foundoprobacillus sp. 29_1 (469596.3) 2740 2976 2975 2977 584, 1142, 1146, 1193, 1194 1527 704 272, 705, 1430 1528, 1530, 1531, 1532 663, 1743 81 Transporter is not foundCoprobacillus sp. 3_3_56FAA (665941.3) 3217 1085 1086 1084 740, 1083, 1163 1492 1483, 1487, 1488, 1489, 1491 1066, 1094, 3902 1500 1102 1102 Transporter is not foundCoprobacillus sp. 8_2_54BFAA (469597.4) 3485 3064 3063 3065 283, 1761, 3066 596 586, 591, 592, 593, 595 147, 217, 3055, 3083 604 3047 3047 Transporter is not foundCoprobacillus sp. D6 (556262.3) 363 2560 2561 2559 1277, 3174, 3178, 3223, 3224 3551 1159 1158, 1407, 3455 3552, 3554, 3555, 3556 1199, 2909 1597 Transporter is not foundCoprococcus catus GD/7 (717962.3) 2369 22 2148 23 269 Transporter is not foundCoprococcus comes ATCC 27758 (470146.3) 2341 1070 1069 199, 200 1169, 1170, 1171, 1172, 1173 1105, 1106, 1107, 1108 427 1166, 1167, 1659 676 1126, 1280, 2555 1126, 1280, 2555 Coprococcus eutactus ATCC 27759 (411474.6) 1663 1662 1661 1988, 1989, 1990, 1994 2263 1668, 2262 915 520, 1454, 1515, 1906, 2218 520, 1454, 1515, 1906, 2218 Coprococcus sp. ART55/1 (751585.3) 1269 1270 1271 993, 998, 999, 1000 2584 1242, 2583 2529 1093, 1399, 1460, 1474, 2559 1093, 1399, 1460, 1474, 2559 Coprococcus sp. HPP0048 (1078091.3) 1091 1602 1601 2296 2284 1593, 1594, 1596, 1597 2290, 2291, 2292 821, 958 158, 717, 940, 1014, 1022, 2369 2623 1335, 1918, 2047, 2623 Coprococcus sp. HPP0074 (1078090.3) 488 2589 2590 1779, 2076 2064 2594, 2595, 2597, 2598 2070, 2071, 2072 1055, 1703, 623 560, 569, 641, 1182, 1702, 2135 257, 2769 257, 2769 Corynebacterium ammoniagenes DSM 20306 (649754.3) 730 2090 238 1185 Galactose-1-phosphate uridylyltransferase and transporter are not foundCorynebacterium sp. HFH0082 (1078764.3) 2070 1866 638, 1404 1014 Galactose-1-phosphate uridylyltransferase and transporter are not foundDermabacter sp. HFH0086 (1203568.3) 1035, 1497 1036, 1056 165, 1016 1308 869 869 Galactose-1-phosphate uridylyltransferase and transporter are not foundDesulfitobacterium hafniense DP7 (537010.4) 4837 284, 4780 3905, 4278 Desulfovibrio piger ATCC 29098 (411464.8) 1264, 1285 1165, 1166, 1375, 1436, 1511 Desulfovibrio sp. 3_1_syn3 (457398.5) 2203 423, 520, 673, 735 Dorea formicigenerans 4_6_53AFAA (742765.5) 1936 2199, 3234 2200, 3162, 3163, 3231 2546, 3232, 3233 2192, 2193, 2197 2698, 3236, 3263, 3264 Dorea formicigenerans ATCC 27755 (411461.4) 1602 1840 1841 326 1832, 1833, 1834, 1838 5 4, 2657 Dorea longicatena DSM 13814 (411462.6) 2325 2298 2299 1524, 1775, 2374 1499, 1503, 1504, 1505 2203 165, 1573, 1574, 2400, 2401, 2402, 2403, 2525 1547 Dysgonomonas gadei ATCC BAA-286 (742766.3) 873, 1638, 3950 1879 1795, 2422 3193 2883 88, 300, 407, 1488, 1566, 1593, 1594, 1692, 2392, 2394, 2533, 2535, 3414, 3520, 3901, 4196 1387, 4065 1499, 1968, 2543, 2544, 2547, 4063 1968 Dysgonomonas mossii DSM 22836 (742767.3) 484, 898 1312 1650 355, 2111, 2123, 2654 1384 339, 1116, 1723, 3263 1023 2511 Edwardsiella tarda ATCC 23685 (500638.3) 2181, 2460 1723 1722 1721 1720, 2179, 2182 1696 1685, 2067 950, 951, 2782 Transporter is not foundEggerthella sp. 1_3_56FAA (665943.3) 2219 1050, 2020 Eggerthella sp. HGA1 (910311.3) 2802 1156, 2014 Enterobacter cancerogenus ATCC 35316 (500639.8) 1613, 1966 2268 2269 2270 1956, 2271, 2271 3736 3743 21, 22, 23 625 2930 Enterobacter cloacae subsp. cloacae NCTC 9394 (718254.4) 3407, 4153 1049 1048 1047 1046, 1046 2631 2635 3292, 3293, 3294 3708 1466, 2902 47 47 Enterobacteriaceae bacterium 9_2_54FAA (469613.3) 2420, 2623 427, 2789 428 429 430 32 38, 2788 535, 536, 537 477 Enterococcus faecalis PC1.1 (702448.3) 1024, 1226 923, 1539, 1572 924 756 315, 757, 1275 2505, 2506 655, 1367, 2507 2508 922 634, 635, 636 1961 637, 2029, 2174 637, 2029, 2174 Enterococcus faecalis TX0104 (491074.3) 356 181, 2001 182 392, 1048 2546, 2954 462, 463 438, 1218, 1241 439, 1221 437 464, 465, 466 433, 434, 435, 436 1113 475, 1333 nterococcus faecalis TX1302 (749513.3) 2361 904, 1114 903 651, 1015 100, 1520 2455, 2456 1698, 1722, 2417 2418 2416 2457, 2458, 2459 2412, 2413, 2414, 2415 1609 Enterococcus faecalis TX1322 (525278.3) 361 986, 1799 985 712, 982 43, 711, 983, 984, 1484 1929, 1930 297, 1533, 1567, 1931 295, 296, 1536, 1932 298 299, 300, 301, 302 1027 277 Enterococcus faecalis TX1341 (749514.3) 1973 224, 1315 223 658, 898 1679, 2403 1877, 1878 1917, 2357 1916, 2354 1918 1874, 1875, 1876 1919, 1920, 1921, 1922 2241 Enterococcus faecalis TX1342 (749515.3) 2459 145, 470 471 2, 1587 1, 480, 1386, 1586 2560, 2561 1315, 1339, 2520 2521 2519 2562, 2563, 2564 2515, 2516, 2517, 2518 771 1227 Enterococcus faecalis TX1346 (749516.3) 150 398, 1515 399 1438, 1750 864, 996 950, 1835 947, 1834 1836 1837, 1838, 1839, 1840 Galactose-6-phosphate isomerase and transporter is not foundEnterococcus faecalis TX2134 (749518.3) 1306 734, 902 735 237, 2457 238, 1593, 2458, 2502 290, 315, 1252 312, 1251 1253 1254, 1255, 1256, 1257 1230 Galactose-6-phosphate isomerase and transporter is not foundEnterococcus faecalis TX2137 (749491.3) 251 1058, 1188 1187 61, 2415 2156, 2354 346, 347 307, 2280, 2304 308, 2301 306 348, 349, 350 302, 303, 304, 305 2481 Enterococcus faecalis TX4244 (749494.3) 1596 1010, 2502 2501 557, 558 2082, 2700 1692, 1693 1653, 2031 1654 1652 1694, 1695, 1696 1648, 1649, 1650, 1651 710 Enterococcus faecium PC4.1 (791161.5) 1063, 1267 954, 1596, 1630 955 777 324, 778, 1319 2585, 2586 671, 1416, 2587 2588 953 650, 651, 652 2030 653, 2098, 2247 653, 2098, 2247 Enterococcus faecium TX1330 (525279.3) 697, 1975 1067, 1399, 1433, 1778 1068 491 492, 649, 2412 1611, 1612, 1730, 1731 391, 1613, 1732 1614, 1733 1066 371, 372 1880 373, 1658 373, 1658 Enterococcus saccharolyticus 30_1 (742813.4) 1192 1771 2005 2007 2006, 2064 869, 1366 872, 1808, 1850 1809 1810, 1811, 1812, 1813 692, 2441 1244 929, 1243, 1322, 1923 85 928, 992 928, 992 Galactose-6-phosphate isomerase and transporter is not foundEnterococcus sp. 7L76 (657310.3) 171 1342, 1799 1798 1090, 1641 477, 1710 241, 242, 1664 243, 1661 240 236, 237, 238, 239 1492 Galactose-6-phosphate isomerase and transporter is not foundErysipelotrichaceae bacterium 21_3 (658657.3) 3141 1926, 3561 1268, 4021 4471 3495, 3496, 3497, 3500 3960 Erysipelotrichaceae bacterium 2_2_44A (457422.3) 4919 2681, 2734 3498, 531 4296 4019, 4022, 4023, 4024 3567 Erysipelotrichaceae bacterium 3_1_53 (658659.3) 4037, 4117 1540, 305 4692 1537, 1538, 1539, 1542 Erysipelotrichaceae bacterium 5_2_54FAA (552396.3) 625 2260, 2266 1672 2257, 2258, 2261, 2262, 2263 Erysipelotrichaceae bacterium 6_1_45 (469614.3) 3589 674, 719 1202, 4306 2178 1200, 1203, 1204, 1205 1139 Escherichia coli 4_1_47FAA (1127356.4) 3683, 4221 563 564 565 566, 566 2221, 3583 2228, 2229, 3582 4032, 4033, 4034 118 993 Escherichia coli MS 107-1 (679207.4) 1675, 4610 1409 1410 1411 1412, 1412 2604, 3851 2597, 3850 4098, 4099, 4100 2129, 3792 3007 4011 4011 Escherichia coli MS 115-1 (749537.3) 2773, 3752 3445 3446 3447 3448, 3448 498, 874, 875 491, 873, 1412 2429, 2430, 2431, 2432 28 4288 Escherichia coli MS 116-1 (749538.3) 1280, 2705, 4974 779 778 777 776, 776, 2706 985, 1312, 1313 993, 1041, 1314 3289, 3290, 3291 1483, 3623, 3830 2015 1247 Escherichia coli MS 119-7 (679206.4) 766, 1629 2735 2734 2733 2732, 2732 1510, 1576 1518, 1575 2368, 2369, 2370 209, 1283, 1442 979 4956 4956 Escherichia coli MS 124-1 (679205.4) 2991, 3286 2516 2517 2518 2519, 2519 358, 2955 351, 2954 4942, 4943, 4944 45 4495 Escherichia coli MS 145-7 (679204.3) 1472, 5238 4169 4168 4167 4166, 4166, 5237 123, 865 124, 872 177, 178, 179 802, 2063 3960 Escherichia coli MS 146-1 (749540.3) 3360, 4297 2665 2666 2667 2668, 2668 17, 1417 16, 1425 796, 797, 798 2234, 2235, 4258 1307 Escherichia coli MS 175-1 (749544.3) 75, 941, 1679 3303 3304 3305 76, 3306, 3306 756 764 1610, 1611, 1612 57 102 1125 1125 Escherichia coli MS 182-1 (749545.3) 4271, 4383 3966 3967 3968 3969, 3969, 4277 1678, 3366 1679, 3373 4052, 4053, 4054 521, 2116, 5029 2423 Escherichia coli MS 185-1 (749546.3) 915, 3765 4758 4757 4756 3764, 3773, 4755, 4755 2095, 2853 1418, 1419, 1830, 2088, 2854, 3978 2927, 2928, 2929 3014, 3015 1611 Escherichia coli MS 187-1 (749547.3) 111, 2562 1698 1697 1696 1695, 1695, 3891 1099, 3102 1092, 1100, 3101 2578, 2579, 2580, 2581 4285 2663 Escherichia coli MS 196-1 (749548.3) 2892, 3840 4665 4666 4667 2893, 4668, 4668 2793, 2946, 2947, 2948 2785, 2949 2223, 2224, 2225 1009, 1010, 2481 13 Escherichia coli MS 198-1 (749549.3) 772, 3619 2268 2269 2270 773, 1597, 2271, 2271 1966, 5003 1973, 5002 1884, 1885, 1886 4209, 4210 1649 Escherichia coli MS 200-1 (749550.3) 1620, 4502 3819 3818 3817 1627, 3816, 3816, 3990 1053, 1569 301, 1061, 1312, 1568, 2297, 2298 1791, 1792, 1793 994, 1823 4439 Escherichia coli MS 21-1 (749527.3) 1549, 4094 4321 4322 4323 4324, 4324 1495, 2779 1494, 2178, 2787, 3902, 3903 137, 138, 139 590 5038 scherichia coli MS 45-1 (749528.3) 204, 3367 4488 4489 4490 4491, 4491 1587, 4096 1586, 2935, 2936, 3037, 4103, 4217, 4313, 4314 2544, 2545, 2546 1518 3738 Escherichia coli MS 69-1 (749531.3) 2105, 4145 1802 1801 1800 1799, 1799 2055, 2554 2054, 2561 1998, 1999, 2000 1309 2382 Escherichia coli MS 78-1 (749532.3) 1867, 3843 2626 2627 2628 337, 2629, 2629, 3842, 3844 1625, 4086 1632, 4085 3427, 3428, 3429 591, 3803, 4837 4576 Escherichia coli MS 79-10 (796392.4) 1370, 2205 2070 2071 2072 2073, 2073 1421, 1897 1422, 1904 2133, 2134, 2135 573, 1488 4055 4678 4678 Escherichia coli MS 84-1 (749533.3) 454, 2150 4702 4703 4704 4705, 4705 419, 3490 418, 3483 362, 363, 364 1457 4385 Escherichia coli MS 85-1 (679202.3) 2615, 3053 48 49 50 51, 51 1012, 2581 1019, 2580 2525, 2526, 2527 1669 4077 Escherichia coli O157:H7 str. Sakai (386585.9) 1838, 2979 904 905 906 907, 907, 2980 3030, 4185 3031, 4193, 4548 3166, 3167, 3168 4130 5331 Escherichia coli SE11 (409438.11) 1422, 2467 936 937 938 939, 939 2516, 3585 2517, 3592 2568, 2569, 2570 492, 1885, 3525 4599 Escherichia coli SE15 (431946.3) 1261, 2016 714 715 716 717, 717 2063, 3102 2064, 3109, 3221, 3641, 3642 2120, 2121, 2122 323 4161 Escherichia coli str. K-12 substr. MG1655 (511145.12) 1284, 2119 782 783 784 785, 785 2172, 3226 2173, 3232 2231, 2232, 2233 352, 1688, 3170 4250 Escherichia coli UTI89 (364106.8) 1483, 2342 841 842 843 844, 844 1176, 2397, 3528 1174, 1175, 2398, 3535, 3647, 3921, 4110, 4111 2453, 2454, 2455 482, 3480 4594 Escherichia sp. 1_1_43 (457400.3) 1032 401 Escherichia sp. 3_2_53FAA (469598.5) 2359, 2622 266 265 264 263, 263 1082, 2678 962, 1075, 2679, 4279, 4486, 4487 2735, 2736, 2737 627, 1130 3703 Escherichia sp. 4_1B (457401.3) 813, 2442 1765 1764 1763 1762, 1762, 2441, 2443 2059, 3057 2058, 2554, 3049 2004, 2005, 2006 2322, 3114 3718 Eubacterium biforme DSM 3989 (518637.5) 1823 1822 1824 137, 965, 1821 1074 29 2258, 2259, 2260 1075, 1077, 1078, 1079 128, 129 Eubacterium cylindroides T2-87 (717960.3) 979 1442, 1443 1438, 1439, 1441 Eubacterium dolichum DSM 3991 (428127.7) 740 739, 1442 1786 32, 33 Eubacterium hallii DSM 3353 (411469.3) 1606 941 942 2223, 2636, 2646 1597, 1598, 1599, 1605 1491 1490 Eubacterium rectale DSM 17629 (657318.4) 228 2177 2178 1361 2888 1510, 1511, 1512, 1516 2884, 2885, 2886 784 1447 1435, 1450, 1451, 2175 2082, 2522 1521 1521 Eubacterium rectale M104/1 (657317.3) 3310 2440 2439 240 959 3190, 3194, 3195, 3196 955, 956, 957, 2443, 2444, 2445 2392 451 448, 449, 461, 1617, 2442 1381, 2494 3185 3185 Eubacterium siraeum 70/3 (657319.3) 98 1586 2194, 2598 1153, 2198 1828, 2008 533, 870, 936, 2193 1652 269, 302, 1825 269, 1825 Transporter is not foundEubacterium siraeum DSM 15702 (428128.7) 1888 509 218 1173 391, 2344 808, 2023, 2199 486 394, 1311, 1339 394, 1311 Transporter is not foundEubacterium siraeum V10Sc8a (717961.3) 853 1963 977 2245 1758, 2403 99, 1355, 1780 1853 632, 663, 1761 663, 1761 Transporter is not foundEubacterium sp. 3_1_31 (457402.3) 2375 231, 238 1386 235, 236, 237, 240 Eubacterium ventriosum ATCC 27560 (411463.4) 589 591 590 1775 1203, 1207, 1208 714 713, 2143 Faecalibacterium cf. prausnitzii KLE1255 (748224.3) 523 457 535, 2487 2486 131 2586 1979, 1980, 1981 2582, 2583, 2584 992 228, 1108, 1490, 1569, 1832 Faecalibacterium prausnitzii A2-165 (411483.3) 904 196 926, 1631 927 194, 593 1155 729, 730, 731 1151, 1152, 1153 145, 511, 955, 1662, 1999 1664, 2550 2550 Faecalibacterium prausnitzii L2-6 (718252.3) 1720 159 3212, 3231 3230 158 113 1292 1297 1271, 1272, 1273 115, 116, 117, 3087, 3088, 3089 2750 697, 1177, 1625, 2395, 2475, 3086 Faecalibacterium prausnitzii M21/2 (411485.10) 1540 1032 1527, 2200 2201 1034 2375 2456, 2457, 2458 2377, 2378, 2379 28, 38, 356, 387, 1474, 1697, 2374 1476 aecalibacterium prausnitzii SL3/3 (657322.3) 2284 821 2271, 2801 2800 823, 1643 2621 747, 748, 749 2617, 2618, 2619 538, 1365, 1398, 2249, 2407, 2417, 2622 1613, 2251, 2252 1613 Fusobacterium gonidiaformans ATCC 25563 (469615.3) 711 450 451 452 468, 469, 470 Fusobacterium mortiferum ATCC 9817 (469616.3) 652, 2274 2212 744 743 742, 1069 509 508, 741 636, 637, 638 359 971 969, 1756 969, 1756 Fusobacterium necrophorum subsp. funduliforme 1_1_36S (742814.3) 215 1959 1236, 1237 1238 364, 386, 1239 679, 680, 681, 682 Fusobacterium sp. 11_3_2 (457403.3) 942 2285 2439 2440 1099, 2441 307, 308, 309 Fusobacterium sp. 12_1B (457404.3) 457 770 2313 2314 633, 846, 2063, 2315 3260 3261 2370, 2371, 2372 Fusobacterium sp. 1_1_41FAA (469621.3) 952 1907 110 111 112 378, 379, 380 Fusobacterium sp. 21_1A (469601.3) 1353 1617 1879 1878 1450, 1877 827, 828, 829 Fusobacterium sp. 2_1_31 (469599.3) 553 1100 2025 2024 2023 771, 772, 773 Fusobacterium sp. 3_1_27 (469602.3) 678 1589 290 291 292, 1922 794, 795, 796 Fusobacterium sp. 3_1_33 (469603.3) 259 1075 1471 1473 356, 1474 657, 658, 659, 660 Fusobacterium sp. 3_1_36A2 (469604.3) 1311 711 1880 1881 138, 1882 1201, 1202, 1203 Fusobacterium sp. 3_1_5R (469605.3) 1122 278 277 276 960, 961, 962 Fusobacterium sp. 4_1_13 (469606.3) 327 870 2019 2018 417, 2017 1559, 1560, 1561 Fusobacterium sp. 7_1 (457405.3) 1319 1995 2301 2300 2299 650, 651, 652 Fusobacterium sp. D11 (556264.3) 1352 2236 1203 1201 1200, 1693 151, 152, 153 Fusobacterium sp. D12 (556263.3) 926 1442 1443 1444 4, 5, 6 Fusobacterium ulcerans ATCC 49185 (469617.3) 346 78 1383 1382 189, 1381, 1846 722, 3039 721, 3038 1324, 1325, 1326 Fusobacterium varium ATCC 27725 (469618.3) 122 1978 744 743 179, 742, 1903, 2026, 2147 1213 1212 686, 687, 688 Gordonibacter pamelaeae 7-10-1-b (657308.3) 413 940 Hafnia alvei ATCC 51873 (1002364.3) 340, 2406 2565, 3934 3933 3932 3931 908 902, 2566 3809, 3810, 3811 3875 912 912 Helicobacter bilis ATCC 43879 (613026.4) 1128 997, 1010, 2121 Helicobacter canadensis MIT 98-5491 (Prj:30719) (537970.9) 1443 151 Helicobacter cinaedi ATCC BAA-847 (1206745.3) 450 328, 877, 1852 Helicobacter cinaedi CCUG 18818 (537971.5) 1824 603, 1625, 1942, 1943 Helicobacter pullorum MIT 98-5489 (537972.5) 827 570 Helicobacter winghamensis ATCC BAA-430 (556267.4) 788 484 Holdemania filiformis DSM 12042 (545696.5) 2721 2722 3459 2272, 2770 3170, 3171, 3172 385 Klebsiella pneumoniae 1162281 (1037908.3) 2183, 4204 4718 4719 4720 4163 2257, 2258, 2259, 2619 3709 296, 2536 385 4155 4155 UDP-glucose 4-epimerase is not foundKlebsiella pneumoniae subsp. pneumoniae WGLW5 (1203547.3) 2399, 2757 910 911 912 913, 913 651, 2831, 2832, 2833, 5167 1727, 5270 572, 4767 4664 5346 5346 Klebsiella sp. 1_1_55 (469608.3) 480, 1674 1852 1853 1854 1855, 1855 2810 2806, 4917 1598, 1599, 1600 1285 2482, 4036 4136 4909 4909 Klebsiella sp. 4_1_44FAA (665944.3) 225, 527 1638 1639 1640 1641, 1641 4752 146, 147, 148, 1379 1217 4135 4760 4760 Lachnospiraceae bacterium 1_1_57FAA (658081.3) 132 122 160 183 613 262 263 123, 128, 129, 131, 136 605, 606, 615, 616, 617, 620 547, 1620, 2560 460 653, 1616 Lachnospiraceae bacterium 1_4_56FAA (658655.3) 2460 492 493 2325 359 53, 54, 55, 56 397, 676, 1285, 2025, 2109, 2110, 2238, 2239, 2765, 2824, 2847 2269 1370 Transporter is not foundLachnospiraceae bacterium 2_1_46FAA (742723.3) 506 2071 2070 1789 1802 1605, 1606, 1607 458, 776, 1372, 1391, 1476, 1630, 2069 Lachnospiraceae bacterium 2_1_58FAA (658082.3) 3009 235 236 846 1677 1925 1929 1671, 1683, 2212, 2213, 2214 1257, 1825, 2006, 2181, 2182, 3016, 3344 2058 2396, 2397, 3230 2396, 2397, 3230 Transporter is not foundLachnospiraceae bacterium 3_1_46FAA (665950.3) 180 170 207 222 2413 306 307 171, 176, 177, 179, 184 2406, 2407, 2415, 2416, 2417, 2420 1102, 1202, 2352 2260 1198, 2438 achnospiraceae bacterium 3_1_57FAA_CT1 (658086.3) 5123 1859, 3117 1857 1556, 2892, 7094 2098, 6940 96 818, 822, 823, 824 2099, 2100, 2101 2047, 2555, 3818, 3819, 3839, 3847, 4082, 4145, 4350, 4709, 4802, 4882, 5010, 5077, 5785, 5876, 6084, 6170, 6651, 7155 1306, 1326, 4715, 6401 1098, 3814, 3815, 4072, 4254, 4277, 5132, 5778, 6434 4706, 4804, 5177, 5325 328, 695, 3456, 3955, 4283, 4403, 4707, 6583 3456, 4403 Lachnospiraceae bacterium 4_1_37FAA (552395.3) 1223 1950 1949 2523 2536 1941, 1942, 1943, 1944 2527, 2528, 2529 577, 1299, 1300, 1308, 1387, 1900, 2444 959, 2219, 2919 959, 2219, 2919 Lachnospiraceae bacterium 5_1_57FAA (658085.3) 1480 2991 2990 234, 1697 243 786 789 904, 909, 910, 911 237, 238, 239, 1688, 1689, 1690 1698, 1699 1695, 1696 Lachnospiraceae bacterium 5_1_63FAA (658089.3) 191, 203, 1301 192 190 189, 1186, 2061 1308 193 2812, 2813 1747 1747 Lachnospiraceae bacterium 6_1_63FAA (658083.3) 1952 84, 963 83 1604 642 885, 889, 890, 892 646, 647, 1608, 1609, 1610 578, 696, 812, 1588 1750 1750 Lachnospiraceae bacterium 7_1_58FAA (658087.3) 3203 4682 5251 5075 831 5072 Lachnospiraceae bacterium 8_1_57FAA (665951.3) 656 666 629 607 851 530 529 652, 657, 659, 660, 665 844, 847, 848, 849, 857, 858 914, 1782, 2033 1000 811, 2037 Lachnospiraceae bacterium 9_1_43BFAA (658088.3) 513 1703 1702 1622, 2216 2228 1695, 1696, 1697, 1698 2220, 2221, 2222 39, 360, 435, 436, 444, 1546, 2158 787, 2549 787, 2549 Lactobacillus acidophilus ATCC 4796 (525306.3) 305, 1823 1149 1151 270, 1150, 1710 1161 1156, 1157 1160 1054, 1154, 1155 691, 1132 691, 1132 Lactobacillus acidophilus NCFM (272621.13) 597, 1640 1379 1381 560, 1380, 1754 1390 1385 1290, 1384 1364 1364 Lactobacillus amylolyticus DSM 11664 (585524.3) 1502 394 396 395, 519, 1533 398 Transporter is not foundLactobacillus antri DSM 16041 (525309.3) 1060 1463 1358 1359 1035 1369, 757 1498, 1499, 1500 395 1915 1915 Lactobacillus brevis ATCC 367 (387344.15) 624 356, 357 1809 1807 1808 1810 2161 1666 1666 Lactobacillus brevis subsp. gravesensis ATCC 27305 (525310.3) 2524 234, 1419 2574 1967, 2572 2573 1784 1324, 68 899, 900 465, 1325 276, 510, 514 276, 514 Lactobacillus buchneri ATCC 11577 (525318.3) 2410, 2488 1132 1771 1709, 1769 1770 1293 1072 648, 649 166 166 Lactobacillus casei ATCC 334 (321967.11) 1065 672, 1771 668 670 669, 1981 682, 683 680, 2598 681, 2540 675, 676, 677 404 1010, 2043 1010, 2043 Lactobacillus casei BL23 (543734.4) 1176 697, 1912 693 695 694, 2074 707, 708 705, 2694 386, 706, 2632 276 700, 701, 702 277, 278, 279, 280 1118, 2148 1118, 2148 Lactobacillus crispatus 125-2-CHN (575595.3) 971, 972, 1316, 1317, 1318, 1941 688 690 689, 1187, 1974 696 1902 692 694, 695 691 Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842 (390333.7) 507 1602 1071 1070 Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365 (321956.7) 495 1625 1086 1085 Lactobacillus fermentum ATCC 14931 (525325.3) 791 259 571 570 1708 567 1656 568 568 Lactobacillus fermentum IFO 3956 (334390.5) 371 1974 1973 327 855 856 1956 1956 Lactobacillus gasseri ATCC 33323 (324831.13) 686 1309 1311 1310, 1698 1313, 1533 479, 480 147, 160 144 17 482, 483, 484 116, 117, 118, 119, 124 253 253 Lactobacillus helveticus DPC 4571 (405566.6) 682, 1880 1578 1580 629, 1579 1635 1626, 1627, 1628, 1629, 1630 1633, 1634 1625 492, 493, 494, 495 492, 493, 494, 495 Lactobacillus helveticus DSM 20075 (585520.4) 1174 1719, 1720 1722 1210, 1409, 1721 1300 1292, 1293, 1294, 1295, 1296 1298, 1299 1291 1167 1167 Lactobacillus hilgardii ATCC 8290 (525327.3) 1052 2064 1110, 2066 2065 1543 259 1897, 1898 417 417 Lactobacillus johnsonii NCC 533 (257314.6) 1414 718 716 717, 1750 710, 1584 155, 170 152 16 272, 714 128, 129, 130, 131, 135 711, 712 593, 715 273 273 Lactobacillus paracasei subsp. paracasei 8700:2 (537973.8) 389 820, 2604 2600 2602 2018, 2601 2614, 2615 1460, 2338, 2612 1099, 2613 2333 2607, 2608, 2609 2334, 2335, 2336, 2337 444, 2088 444, 2088 Lactobacillus paracasei subsp. paracasei ATCC 25302 (525337.3) 358 703, 2385 2381 2383 2191, 2382, 2733 2394, 2395 1849, 2392 1904, 2393 2388, 2389, 2390 1132, 1133, 1134 413, 1353 413, 1353 Lactobacillus plantarum 16 (1327988.3) 614 674, 1379, 2806 2801 1444, 2799 573, 2800, 3137 1691 2805 2802, 2803 167, 168, 2804 167, 168, 2804 Lactobacillus plantarum subsp. plantarum ATCC 14917 (525338.3) 1332 1401, 2331 523 521, 2268 522, 1292 2027 510, 527 524, 525 511 526 526 actobacillus plantarum WCFS1 (220668.9) 638 701, 1460 2898 1522, 2896 596, 1018, 2897 1773 2885, 2902 2899, 2900 2886 2901 2901 Lactobacillus reuteri CF48-3A (525341.3) 525 695 203 204 557, 1243 1218, 13 437, 438 1219 1620 1620 Lactobacillus reuteri DSM 20016 (557436.4) 382 1794 1793 348 1097, 1786 296, 297 1096 919 919 Lactobacillus reuteri F275 (299033.6) 365 1740 1739 333 1067, 1731 282, 283 1066 896 896 Lactobacillus reuteri MM2-3 (585517.3) 1201 232 231 1008 1509, 224 1059, 1060 1508 824 824 Lactobacillus reuteri MM4-1A (548485.3) 1647 64 65 1676 72, 913 1727, 1728 914 1253 1253 Lactobacillus reuteri SD2112 (491077.3) 1038 1552 29 30 1007, 1631 1655, 37, 38 956, 957 1654 1817 1817 Lactobacillus rhamnosus ATCC 21052 (1002365.5) 1177 1935, 2035 2031 2033 2032, 2298 2047, 2048 433, 523, 2045, 2742 500, 2046, 2671 427, 428 429, 430, 431, 432 1524, 1824, 2369 2369 Lactobacillus rhamnosus GG (Prj:40637) (568703.30) 1054 660, 1851 656 658 657, 2012 669, 670 343, 667, 2662 415, 668, 2584 336, 337 662 338, 340, 341, 342 992, 2086 992, 2086 Lactobacillus rhamnosus LMS2-1 (525361.3) 64 784, 2173 2169 2171 2170, 2444 2184, 2185 1200, 1980, 2182 1264, 1953, 2183 1786 2175, 2176, 2177 1787, 1788, 1789, 1791 961, 1155, 2372 961, 1155, 2372 Lactobacillus ruminis ATCC 25644 (525362.3) 1770 213 1281 1280 215 520 258, 301, 736 259 735 300 300 Lactobacillus sakei subsp. sakei 23K (314315.12) 1467 744 741 743 742, 1244 177 1675, 1676 1756 1756 Lactobacillus salivarius ATCC 11741 (525364.3) 1843 1544, 1830 348 346, 989 347, 922, 1540 350 352 345, 964 345, 964 Lactobacillus salivarius UCC118 (362948.14) 1342 1355, 1586 458 460, 1111 459, 1039, 1590 241 454, 456 452 461, 462, 1084 461, 462, 1084 Lactobacillus sp. 7_1_47FAA (665945.3) 217 1054 840, 841 1111 843 849 845, 847, 848 850, 851, 852, 853 Lactobacillus ultunensis DSM 16047 (525365.3) 680, 1633, 1639 1466 1468 632, 838, 1467 1474 1470 1472, 1473 1469 391, 1460, 1482, 1483, 1723 391, 1460, 1482, 1483, 1723 Leuconostoc mesenteroides subsp. cremoris ATCC 19254 (586220.3) 603 65 67, 747 746 1451 68, 750, 752 70, 71 Listeria grayi DSM 20601 (525367.9) 86 1151, 2253 2264 2266 160, 2265 645 2246, 2247 2246, 2247 Transporter is not foundListeria innocua ATCC 33091 (1002366.3) 1661 2357 2356 527, 778 1141 Megamonas funiformis YIT 11815 (742816.3) 1973 2279 981 2170, 2281 2282 852, 854 2030 2027 458, 1210, 2278 458, 1210, 2278 Megamonas hypermegale ART12/1 (657316.3) 25 2690 1204 621, 2692, 2693 2694 1114, 1115, 1117, 1118 1560 1567, 1568, 1569 1598, 2601, 2602, 2688 1598, 2601, 2602, 2688 Methanobrevibacter smithii ATCC 35061 (420247.6) 1568 318, 1656 Methanosphaera stadtmanae DSM 3091 (339860.6) 1054 57, 66, 520, 952, 1041 Mitsuokella multacida DSM 20544 (500635.8) 141, 1791 2223 1330 1332, 1889 680, 1331 138 139 66 140, 1342 140, 1342 Mollicutes bacterium D7 (556270.3) 3238 2209 2210 2208 1804, 2207, 3187, 3188 1624 1615, 1619, 1620, 1621, 1623 1749, 2190, 2191, 2217 1632 2225 2225 Transporter is not foundOdoribacter laneus YIT 12061 (742817.3) 1462, 1802 1800 2822 988, 2213, 3269 1801 212, 1210, 1225, 1704, 2239, 2428, 2751, 3086 365, 1351 1351 Oxalobacter formigenes HOxBLS (556268.6) 139, 1547 1854, 2340 Oxalobacter formigenes OXCC13 (556269.4) 317, 1373 139, 601 Paenibacillus sp. HGF5 (908341.3) 1164, 5468 3314 3312 225, 1999, 3313 6203 5909 1433, 1434, 6385 942, 1217, 2508, 2510, 3110, 3532, 3757, 5397 3672, 3993 3381, 4611, 5327 814, 2370, 2383 657, 3488, 4610 657, 4610 Paenibacillus sp. HGF7 (944559.3) 889, 1272, 1637, 5231 4321 4319 782, 4320, 5481 3326 3325 926, 3290 742, 4207 4960, 5265 Transporter is not foundPaenibacillus sp. HGH0039 (1078505.3) 863, 1363, 3417, 4131 2440 2438 1478, 1491, 2439, 3524, 3630 4398 4399 3380, 4434 3207, 3566 94, 4281 Transporter is not foundParabacteroides distasonis ATCC 8503 (435591.13) 1654, 3706 1656 1552 24, 495, 3797 1655 219, 461, 966, 1407, 1962, 3063, 3080, 3081, 3257 1502 84, 436 84, 436 arabacteroides johnsonii DSM 18315 (537006.5) 993, 3337 991 1142 3149 1392 345, 369, 403, 478, 995, 1556, 1576, 1995, 2448, 2455, 2526, 2527, 2583, 2663, 2690, 2795, 3413, 3534, 3535, 3544 1137 1953, 2387 1953 Parabacteroides merdae ATCC 43184 (411477.4) 1590, 2341 2339 2825 3366 2340 253 192, 215, 252, 258, 1217, 1239, 1662, 1719, 2196, 2412, 2916, 3108, 3339, 3345, 3404, 3405 264 1894 1894 Parabacteroides sp. D13 (563193.3) 607, 1226 1224 2682 2610, 4119 1225 78, 885, 886, 1090, 1091, 1633, 2200, 2575, 3198, 3911 2737 2479, 2685, 4072 2479, 4072 Parabacteroides sp. D25 (658661.3) 221, 2761 219 3176 3103 220 632, 781, 782, 1185, 1917, 3069, 3677, 4104 3227 3044, 4195 3044, 4195 Paraprevotella clara YIT 11840 (762968.3) 1448, 2564, 2567 2566 949 3124 2565 124, 179, 565, 1392, 1642, 1647, 1895, 1901, 1902, 2275, 2410, 2737, 2975, 3221, 3431 1644, 3249 774, 775 774, 775 Paraprevotella xylaniphila YIT 11841 (762982.3) 85, 88, 514 87 173 1788 86 241, 338, 774, 861, 997, 1159, 1168, 1169, 1417, 2112, 2547, 2576, 2724, 2792, 3109 2521 1283, 1284 1283, 1284 Parvimonas micra ATCC 33270 (411465.10) 610 282 Pediococcus acidilactici 7_4 (563194.3) 933 197 701, 1879 699 700, 1434 1859, 1860 1853 1858 188 704 1862, 1863, 1864 187, 189, 190, 191 1120 1120 Pediococcus acidilactici DSM 20284 (862514.3) 1665 1193 101, 1389 103 102, 905 1408, 1409 1410 1203 98 1404, 1405, 1406 1199, 1200, 1201, 1202, 1204 99, 100 Phascolarctobacterium sp. YIT 12067 (626939.3) 474 475, 1389 Prevotella copri DSM 18205 (537011.5) 2542, 2545, 3164, 3167 2544, 3166 4110, 568 2038, 5045 2543, 3165 470, 946, 1605, 2251, 3853, 3951, 4209, 5267 1902, 2311, 3913, 5411 2211, 3813 2211, 3813 Prevotella oralis HGA0225 (1203550.3) 251, 254 253 2334 529, 657, 720 252 221, 1708, 1799, 1984 1366, 1757 revotella salivae DSM 15606 (888832.3) 1009, 2303 2301 2668 2115 2302 863 671, 926, 1054, 1136, 2629 1287 2160 Propionibacterium sp. 5_U_42AFAA (450748.3) 389, 1027 282, 388 556 572 2270 575, 576, 577 283 460, 2034 Galactose-1-phosphate uridylyltransferase is not foundPropionibacterium sp. HGH0353 (1203571.3) 1043, 1675 934, 1042 1220 2212 225 935 344 463 463 Galactose-1-phosphate uridylyltransferase is not foundProteus mirabilis WGLW6 (1125694.3) 1436, 3617 1876 1877 1878 1879 2026 2031 1874 Proteus penneri ATCC 35198 (471881.3) 3381 650, 651 652 653 654 854, 855 863 646, 647 Providencia alcalifaciens DSM 30120 (520999.6) 1625 1007 3332 Providencia rettgeri DSM 1131 (521000.6) 1866 504, 534 533 532 531, 1652 1200 1195 536 Providencia rustigianii DSM 4541 (500637.6) 3284, 3663 1426, 2201, 4929, 6165 1425, 4930 1424, 4931 25, 26, 1423, 4932, 7056, 7057 397, 6693 391, 6699 1428, 4927 Providencia stuartii ATCC 25827 (471874.6) 1916, 4263 2441, 2442 2443 2444 2445, 3228 3060 3066 2439 Pseudomonas sp. 2_1_26 (665948.3) 4577 144, 1095 Ralstonia sp. 5_7_47FAA (658664.3) 245, 3153 312, 893, 4022, 4245 4146 Roseburia intestinalis L1-82 (536231.5) 115, 2657 2807 2806 883, 1334, 1348, 1381, 1986, 3390 3250 390, 395, 396, 397 3251, 3252, 3253, 3255 659 652, 660, 761, 1247, 1252, 2809, 3145, 3275, 3888 642 2316, 2827 370, 637, 758, 1240, 1255 370, 758, 1240 Roseburia intestinalis M50/1 (657315.3) 583, 1137 1034 1035 1499, 3291, 3719 3559 822, 823, 824, 829 3553, 3554, 3556, 3557, 3558 1059 2078 1031, 1333, 2077, 2086, 3165, 3166, 3821, 3822 2092 1011, 3602 571, 851, 2096, 3818 571, 851, 3818 Roseburia intestinalis XB6B4 (718255.3) 467, 3902 3797 3798 855, 2207, 2363 2521 2953, 2954, 2955, 2960 2522, 2523, 2524, 2526 3357 1306, 2080, 2263, 3365, 3794 975, 3371 2478 455, 2266, 2980, 2981, 3388 455, 2266, 2980, 2981 Roseburia inulinivorans DSM 16841 (622312.4) 2760, 3881 2082 2083 2297, 2317, 2335, 3268 1688 1759, 1760, 1761, 1766 1694, 1695, 1696 527, 813, 1106, 1711, 3213, 3214, 3757 2974 1102, 1973 1102, 1973 Ruminococcaceae bacterium D16 (552398.3) 1778 676 674 339, 675 347 485, 486, 487 343, 344, 345 227 2626 1759 1759 Ruminococcus bromii L2-63 (657321.5) 657 574 577 575 576, 1672, 1997 578 Ruminococcus gnavus ATCC 29149 (411470.6) 1567 326 327 1608, 1743 1054 915 911 1048, 1393, 1394, 1395 1, 837, 1425, 1426, 1427, 1574, 2276, 3276 707 3134, 3135 3134, 3135 Transporter is not foundRuminococcus lactaris ATCC 29176 (471875.6) 804 565 564 443 1843 353, 358, 359, 360 1845, 1846, 1847 1736 2411 495, 512, 2410 1236 Ruminococcus obeum A2-162 (657314.3) 2766 1102 365 3361 2912 1719 1715 3540, 3541, 3542 370 890, 3543 3544 1335 1335 Ruminococcus obeum ATCC 29174 (411459.7) 1761 2325 2202 208, 2138, 3503 339 3062 3053, 3066 342, 343, 344, 347 1674 159, 1109 160, 3298 2296 2296 Ruminococcus sp. 18P13 (213810.4) 2109 592 218, 2110, 2295 600 230 229, 993 229 Ruminococcus sp. 5_1_39BFAA (457412.4) 53 1568 320, 2608 1928 611 1422, 1423, 1424 2232 311 312, 1784, 2371 1570, 1576, 3149 2374, 2380 2374, 2380 Ruminococcus sp. SR1/5 (657323.3) 2774 3679 467, 1270 3536 1418 3503 3507 1413, 1414, 1415 1819 1872, 1873, 2121, 3141 1416 1798 1513, 1801, 3584 1513, 1801, 3584 Ruminococcus torques ATCC 27756 (411460.6) 804 814 777 761 1844 616 615 800, 805, 807, 808, 813 1837, 1840, 1841, 1842, 1850 1580, 1891, 1925 2024 1920, 2203 Ruminococcus torques L2-14 (657313.3) 2576 1607 1606 2568 554 558, 2221 2844 1900 1899, 2382, 2400 1187, 2019, 2405 1187, 2019, 2405 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (99287.12) 1848, 2220 806 807 808 809, 809 3456 3452, 4000 2315, 2316, 2317 4520 Staphylococcus sp. HGB0015 (1078083.3) 1787 2023 2081 2083 2082 782, 783 1673 784, 1674 1675 1676, 1677, 1678, 1679 Streptococcus anginosus 1_2_62CV (742820.3) 1358 1752 357 358 763, 1452, 1574 120, 121 118, 1751 1745 122, 123, 124 1746, 1747, 1748, 1749 Tagatose-6-phosphate kinase and transporter are not foundStreptococcus equinus ATCC 9812 (525379.3) 877 1641 1601 1600 1599 297 661, 662 Streptococcus infantarius subsp. infantarius ATCC BAA-102 (471872.6) 741 693 633 632 631, 1260 655, 656 266, 654 653 1694 642 642 Streptococcus sp. 2_1_36FAA (469609.3) 175 63 882 881 801, 802, 880 1477, 1478, 1484, 1485 703, 1476, 1483 1475, 1482 57 1479, 1480, 1481 58, 59, 60, 61 1448 Streptococcus sp. HPH0090 (1203590.3) 1331 1440 10 11 169 395, 396 193, 397 398 1446 391, 392, 393 1442, 1443, 1444, 1445 144, 802 treptomyces sp. HGB0020 (1078086.3) 4132, 6643 5612, 5631 6596 6598 201, 1060, 1419, 5479, 6329, 6597, 7263, 8450 5311 3644 6599 471, 484, 554, 1594, 1669, 1951, 2943, 3105, 5115 2886, 3757, 3873, 5605, 6085 2412 794 1397, 3092, 3099, 3294, 3980, 3984 1397, 3099, 3980 Streptomyces sp. HPH0547 (1203592.3) 5781 5833 5831 2488, 4078, 4487, 5832 2140 4042 5830 4101 4656 94 Subdoligranulum sp. 4_3_54A2FAA (665956.3) 3008 245 3820 2263 440, 1605, 3219, 3715 447 3496, 3497, 3498 443, 444, 445 869, 1286, 1852, 3987, 4421 1050, 1051, 2356 2330, 3334 141, 2332 141, 2332 Subdoligranulum variabile DSM 15176 (411471.5) 1522, 4575 1067, 4240 1389, 4442 82, 651, 937, 1840, 2171, 3779, 4824, 5061, 5111, 5694 2375, 3110 710, 711, 712, 3719, 3720, 3721 2377, 2378, 2379, 3112, 3113, 3114 143, 845, 852, 964, 2155, 2276, 2321, 3012, 3056, 3578, 3585, 5088, 5099, 5632 1930, 5241 962, 1392, 4445, 5086 962, 1392, 4445, 5086 Succinatimonas hippei YIT 12066 (762983.3) 1796 513 209 208 207 2008, 2009, 2013 1596 Sutterella wadsworthensis 3_1_45B (742821.3) 440 432 Sutterella wadsworthensis HGA0223 (1203554.3) 2242 2252 Tannerella sp. 6_1_58FAA_CT1 (665949.3) 1878, 2419 2421 583 1502, 1987 2420 350, 358, 362, 553, 668, 912, 1014, 1779, 1882, 2292, 2308, 2318, 2597, 3211, 3212, 3319, 3358 493 735, 2320 2320 Turicibacter sp. HGF1 (910310.3) 1275, 2005, 2590, 2591 1505 1503 1502 1501, 2586, 2589 1099 35 1113 1100, 1101, 1110, 1116 2078 1511, 1512, 1996 2706 2622 1518 1517, 1768 1517, 1768 Turicibacter sp. PC909 (702450.3) 287, 496 1179 1177 1176 1175, 1677, 1837 384 1430 370 367, 373, 382, 383 274, 1184, 1185 2541 118, 119 1191 450, 1190 450, 1190 Transporter is not foundVeillonella sp. 3_1_44 (457416.3) 48 990 57, 60, 777 Galactose kinase and transporter are not foundVeillonella sp. 6_1_27 (450749.3) 48 1046 56, 59, 814 Galactose kinase and transporter are not foundWeissella paramesenteroides ATCC 33313 (585506.3) 1641 83, 1663 135 134 826, 1565 125, 136 1536 124 124 Yokenella regensburgei ATCC 43003 (1002368.3) 3447, 3929 2406 2407 2408 2409, 2409, 3927 1544 1537 4016, 4017, 4018 3258 2170 3284 uc Gal GalNAc GlcNAc Neu5Ac α (1-2), Alpha-L-fucosidase [EC 3.2.1.51] α (1-3), Alpha-galactosidase [EC 3.2.1.22] α (1-3), Alpha-N-acetylgalactosaminidase [EC 3.2.1.49]; α (1-4), Alpha-N-acetylglucosaminidase [EC 3.2.1.50]; α (2-3), Neuraminidase [EC 3.2.1.18]; β (1-4), Beta-N-hexosaminidase [EC 3.2.1.52] β (1-3), Beta-N-hexosaminidase [EC 3.2.1.52] α (2-6), Neuraminidase [EC 3.2.1.18]; β (1-3), Beta-galactosidase [EC 3.2.1.23] α (1-6), Alpha-N-acetylgalactosaminidase [EC 3.2.1.49]; β (1-3), Beta-N-hexosaminidase [EC 3.2.1.52] α (2-6), Neuraminidase [EC 3.2.1.18] β (1-3), Beta-N-hexosaminidase [EC 3.2.1.52] β (1-6), Beta-N-hexosaminidase [EC 3.2.1.52] α (1-2), Alpha-L-fucosidase [EC 3.2.1.51]; β (1-3), Beta-galactosidase [EC 3.2.1.23]; β (1-4), Beta-N-hexosaminidase [EC 3.2.1.52] α (1-3), Alpha-L-fucosidase [EC 3.2.1.51]; β (1-4), Beta-galactosidase [EC 3.2.1.23] α (1-4), Alpha-L-fucosidase [EC 3.2.1.51] O-Ser/Thr - - α (1), Endo-alpha-N-acetylgalactosaminidase [EC 3.2.1.97] - - Legend
Fuc - L-fucoseGal - galactoseGalNAc - N-acetyl-D-galactosamineGlcNAc - N-acetyl-D-glucosamineNeu5Ac - N-acetylneuraminic acidO-Ser/Thr - Oxygen atom of the side chains in serine or threonine in mucin protein chain - nd monosaccharide / amino acid 1 st monosaccharideTable S8 Glycosylic bonds found in the mucin glycans and corresponding glycosyl hydrolases.
GalGalNAc - GlcNAc - rganism name PubSEED ID IMG ID Gene ID Locus Tag Gene Name Length Percent Identity642612071 Amuc_0031 hypothetical protein 291 51.2Akkermansia muciniphila ATCC BAA-835 GalK+ / GalT+ genomesGalK+ / GalT- genomes 2. Results of the gene occurrence analysis from IMG/JGI1. Analyzed genomesTable S9.
Search of non-orthologous replacement the GalT by gene occurrence analysis. Genome of interest and the final result are shown by bold and blue.
P GH CP GH CP GH CP GH CP GH CPs GHs CPs+GHs
Abiotrophia defectiva ATCC 49176 (592010.4) 1 1 0 1 0 1 0 1 1 1 BHHHB 2 5 2 DonorAcidaminococcus sp. D21 (563191.3) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Acidaminococcus sp. HPA0509 (1203555.3) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Acinetobacter junii SH205 (575587.3) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Actinomyces odontolyticus ATCC 17982 (411466.7) 1 1 0 0 1 0 1 1 1 1 BxPBB 4 3 3 AcceptorActinomyces sp. HPA0247 (1203556.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorAkkermansia muciniphila ATCC BAA-835 (349741.6) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorAlistipes indistinctus YIT 12060 (742725.3) 0 1 0 1 0 1 0 0 1 1 HHHxB 1 4 1 DonorAlistipes shahii WAL 8301 (717959.3) 0 1 0 1 0 1 0 1 1 1 HHHHB 1 5 1 DonorAnaerobaculum hydrogeniformans ATCC BAA-1850 (592015.5) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Anaerococcus hydrogenalis DSM 7454 (561177.4) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Anaerofustis stercorihominis DSM 17244 (445971.6) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Anaerostipes caccae DSM 14662 (411490.6) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorAnaerostipes hadrus DSM 3319 (649757.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorAnaerostipes sp. 3_2_56FAA (665937.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorAnaerotruncus colihominis DSM 17241 (445972.6) 1 0 0 0 1 0 1 0 1 0 PxPPP 4 0 0 AcceptorBacillus smithii 7_3_47FAA (665952.3) 0 0 0 1 1 1 0 0 0 1 xHBxH 1 3 1 DonorBacillus sp. 7_6_55CFAA_CT2 (665957.3) 0 0 0 0 1 1 0 0 1 0 xxxxP 1 0 0 AcceptorBacillus subtilis subsp. subtilis str. 168 (224308.113) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorBacteroides caccae ATCC 43185 (411901.7) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides capillosus ATCC 29799 (411467.6) 0 0 0 1 0 1 0 0 1 1 xHHxB 1 3 1 DonorBacteroides cellulosilyticus DSM 14838 (537012.5) 1 1 0 1 1 1 0 0 1 1 BHBxB 3 4 3 DonorBacteroides clarus YIT 12056 (762984.3) 0 1 0 1 1 1 1 1 1 1 HHBBB 3 5 3 DonorBacteroides coprocola DSM 17136 (470145.6) 0 1 0 1 0 1 0 1 1 1 HHHHB 1 5 1 DonorBacteroides coprophilus DSM 18228 (547042.5) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides dorei DSM 17855 (483217.6) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorBacteroides eggerthii 1_2_48FAA (665953.3) 0 1 0 1 1 1 1 0 1 1 HHBPB 3 4 2 MixedBacteroides eggerthii DSM 20697 (483216.6) 0 1 0 1 1 1 1 0 1 1 HHBPB 3 4 2 MixedBacteroides finegoldii DSM 17565 (483215.6) 1 1 0 1 1 1 0 1 1 1 BHBHB 3 5 3 DonorBacteroides fluxus YIT 12057 (763034.3) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides fragilis 3_1_12 (457424.5) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides fragilis 638R (862962.3) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides fragilis NCTC 9343 (272559.17) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides fragilis YCH46 (295405.11) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides intestinalis DSM 17393 (471870.8) 1 1 0 1 0 1 0 1 1 1 BHHHB 2 5 2 DonorBacteroides ovatus 3_8_47FAA (665954.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBacteroides ovatus ATCC 8483 (411476.11) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBacteroides ovatus SD CC 2a (702444.3) 1 1 0 1 1 1 0 1 1 1 BHBHB 3 5 3 DonorBacteroides ovatus SD CMC 3f (702443.3) 1 1 0 1 1 1 0 1 1 1 BHBHB 3 5 3 DonorBacteroides pectinophilus ATCC 43243 (483218.5) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Bacteroides plebeius DSM 17135 (484018.6) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides sp. 1_1_14 (469585.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBacteroides sp. 1_1_30 (457387.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBacteroides sp. 1_1_6 (469586.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBacteroides sp. 2_1_16 (469587.3) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides sp. 2_1_22 (469588.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBacteroides sp. 2_1_33B (469589.3) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorBacteroides sp. 2_1_56FAA (665938.3) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides sp. 2_1_7 (457388.5) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 Donor
Table S9.
Distribution of the catabolic pathways (CPs) and glycosyl hydrolases (GHs) for the splitting of mucing glycans and utilization of derived monosaccharides. Pattern demonstrates a presence of CPs and GHs in each genome, every letter corresponds to one monosaccharide, order is the same as in previous columns; x, both CPs and GHs are absent; P, only CP is present; H, only GH is present; B, both CPs and GHs are present. Donor, organism can be involved in monosaccharide exchange only as a donor; Acceptor, organism can be involved in monosaccharide exchange only as an acceptor; Mixed, organism is a donor for some monosaccharides but is an acceptor for the others.
Organism Catabolic pathways (CPs) and glycosyl hydrolases (GHs) for individual monosaccharides Numbers of catabolyzed and/or cleavable monosaccharidesFuc GalNAc GlcNAc Neu5Ac Gal Mode Pattern acteroides sp. 2_2_4 (469590.5) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBacteroides sp. 20_3 (469591.4) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorBacteroides sp. 3_1_19 (469592.4) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorBacteroides sp. 3_1_23 (457390.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBacteroides sp. 3_1_33FAA (457391.3) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorBacteroides sp. 3_1_40A (469593.3) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorBacteroides sp. 3_2_5 (457392.3) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides sp. 4_1_36 (457393.3) 1 1 0 1 0 1 0 0 1 1 BHHxB 2 4 2 DonorBacteroides sp. 4_3_47FAA (457394.3) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorBacteroides sp. 9_1_42FAA (457395.6) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorBacteroides sp. D1 (556258.5) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBacteroides sp. D2 (556259.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBacteroides sp. D20 (585543.3) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides sp. D22 (585544.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBacteroides sp. HPS0048 (1078089.3) 1 1 0 1 0 1 0 1 1 1 BHHHB 2 5 2 DonorBacteroides stercoris ATCC 43183 (449673.7) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorBacteroides thetaiotaomicron VPI-5482 (226186.12) 1 1 0 1 1 1 0 1 1 1 BHBHB 3 5 3 DonorBacteroides uniformis ATCC 8492 (411479.10) 1 1 0 1 0 1 1 1 1 1 BHHBB 3 5 3 DonorBacteroides vulgatus ATCC 8482 (435590.9) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorBacteroides vulgatus PC510 (702446.3) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorBacteroides xylanisolvens SD CC 1b (702447.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBacteroides xylanisolvens XB1A (657309.4) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBarnesiella intestinihominis YIT 11860 (742726.3) 0 1 0 1 0 1 0 1 1 1 BHHHH 0 5 0 DonorBifidobacterium adolescentis L2-32 (411481.5) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorBifidobacterium angulatum DSM 20098 = JCM 7096 (518635.7) 0 0 0 1 0 1 0 0 1 1 xHHxB 1 3 1 DonorBifidobacterium animalis subsp. lactis AD011 (442563.4) 0 0 0 1 0 1 0 0 1 1 xHHxB 1 3 1 DonorBifidobacterium bifidum NCIMB 41171 (398513.5) 0 0 0 1 1 1 0 1 1 1 xHBHB 2 4 2 DonorBifidobacterium breve DSM 20213 = JCM 1192 (518634.7) 1 0 0 1 1 1 1 1 1 1 PHBBB 4 4 3 MixedBifidobacterium breve HPH0326 (1203540.3) 1 0 0 1 1 1 1 1 1 1 PHBBB 4 4 3 MixedBifidobacterium catenulatum DSM 16992 = JCM 1194 (566552.6) 0 0 0 1 0 1 0 0 1 1 xHHxB 1 3 1 DonorBifidobacterium dentium ATCC 27678 (473819.7) 0 1 0 0 1 0 0 0 1 1 HxPxB 2 2 1 MixedBifidobacterium gallicum DSM 20093 (561180.4) 0 0 0 1 0 1 1 0 1 1 xHHPB 2 3 1 MixedBifidobacterium longum DJO10A (Prj:321) (205913.11) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorBifidobacterium longum NCC2705 (206672.9) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorBifidobacterium longum subsp. infantis 157F (565040.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorBifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222 (391904.8)1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorBifidobacterium longum subsp. infantis ATCC 55813 (548480.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorBifidobacterium longum subsp. infantis CCUG 52486 (537937.5) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorBifidobacterium longum subsp. longum 2-2B (1161745.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorBifidobacterium longum subsp. longum 44B (1161743.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorBifidobacterium longum subsp. longum F8 (722911.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorBifidobacterium longum subsp. longum JCM 1217 (565042.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorBifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 (547043.8)1 0 0 1 1 1 0 0 1 1 PHBxB 3 3 2 MixedBifidobacterium sp. 12_1_47BFAA (469594.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorBilophila wadsworthia 3_1_6 (563192.3) 0 0 0 1 0 1 0 0 0 0 xHHxx 0 2 0 DonorBlautia hansenii DSM 20583 (537007.6) 0 1 0 0 1 0 1 1 1 1 HxPBB 3 3 2 MixedBlautia hydrogenotrophica DSM 10507 (476272.5) 1 0 0 1 0 1 1 0 1 1 PHHPB 3 3 1 MixedBryantella formatexigens DSM 14469 (478749.5) 0 0 0 1 1 1 1 1 1 1 xHBBB 3 4 3 DonorBurkholderiales bacterium 1_1_47 (469610.4) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -butyrate-producing bacterium SM4/1 (245012.3) 0 0 0 1 0 1 0 0 0 1 xHHxH 0 3 0 Donorbutyrate-producing bacterium SS3/4 (245014.3) 0 0 0 0 0 0 0 0 1 0 xxxxP 1 0 0 Acceptorbutyrate-producing bacterium SSC/2 (245018.3) 0 0 0 1 1 1 0 0 1 0 xHBxP 2 2 1 MixedButyricicoccus pullicaecorum 1.2 (1203606.4) 0 0 1 1 1 1 0 0 1 1 xBBxB 3 3 3 -Butyrivibrio crossotus DSM 2876 (511680.4) 0 0 0 0 0 0 0 0 0 1 xxxxH 0 1 0 DonorButyrivibrio fibrisolvens 16/4 (657324.3) 0 0 0 1 0 1 0 0 1 1 xHHxB 1 3 1 Donorampylobacter coli JV20 (864566.3) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Campylobacter upsaliensis JV21 (888826.3) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Catenibacterium mitsuokai DSM 15897 (451640.5) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorCedecea davisae DSM 4568 (566551.4) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorCitrobacter freundii 4_7_47CFAA (742730.3) 1 0 0 0 1 1 1 0 1 1 PxxPB 3 1 1 AcceptorCitrobacter sp. 30_2 (469595.3) 1 0 1 1 1 1 1 0 1 1 PBBPB 5 3 3 AcceptorCitrobacter youngae ATCC 29220 (500640.5) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorClostridiales bacterium 1_7_47FAA (457421.5) 1 0 0 1 1 1 1 0 1 1 PHBPB 4 3 2 MixedClostridium asparagiforme DSM 15981 (518636.5) 0 0 0 1 1 1 1 0 1 1 xHBPB 3 3 2 MixedClostridium bartlettii DSM 16795 (445973.7) 0 0 0 1 0 1 0 0 0 0 xHHxx 0 2 0 DonorClostridium bolteae 90A5 (997893.5) 1 0 0 1 1 1 1 0 1 1 PHBPB 4 3 2 MixedClostridium bolteae ATCC BAA-613 (411902.9) 1 0 0 1 1 1 1 0 1 1 PHBPB 4 3 2 MixedClostridium celatum DSM 1785 (545697.3) 1 1 1 1 1 1 0 1 1 1 BBBHB 4 5 4 DonorClostridium cf. saccharolyticum K10 (717608.3) 0 0 0 1 1 1 1 0 1 1 xHBPB 3 3 2 MixedClostridium citroniae WAL-17108 (742733.3) 0 0 0 1 1 1 1 0 1 1 xHBPB 3 3 2 MixedClostridium clostridioforme 2_1_49FAA (742735.4) 1 0 0 1 1 1 1 0 1 1 PHBPB 4 3 2 MixedClostridium difficile CD196 (645462.3) 0 0 1 0 1 1 1 1 1 0 xPxBP 3 1 1 AcceptorClostridium difficile NAP07 (525258.3) 0 0 1 0 1 0 1 1 1 0 xPPBP 4 1 1 AcceptorClostridium difficile NAP08 (525259.3) 0 0 1 0 1 0 1 1 1 0 xPPBP 4 1 1 AcceptorClostridium hathewayi WAL-18680 (742737.3) 0 0 0 1 1 1 1 1 1 1 xHBBB 3 4 3 DonorClostridium hiranonis DSM 13275 (500633.7) 0 0 0 1 0 1 1 0 1 0 xHHPP 2 2 0 MixedClostridium hylemonae DSM 15053 (553973.6) 1 0 0 0 0 0 1 1 1 1 PxxBB 3 2 2 AcceptorClostridium leptum DSM 753 (428125.8) 1 1 0 1 0 1 0 0 1 1 BHHxB 2 4 2 DonorClostridium methylpentosum DSM 5476 (537013.3) 0 1 0 0 0 0 0 0 0 0 Hxxxx 0 1 0 DonorClostridium nexile DSM 1787 (500632.7) 0 1 0 1 1 1 0 1 1 1 HHBHB 2 5 2 DonorClostridium perfringens WAL-14572 (742739.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorClostridium ramosum DSM 1402 (445974.6) 0 0 0 1 1 1 0 1 1 1 xHBHB 2 4 2 DonorClostridium scindens ATCC 35704 (411468.9) 0 1 0 0 0 0 1 1 1 1 HxxBB 2 3 2 DonorClostridium sp. 7_2_43FAA (457396.3) 0 0 1 1 1 1 1 1 1 1 xBBBB 4 4 4 -Clostridium sp. 7_3_54FAA (665940.3) 0 0 0 1 0 1 1 0 1 1 xHHPB 2 3 1 MixedClostridium sp. D5 (556261.3) 1 1 0 0 1 0 1 0 1 1 BxPPB 4 2 2 AcceptorClostridium sp. HGF2 (908340.3) 0 0 0 0 0 0 0 0 0 1 xxxxH 0 1 0 DonorClostridium sp. L2-50 (411489.7) 0 0 0 1 0 1 0 0 0 1 xHHxH 0 3 0 DonorClostridium sp. M62/1 (411486.3) 0 0 0 1 1 1 1 0 1 1 xHBPB 3 3 2 MixedClostridium sp. SS2/1 (411484.7) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorClostridium spiroforme DSM 1552 (428126.7) 0 1 1 1 1 1 0 0 0 1 HBBxH 2 4 2 DonorClostridium sporogenes ATCC 15579 (471871.7) 0 0 0 0 1 1 0 1 0 0 xxxHx 0 1 0 DonorClostridium symbiosum WAL-14163 (742740.3) 0 0 0 1 0 1 1 0 1 1 xHHPB 2 3 1 MixedClostridium symbiosum WAL-14673 (742741.3) 0 0 0 1 0 1 1 0 1 1 xHHPB 2 3 1 MixedCollinsella aerofaciens ATCC 25986 (411903.6) 0 0 1 0 0 1 1 0 1 1 xPHPB 3 2 1 MixedCollinsella intestinalis DSM 13280 (521003.7) 0 0 1 1 0 1 1 1 0 0 xBHBx 2 3 2 DonorCollinsella stercoris DSM 13279 (445975.6) 0 1 1 1 1 1 0 0 1 1 HBBxB 3 4 3 DonorCollinsella tanakaei YIT 12063 (742742.3) 1 0 1 0 0 0 1 0 1 0 PPxPP 4 0 0 AcceptorCoprobacillus sp. 29_1 (469596.3) 0 0 0 1 1 1 0 1 1 1 xHBHB 2 4 2 DonorCoprobacillus sp. 3_3_56FAA (665941.3) 0 0 0 1 1 1 0 1 1 1 xHBHB 2 4 2 DonorCoprobacillus sp. 8_2_54BFAA (469597.4) 0 0 0 1 1 1 0 1 1 1 xHBHB 2 4 2 DonorCoprobacillus sp. D6 (556262.3) 0 0 0 1 1 1 0 1 1 1 xHBHB 2 4 2 DonorCoprococcus catus GD/7 (717962.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorCoprococcus comes ATCC 27758 (470146.3) 0 0 0 0 1 0 0 0 1 1 xxPxB 2 1 1 AcceptorCoprococcus eutactus ATCC 27759 (411474.6) 0 0 0 1 0 1 0 0 0 1 xHHxH 0 3 0 DonorCoprococcus sp. ART55/1 (751585.3) 0 0 0 1 0 1 0 0 0 1 xHHxH 0 3 0 DonorCoprococcus sp. HPP0048 (1078091.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorCoprococcus sp. HPP0074 (1078090.3) 1 1 0 1 1 1 0 1 1 1 BHBHB 3 5 3 DonorCorynebacterium ammoniagenes DSM 20306 (649754.3) 1 0 0 1 1 1 1 0 1 0 PHBPP 4 2 1 MixedCorynebacterium sp. HFH0082 (1078764.3) 0 0 0 0 0 0 0 0 1 0 xxxxP 1 0 0 Acceptorermabacter sp. HFH0086 (1203568.3) 0 0 0 0 1 0 1 1 1 1 xxPBB 3 2 2 AcceptorDesulfitobacterium hafniense DP7 (537010.4) 0 0 0 1 0 1 0 0 0 0 xHHxx 0 2 0 DonorDesulfovibrio piger ATCC 29098 (411464.8) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Desulfovibrio sp. 3_1_syn3 (457398.5) 0 0 0 1 0 1 0 0 0 0 xHHxx 0 2 0 DonorDorea formicigenerans 4_6_53AFAA (742765.5) 0 1 0 0 1 0 0 1 1 1 HxPHB 2 3 1 MixedDorea formicigenerans ATCC 27755 (411461.4) 0 0 0 1 1 1 1 1 1 1 xHBBB 3 4 3 DonorDorea longicatena DSM 13814 (411462.6) 0 0 0 0 0 0 1 0 1 1 xxxPB 2 1 1 AcceptorDysgonomonas gadei ATCC BAA-286 (742766.3) 1 1 0 1 0 1 0 0 1 1 BHHxB 2 4 2 DonorDysgonomonas mossii DSM 22836 (742767.3) 1 1 0 1 0 1 0 0 1 1 BHHxB 2 4 2 DonorEdwardsiella tarda ATCC 23685 (500638.3) 1 0 1 1 1 1 1 0 1 1 PBBPB 5 3 3 AcceptorEggerthella sp. 1_3_56FAA (665943.3) 0 0 0 0 0 0 1 0 0 0 xxxPx 1 0 0 AcceptorEggerthella sp. HGA1 (910311.3) 0 0 0 0 0 0 1 0 0 0 xxxPx 1 0 0 AcceptorEnterobacter cancerogenus ATCC 35316 (500639.8) 1 0 1 1 1 1 1 0 1 1 PBBPB 5 3 3 AcceptorEnterobacter cloacae subsp. cloacae NCTC 9394 (718254.4) 1 0 1 1 1 1 1 0 1 1 PBBPB 5 3 3 AcceptorEnterobacteriaceae bacterium 9_2_54FAA (469613.3) 1 0 0 1 1 1 1 0 1 1 PHBPB 4 3 2 MixedEnterococcus faecalis PC1.1 (702448.3) 0 0 0 0 1 1 0 0 1 1 xxxxB 1 1 1 -Enterococcus faecalis TX0104 (491074.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorEnterococcus faecalis TX1302 (749513.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorEnterococcus faecalis TX1322 (525278.3) 0 0 1 1 1 1 0 0 1 1 xBBxB 3 3 3 -Enterococcus faecalis TX1341 (749514.3) 0 0 1 1 1 1 0 0 1 1 xBBxB 3 3 3 -Enterococcus faecalis TX1342 (749515.3) 0 0 1 0 1 1 0 0 1 1 xPxxB 2 1 1 AcceptorEnterococcus faecalis TX1346 (749516.3) 0 0 1 1 1 1 0 0 1 1 xBBxB 3 3 3 -Enterococcus faecalis TX2134 (749518.3) 0 0 1 1 1 1 0 0 1 1 xBBxB 3 3 3 -Enterococcus faecalis TX2137 (749491.3) 0 0 1 1 1 1 0 0 1 1 xBBxB 3 3 3 -Enterococcus faecalis TX4244 (749494.3) 0 0 1 1 1 1 0 0 1 1 xBBxB 3 3 3 -Enterococcus faecium PC4.1 (791161.5) 0 0 0 0 1 1 0 0 1 1 xxxxB 1 1 1 -Enterococcus faecium TX1330 (525279.3) 0 0 0 0 1 1 0 0 1 1 xxxxB 1 1 1 -Enterococcus saccharolyticus 30_1 (742813.4) 0 1 0 1 0 1 0 0 1 1 HHHxB 1 4 1 DonorEnterococcus sp. 7L76 (657310.3) 0 0 1 0 1 1 0 0 1 1 xPxxB 2 1 1 AcceptorErysipelotrichaceae bacterium 2_2_44A (457422.3) 0 0 0 0 0 0 0 0 0 1 xxxxH 0 1 0 DonorErysipelotrichaceae bacterium 21_3 (658657.3) 0 0 0 0 0 0 0 0 0 1 xxxxH 0 1 0 DonorErysipelotrichaceae bacterium 3_1_53 (658659.3) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Erysipelotrichaceae bacterium 5_2_54FAA (552396.3) 0 0 0 1 1 1 0 0 0 0 xHBxx 1 2 1 DonorErysipelotrichaceae bacterium 6_1_45 (469614.3) 0 0 0 0 0 0 0 0 0 1 xxxxH 0 1 0 DonorEscherichia coli 4_1_47FAA (1127356.4) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli MS 107-1 (679207.4) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli MS 115-1 (749537.3) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEscherichia coli MS 116-1 (749538.3) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEscherichia coli MS 119-7 (679206.4) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli MS 124-1 (679205.4) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEscherichia coli MS 145-7 (679204.3) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli MS 146-1 (749540.3) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEscherichia coli MS 175-1 (749544.3) 0 0 1 0 0 1 0 0 1 1 xPHxB 2 2 1 MixedEscherichia coli MS 182-1 (749545.3) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli MS 185-1 (749546.3) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEscherichia coli MS 187-1 (749547.3) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEscherichia coli MS 196-1 (749548.3) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli MS 198-1 (749549.3) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli MS 200-1 (749550.3) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli MS 21-1 (749527.3) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli MS 45-1 (749528.3) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEscherichia coli MS 69-1 (749531.3) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli MS 78-1 (749532.3) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli MS 79-10 (796392.4) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli MS 84-1 (749533.3) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 Acceptorscherichia coli MS 85-1 (679202.3) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEscherichia coli O157:H7 str. Sakai (386585.9) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli SE11 (409438.11) 1 0 1 0 1 0 1 0 1 1 PPPPB 5 1 1 AcceptorEscherichia coli SE15 (431946.3) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEscherichia coli str. K-12 substr. MG1655 (511145.12) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEscherichia coli UTI89 (364106.8) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEscherichia sp. 1_1_43 (457400.3) 1 0 0 0 0 1 1 0 0 1 PxHPH 2 2 0 MixedEscherichia sp. 3_2_53FAA (469598.5) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEscherichia sp. 4_1_40B (457401.3) 1 0 1 0 1 1 1 0 1 1 PPxPB 4 1 1 AcceptorEubacterium biforme DSM 3989 (518637.5) 0 1 0 0 1 0 0 0 1 1 HxPxB 2 2 1 MixedEubacterium cylindroides T2-87 (717960.3) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Eubacterium dolichum DSM 3991 (428127.7) 0 0 0 1 0 1 0 0 0 1 xHHxH 0 3 0 DonorEubacterium hallii DSM 3353 (411469.3) 0 0 0 1 0 1 0 0 1 1 xHHxB 1 3 1 DonorEubacterium rectale DSM 17629 (657318.4) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorEubacterium rectale M104/1 (657317.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorEubacterium siraeum 70/3 (657319.3) 1 1 0 0 0 0 0 0 1 1 BxxxB 2 2 2 -Eubacterium siraeum DSM 15702 (428128.7) 1 1 0 1 0 1 0 0 1 1 BHHxB 2 4 2 DonorEubacterium siraeum V10Sc8a (717961.3) 1 1 0 1 0 1 0 0 1 1 BHHxB 2 4 2 DonorEubacterium sp. 3_1_31 (457402.3) 0 0 0 1 1 1 0 0 0 0 xHBxx 1 2 1 DonorEubacterium ventriosum ATCC 27560 (411463.4) 0 0 0 0 1 1 0 0 1 1 xxxxB 1 1 1 -Faecalibacterium cf. prausnitzii KLE1255 (748224.3) 0 0 0 0 0 0 1 0 1 1 xxxPB 2 1 1 AcceptorFaecalibacterium prausnitzii A2-165 (411483.3) 0 0 0 1 1 1 1 0 1 1 xHBPB 3 3 2 MixedFaecalibacterium prausnitzii L2-6 (718252.3) 0 0 1 0 0 0 1 0 1 1 xPxPB 3 1 1 AcceptorFaecalibacterium prausnitzii M21/2 (411485.10) 0 0 0 0 1 0 1 0 1 1 xxPPB 3 1 1 AcceptorFaecalibacterium prausnitzii SL3/3 (657322.3) 0 0 0 0 1 0 1 0 1 1 xxPPB 3 1 1 AcceptorFusobacterium gonidiaformans ATCC 25563 (469615.3) 0 0 0 0 1 0 1 0 1 0 xxPPP 3 0 0 AcceptorFusobacterium mortiferum ATCC 9817 (469616.3) 0 0 0 0 1 0 1 0 1 1 xxPPB 3 1 1 AcceptorFusobacterium necrophorum subsp. funduliforme 1_1_36S (742814.3) 0 0 0 0 1 0 1 0 1 0 xxPPP 3 0 0 AcceptorFusobacterium sp. 1_1_41FAA (469621.3) 0 0 0 0 1 0 1 0 1 0 xxPPP 3 0 0 AcceptorFusobacterium sp. 11_3_2 (457403.3) 0 0 0 0 1 0 1 0 1 0 xxPPP 3 0 0 AcceptorFusobacterium sp. 12_1B (457404.3) 0 0 0 0 1 0 1 0 1 0 xxPPP 3 0 0 AcceptorFusobacterium sp. 2_1_31 (469599.3) 0 0 0 0 1 0 0 0 1 0 xxPxP 2 0 0 AcceptorFusobacterium sp. 21_1A (469601.3) 0 0 0 0 1 0 0 0 1 0 xxPxP 2 0 0 AcceptorFusobacterium sp. 3_1_27 (469602.3) 0 0 0 0 1 0 1 0 1 0 xxPPP 3 0 0 AcceptorFusobacterium sp. 3_1_33 (469603.3) 0 0 0 0 1 0 0 0 1 0 xxPxP 2 0 0 AcceptorFusobacterium sp. 3_1_36A2 (469604.3) 0 0 0 0 1 0 1 0 1 0 xxPPP 3 0 0 AcceptorFusobacterium sp. 3_1_5R (469605.3) 0 0 0 0 1 0 1 0 1 0 xxPPP 3 0 0 AcceptorFusobacterium sp. 4_1_13 (469606.3) 0 0 0 0 1 0 1 0 1 0 xxPPP 3 0 0 AcceptorFusobacterium sp. 7_1 (457405.3) 0 0 0 0 1 0 0 0 1 0 xxPxP 2 0 0 AcceptorFusobacterium sp. D11 (556264.3) 0 0 0 0 1 0 1 0 1 0 xxPPP 3 0 0 AcceptorFusobacterium sp. D12 (556263.3) 0 0 0 0 1 0 1 0 1 0 xxPPP 3 0 0 AcceptorFusobacterium ulcerans ATCC 49185 (469617.3) 0 0 0 0 1 0 1 0 1 0 xxPPP 3 0 0 AcceptorFusobacterium varium ATCC 27725 (469618.3) 1 0 0 0 1 0 1 0 1 0 PxPPP 4 0 0 AcceptorGordonibacter pamelaeae 7-10-1-b (657308.3) 0 0 0 0 0 0 1 0 0 0 xxxPx 1 0 0 AcceptorHafnia alvei ATCC 51873 (1002364.3) 1 0 0 1 1 1 1 0 1 1 PHBPB 4 3 2 MixedHelicobacter bilis ATCC 43879 (613026.4) 0 0 0 0 0 1 0 0 0 0 xxHxx 0 1 0 DonorHelicobacter canadensis MIT 98-5491 (Prj:30719) (537970.9) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Helicobacter cinaedi ATCC BAA-847 (1206745.3) 0 0 0 0 0 1 0 0 0 0 xxHxx 0 1 0 DonorHelicobacter cinaedi CCUG 18818 (537971.5) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Helicobacter pullorum MIT 98-5489 (537972.5) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Helicobacter winghamensis ATCC BAA-430 (556267.4) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Holdemania filiformis DSM 12042 (545696.5) 1 1 0 1 1 1 0 0 1 1 BHBxB 3 4 3 DonorKlebsiella pneumoniae 1162281 (1037908.3) 1 0 0 0 1 1 0 0 1 1 PxxxB 2 1 1 AcceptorKlebsiella pneumoniae subsp. pneumoniae WGLW5 (1203547.3) 1 0 0 0 1 1 0 0 1 1 PxxxB 2 1 1 AcceptorKlebsiella sp. 1_1_55 (469608.3) 1 0 0 0 1 1 0 0 1 1 PxxxB 2 1 1 Acceptorlebsiella sp. 4_1_44FAA (665944.3) 1 0 0 0 1 1 0 0 1 1 PxxxB 2 1 1 AcceptorLachnospiraceae bacterium 1_1_57FAA (658081.3) 0 1 1 1 0 1 0 1 1 1 HBHHB 2 5 2 DonorLachnospiraceae bacterium 1_4_56FAA (658655.3) 1 1 0 1 1 1 0 0 1 1 BHBxB 3 4 3 DonorLachnospiraceae bacterium 2_1_46FAA (742723.3) 0 1 0 1 1 1 0 1 1 1 HHBHB 2 5 2 DonorLachnospiraceae bacterium 2_1_58FAA (658082.3) 1 1 0 1 1 1 0 0 1 1 BHBxB 3 4 3 DonorLachnospiraceae bacterium 3_1_46FAA (665950.3) 0 1 1 1 0 1 0 1 1 1 HBHHB 2 5 2 DonorLachnospiraceae bacterium 3_1_57FAA_CT1 (658086.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorLachnospiraceae bacterium 4_1_37FAA (552395.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorLachnospiraceae bacterium 5_1_57FAA (658085.3) 0 1 0 0 0 0 1 1 1 1 HxxBB 2 3 2 DonorLachnospiraceae bacterium 5_1_63FAA (658089.3) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorLachnospiraceae bacterium 6_1_63FAA (658083.3) 0 1 0 0 1 0 0 0 1 1 HxPxB 2 2 1 MixedLachnospiraceae bacterium 7_1_58FAA (658087.3) 0 0 0 0 0 0 1 1 0 1 xxxBH 1 2 1 DonorLachnospiraceae bacterium 8_1_57FAA (665951.3) 0 1 1 1 0 1 0 1 1 1 HBHHB 2 5 2 DonorLachnospiraceae bacterium 9_1_43BFAA (658088.3) 1 1 0 1 1 1 0 1 1 1 BHBHB 3 5 3 DonorLactobacillus acidophilus ATCC 4796 (525306.3) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Lactobacillus acidophilus NCFM (272621.13) 0 0 0 0 1 0 0 0 1 1 xxPxB 2 1 1 AcceptorLactobacillus amylolyticus DSM 11664 (585524.3) 0 0 0 1 1 1 0 0 1 0 xHBxP 2 2 1 MixedLactobacillus antri DSM 16041 (525309.3) 0 0 0 0 0 0 1 0 1 1 xxxPB 2 1 1 AcceptorLactobacillus brevis ATCC 367 (387344.15) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Lactobacillus brevis subsp. gravesensis ATCC 27305 (525310.3) 0 0 0 1 0 1 0 0 1 1 xHHxB 1 3 1 DonorLactobacillus buchneri ATCC 11577 (525318.3) 0 0 0 1 0 1 0 0 1 1 xHHxB 1 3 1 DonorLactobacillus casei ATCC 334 (321967.11) 0 1 0 1 0 1 0 0 1 1 HHHxB 1 4 1 DonorLactobacillus casei BL23 (543734.4) 0 1 1 1 0 1 0 0 1 1 HBHxB 2 4 2 DonorLactobacillus crispatus 125-2-CHN (575595.3) 0 0 0 0 1 0 0 0 1 1 xxPxB 2 1 1 AcceptorLactobacillus delbrueckii subsp. bulgaricus ATCC 11842 (390333.7) 0 0 0 0 0 0 0 0 0 1 xxxxH 0 1 0 DonorLactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365 (321956.7) 0 0 0 0 1 0 0 0 0 1 xxPxH 1 1 0 MixedLactobacillus fermentum ATCC 14931 (525325.3) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Lactobacillus fermentum IFO 3956 (334390.5) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Lactobacillus gasseri ATCC 33323 (324831.13) 0 0 1 0 0 1 0 0 1 1 xPHxB 2 2 1 MixedLactobacillus helveticus DPC 4571 (405566.6) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Lactobacillus helveticus DSM 20075 (585520.4) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Lactobacillus hilgardii ATCC 8290 (525327.3) 0 0 0 1 0 1 0 0 1 1 xHHxB 1 3 1 DonorLactobacillus johnsonii NCC 533 (257314.6) 0 0 1 0 0 1 0 0 1 1 xPHxB 2 2 1 MixedLactobacillus paracasei subsp. paracasei 8700:2 (537973.8) 0 1 1 1 0 1 0 0 1 1 HBHxB 2 4 2 DonorLactobacillus paracasei subsp. paracasei ATCC 25302 (525337.3) 0 1 1 1 0 1 0 0 1 1 HBHxB 2 4 2 DonorLactobacillus plantarum 16 (1327988.3) 0 0 0 0 1 0 1 0 1 1 xxPPB 3 1 1 AcceptorLactobacillus plantarum subsp. plantarum ATCC 14917 (525338.3) 0 0 0 0 1 0 0 0 1 1 xxPxB 2 1 1 AcceptorLactobacillus plantarum WCFS1 (220668.9) 0 0 0 0 1 0 1 0 1 1 xxPPB 3 1 1 AcceptorLactobacillus reuteri CF48-3A (525341.3) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Lactobacillus reuteri DSM 20016 (557436.4) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Lactobacillus reuteri F275 (299033.6) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Lactobacillus reuteri MM2-3 (585517.3) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Lactobacillus reuteri MM4-1A (548485.3) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Lactobacillus reuteri SD2112 (491077.3) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Lactobacillus rhamnosus ATCC 21052 (1002365.5) 0 1 1 0 0 1 0 0 1 1 HPHxB 2 3 1 MixedLactobacillus rhamnosus GG (Prj:40637) (568703.30) 1 1 1 1 0 1 0 0 1 1 BBHxB 3 4 3 DonorLactobacillus rhamnosus LMS2-1 (525361.3) 0 1 1 0 0 1 0 0 1 1 HPHxB 2 3 1 MixedLactobacillus ruminis ATCC 25644 (525362.3) 0 0 0 1 0 1 0 0 1 1 xHHxB 1 3 1 DonorLactobacillus sakei subsp. sakei 23K (314315.12) 0 0 0 0 1 0 1 0 1 1 xxPPB 3 1 1 AcceptorLactobacillus salivarius ATCC 11741 (525364.3) 0 0 0 1 0 1 1 0 1 1 xHHPB 2 3 1 MixedLactobacillus salivarius UCC118 (362948.14) 0 0 0 1 0 1 1 1 1 1 xHHBB 2 4 2 DonorLactobacillus sp. 7_1_47FAA (665945.3) 0 0 1 0 1 1 0 0 0 1 xPxxH 1 1 0 MixedLactobacillus ultunensis DSM 16047 (525365.3) 0 0 0 0 1 0 0 0 1 1 xxPxB 2 1 1 AcceptorLeuconostoc mesenteroides subsp. cremoris ATCC 19254 (586220.3) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Listeria grayi DSM 20601 (525367.9) 0 0 0 0 0 1 0 0 1 1 xxHxB 1 2 1 Donoristeria innocua ATCC 33091 (1002366.3) 0 0 0 0 1 1 0 0 0 0 xxxxx 0 0 0 -Megamonas funiformis YIT 11815 (742816.3) 1 0 0 1 1 1 1 0 1 1 PHBPB 4 3 2 MixedMegamonas hypermegale ART12/1 (657316.3) 1 0 0 1 1 1 1 0 1 1 PHBPB 4 3 2 MixedMethanobrevibacter smithii ATCC 35061 (420247.6) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Methanosphaera stadtmanae DSM 3091 (339860.6) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Mitsuokella multacida DSM 20544 (500635.8) 0 0 0 1 0 1 0 0 1 1 xHHxB 1 3 1 DonorMollicutes bacterium D7 (556270.3) 0 0 0 1 1 1 0 1 1 1 xHBHB 2 4 2 DonorOdoribacter laneus YIT 12061 (742817.3) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorOxalobacter formigenes HOxBLS (556268.6) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Oxalobacter formigenes OXCC13 (556269.4) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Paenibacillus sp. HGF5 (908341.3) 1 1 0 1 1 1 0 1 1 1 BHBHB 3 5 3 DonorPaenibacillus sp. HGF7 (944559.3) 1 1 0 1 1 1 0 0 1 1 BHBxB 3 4 3 DonorPaenibacillus sp. HGH0039 (1078505.3) 1 1 0 1 1 1 0 1 1 1 BHBHB 3 5 3 DonorParabacteroides distasonis ATCC 8503 (435591.13) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorParabacteroides johnsonii DSM 18315 (537006.5) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorParabacteroides merdae ATCC 43184 (411477.4) 0 1 0 1 0 1 0 1 1 1 HHHHB 1 5 1 DonorParabacteroides sp. D13 (563193.3) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorParabacteroides sp. D25 (658661.3) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorParaprevotella clara YIT 11840 (762968.3) 1 1 0 0 0 0 0 0 1 1 BxxxB 2 2 2 -Paraprevotella xylaniphila YIT 11841 (762982.3) 1 1 0 0 0 0 0 0 1 1 BxxxB 2 2 2 -Parvimonas micra ATCC 33270 (411465.10) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Pediococcus acidilactici 7_4 (563194.3) 1 1 1 0 0 1 1 0 1 1 BPHPB 4 3 2 MixedPediococcus acidilactici DSM 20284 (862514.3) 0 1 1 0 0 1 1 1 1 1 HPHBB 3 4 2 MixedPhascolarctobacterium sp. YIT 12067 (626939.3) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Prevotella copri DSM 18205 (537011.5) 0 0 0 1 0 1 0 0 1 1 xHHxB 1 3 1 DonorPrevotella oralis HGA0225 (1203550.3) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorPrevotella salivae DSM 15606 (888832.3) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorPropionibacterium sp. 5_U_42AFAA (450748.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorPropionibacterium sp. HGH0353 (1203571.3) 0 0 0 1 0 1 1 0 1 1 xHHPB 2 3 1 MixedProteus mirabilis WGLW6 (1125694.3) 0 0 1 0 1 0 1 0 1 0 xPPPP 4 0 0 AcceptorProteus penneri ATCC 35198 (471881.3) 0 0 1 0 1 0 1 0 1 0 xPPPP 4 0 0 AcceptorProvidencia alcalifaciens DSM 30120 (520999.6) 0 0 0 0 1 0 0 0 0 0 xxPxx 1 0 0 AcceptorProvidencia rettgeri DSM 1131 (521000.6) 0 0 1 1 1 1 1 0 1 0 xBBPP 4 2 2 AcceptorProvidencia rustigianii DSM 4541 (500637.6) 0 0 1 0 1 0 0 0 1 0 xPPxP 3 0 0 AcceptorProvidencia stuartii ATCC 25827 (471874.6) 0 0 1 1 1 1 0 0 1 0 xBBxP 3 2 2 AcceptorPseudomonas sp. 2_1_26 (665948.3) 0 0 0 0 1 1 0 0 0 0 xxxxx 0 0 0 -Ralstonia sp. 5_7_47FAA (658664.3) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Roseburia intestinalis L1-82 (536231.5) 0 1 0 1 1 1 0 0 1 1 HHBxB 2 4 2 DonorRoseburia intestinalis M50/1 (657315.3) 0 1 0 1 1 1 0 0 1 1 HHBxB 2 4 2 DonorRoseburia intestinalis XB6B4 (718255.3) 0 1 0 1 1 1 0 0 1 1 HHBxB 2 4 2 DonorRoseburia inulinivorans DSM 16841 (622312.4) 1 1 0 1 1 1 1 0 1 1 BHBPB 4 4 3 MixedRuminococcaceae bacterium D16 (552398.3) 0 0 0 1 0 1 1 0 1 1 xHHPB 2 3 1 MixedRuminococcus bromii L2-63 (657321.5) 0 0 0 1 0 1 0 0 1 0 xHHxP 1 2 0 MixedRuminococcus gnavus ATCC 29149 (411470.6) 1 1 0 0 1 0 1 1 1 1 BxPBB 4 3 3 AcceptorRuminococcus lactaris ATCC 29176 (471875.6) 0 1 0 1 1 1 0 1 1 1 HHBHB 2 5 2 DonorRuminococcus obeum A2-162 (657314.3) 1 0 0 0 1 0 0 0 1 1 PxPxB 3 1 1 AcceptorRuminococcus obeum ATCC 29174 (411459.7) 1 1 0 0 0 0 0 0 1 1 BxxxB 2 2 2 -Ruminococcus sp. 18P13 (213810.4) 0 0 0 0 0 1 0 0 0 1 xxHxH 0 2 0 DonorRuminococcus sp. 5_1_39BFAA (457412.4) 1 1 0 0 0 0 1 0 1 1 BxxPB 3 2 2 AcceptorRuminococcus sp. SR1/5 (657323.3) 1 1 0 0 1 0 0 0 1 1 BxPxB 3 2 2 AcceptorRuminococcus torques ATCC 27756 (411460.6) 0 1 1 1 0 1 0 1 1 1 HBHHB 2 5 2 DonorRuminococcus torques L2-14 (657313.3) 1 1 0 0 1 0 1 0 1 1 BxPPB 4 2 2 AcceptorSalmonella enterica subsp. enterica serovar Typhimurium str. LT2 (99287.12)1 0 0 0 1 1 1 1 1 1 PxxBB 3 2 2 AcceptorStaphylococcus sp. HGB0015 (1078083.3) 0 0 1 0 0 1 1 1 1 1 xPHBB 3 3 2 MixedStreptococcus anginosus 1_2_62CV (742820.3) 0 0 0 0 0 1 1 0 1 1 xxHPB 2 2 1 Mixedtreptococcus equinus ATCC 9812 (525379.3) 0 0 0 0 0 0 0 0 1 0 xxxxP 1 0 0 AcceptorStreptococcus infantarius subsp. infantarius ATCC BAA-102 (471872.6) 0 0 0 0 0 0 0 0 1 1 xxxxB 1 1 1 -Streptococcus sp. 2_1_36FAA (469609.3) 0 1 0 1 0 1 1 0 1 1 HHHPB 2 4 1 MixedStreptococcus sp. HPH0090 (1203590.3) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorStreptomyces sp. HGB0020 (1078086.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorStreptomyces sp. HPH0547 (1203592.3) 1 1 0 1 1 1 1 1 1 1 BHBBB 4 5 4 DonorSubdoligranulum sp. 4_3_54A2FAA (665956.3) 0 1 0 1 0 1 1 1 1 1 HHHBB 2 5 2 DonorSubdoligranulum variabile DSM 15176 (411471.5) 0 0 0 1 1 1 0 0 1 1 xHBxB 2 3 2 DonorSuccinatimonas hippei YIT 12066 (762983.3) 0 0 0 0 0 0 0 0 1 0 xxxxP 1 0 0 AcceptorSutterella wadsworthensis 3_1_45B (742821.3) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Sutterella wadsworthensis HGA0223 (1203554.3) 0 0 0 0 0 0 0 0 0 0 xxxxx 0 0 0 -Tannerella sp. 6_1_58FAA_CT1 (665949.3) 0 1 0 1 0 1 0 0 1 1 HHHxB 1 4 1 DonorTuricibacter sp. HGF1 (910310.3) 0 1 0 1 1 1 1 0 1 1 HHBPB 3 4 2 MixedTuricibacter sp. PC909 (702450.3) 0 1 0 1 1 1 1 0 1 1 HHBPB 3 4 2 MixedVeillonella sp. 3_1_44 (457416.3) 0 0 0 1 0 1 0 0 1 0 xHHxP 1 2 0 MixedVeillonella sp. 6_1_27 (450749.3) 0 0 0 1 0 1 0 0 1 0 xHHxP 1 2 0 MixedWeissella paramesenteroides ATCC 33313 (585506.3) 0 0 0 0 1 0 0 0 1 1 xxPxB 2 1 1 AcceptorYokenella regensburgei ATCC 43003 (1002368.3) 1 0 1 1 1 1 1 0 1 1 PBBPB 5 3 3 Acceptor able S11. Exchange by monosaccharides in the analysed HGM genomes. Only organisms involved in the exchange are shown. All the monosaccharides, able to be released by donor organism and consumed by acceptor organism, are listed in each cell.
Acceptor organism A b i o t r oph i a de f e c t i v a A T CC A c t i no m yc e s odon t o l y t i c u s A T CC A c t i no m yc e s s p . H PA A kk e r m an s i a m u c i n i ph il a A T CC BAA - A li s t i pe s i nd i s t i n c t u s Y I T A li s t i pe s s hah ii W A L A nae r o s t i pe s c a cc ae D S M A nae r o s t i pe s had r u s D S M A nae r o s t i pe s s p . F AA A nae r o t r un c u s c o li ho m i n i s D S M B a c ill u s s m i t h ii F AA B a c ill u s s p . C F AA _ C T B a c ill u s s ub t ili s s ub s p . s ub t ili s s t r . B a c t e r o i de s c a cc ae A T CC B a c t e r o i de s c ap ill o s u s A T CC B a c t e r o i de s c e ll u l o s il y t i c u s D S M B a c t e r o i de s c l a r u s Y I T B a c t e r o i de s c op r o c o l a D S M B a c t e r o i de s c op r oph il u s D S M B a c t e r o i de s do r e i D S M B a c t e r o i de s egge r t h ii F AA B a c t e r o i de s egge r t h ii D S M B a c t e r o i de s f i nego l d ii D S M B a c t e r o i de s f l u x u s Y I T B a c t e r o i de s f r ag ili s B a c t e r o i de s f r ag ili s R B a c t e r o i de s f r ag ili s NC T C B a c t e r o i de s f r ag ili s Y CH B a c t e r o i de s i n t e s t i na li s D S M B a c t e r o i de s o v a t u s F AA B a c t e r o i de s o v a t u s A T CC B a c t e r o i de s o v a t u s S D CC B a c t e r o i de s o v a t u s S D C M C f B a c t e r o i de s p l ebe i u s D S M B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . B B a c t e r o i de s s p . F AA B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . F AA B a c t e r o i de s s p . A B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . F AA B a c t e r o i de s s p . F AA B a c t e r o i de s s p . D B a c t e r o i de s s p . D B a c t e r o i de s s p . D B a c t e r o i de s s p . D B a c t e r o i de s s p . H PS B a c t e r o i de s s t e r c o r i s A T CC B a c t e r o i de s t he t a i o t ao m i c r on VP I - B a c t e r o i de s un i f o r m i s A T CC B a c t e r o i de s v u l ga t u s A T CC B a c t e r o i de s v u l ga t u s P C B a c t e r o i de s xy l an i s o l v en s S D CC B a c t e r o i de s xy l an i s o l v en s XB A B a r ne s i e ll a i n t e s t i n i ho m i n i s Y I T B i f i doba c t e r i u m ado l e sc en t i s L2 - B i f i doba c t e r i u m angu l a t u m D S M = J C M B i f i doba c t e r i u m an i m a li s s ub s p . l a c t i s A D B i f i doba c t e r i u m b i f i du m NC I M B B i f i doba c t e r i u m b r e v e D S M = J C M B i f i doba c t e r i u m b r e v e H P H B i f i doba c t e r i u m c a t enu l a t u m D S M = J C M B i f i doba c t e r i u m den t i u m A T CC B i f i doba c t e r i u m ga lli c u m D S M B i f i doba c t e r i u m l ongu m D J O A B i f i doba c t e r i u m l ongu m NCC B i f i doba c t e r i u m l ongu m s ub s p . i n f an t i s F B i f i doba c t e r i u m l ongu m s ub s p . i n f an t i s A T CC = J C M B i f i doba c t e r i u m l ongu m s ub s p . i n f an t i s A T CC B i f i doba c t e r i u m l ongu m s ub s p . i n f an t i s CCU G B i f i doba c t e r i u m l ongu m s ub s p . l ongu m - B B i f i doba c t e r i u m l ongu m s ub s p . l ongu m B B i f i doba c t e r i u m l ongu m s ub s p . l ongu m F B i f i doba c t e r i u m l ongu m s ub s p . l ongu m J C M B i f i doba c t e r i u m p s eudo c a t enu l a t u m D S M = J C M B i f i doba c t e r i u m s p . B F AA B il oph il a w ad s w o r t h i a B l au t i a han s en ii D S M B l au t i a h y d r ogeno t r oph i c a D S M B r y an t e ll a f o r m a t e x i gen s D S M t y r a t e - p r odu c i ng ba c t e r i u m S M / t y r a t e - p r odu c i ng ba c t e r i u m SS / t y r a t e - p r odu c i ng ba c t e r i u m SS C / B u t y r i v i b r i o c r o ss o t u s D S M B u t y r i v i b r i o f i b r i s o l v en s / C a t en i ba c t e r i u m m i t s uo k a i D S M C ede c ea da v i s ae D S M C i t r oba c t e r f r eund ii C F AA C i t r oba c t e r s p . C i t r oba c t e r y oungae A T CC C l o s t r i d i a l e s ba c t e r i u m F AA C l o s t r i d i u m a s pa r ag i f o r m e D S M C l o s t r i d i u m ba r t l e tt ii D S M C l o s t r i d i u m bo l t eae A C l o s t r i d i u m bo l t eae A T CC BAA - C l o s t r i d i u m c e l a t u m D S M C l o s t r i d i u m c f. s a cc ha r o l y t i c u m K C l o s t r i d i u m c i t r on i ae W A L - C l o s t r i d i u m c l o s t r i d i o f o r m e F AA C l o s t r i d i u m d i ff i c il e CD C l o s t r i d i u m d i ff i c il e N AP C l o s t r i d i u m d i ff i c il e N AP C l o s t r i d i u m ha t he w a y i W A L - C l o s t r i d i u m h i r anon i s D S M C l o s t r i d i u m h y l e m onae D S M C l o s t r i d i u m l ep t u m D S M C l o s t r i d i u m m e t h y l pen t o s u m D S M C l o s t r i d i u m ne x il e D S M C l o s t r i d i u m pe r f r i ngen s W A L - C l o s t r i d i u m r a m o s u m D S M C l o s t r i d i u m sc i nden s A T CC C l o s t r i d i u m s p . F AA C l o s t r i d i u m s p . D C l o s t r i d i u m s p . H G F C l o s t r i d i u m s p . L2 - C l o s t r i d i u m s p . M / C l o s t r i d i u m s p . SS / C l o s t r i d i u m s p i r o f o r m e D S M C l o s t r i d i u m s po r ogene s A T CC C l o s t r i d i u m sy m b i o s u m W A L - C l o s t r i d i u m sy m b i o s u m W A L - C o lli n s e ll a ae r o f a c i en s A T CC C o lli n s e ll a i n t e s t i na li s D S M C o lli n s e ll a s t e r c o r i s D S M C o lli n s e ll a t ana k ae i Y I T C op r oba c ill u s s p . C op r oba c ill u s s p . F AA C op r oba c ill u s s p . B F AA C op r oba c ill u s s p . D C op r o c o cc u s c a t u s G D / C op r o c o cc u s c o m e s A T CC C op r o c o cc u s eu t a c t u s A T CC C op r o c o cc u s s p . A R T / C op r o c o cc u s s p . H PP C op r o c o cc u s s p . H PP C o r y neba c t e r i u m a mm on i agene s D S M C o r y neba c t e r i u m s p . H F H D e r m aba c t e r s p . H F H D e s u l f i t oba c t e r i u m ha f n i en s e D P D e s u l f o v i b r i o s p . sy n3 D o r ea f o r m i c i gene r an s A F AA D o r ea f o r m i c i gene r an s A T CC D o r ea l ong i c a t ena D S M D ys gono m ona s gade i A T CC BAA - D ys gono m ona s m o ss ii D S M E d w a r d s i e ll a t a r da A T CC E gge r t he ll a s p . F AA E gge r t he ll a s p . H G A E n t e r oba c t e r c an c e r ogenu s A T CC E n t e r oba c t e r c l oa c ae s ub s p . c l oa c ae NC T C E n t e r oba c t e r i a c eae ba c t e r i u m F AA E n t e r o c o cc u s f ae c a li s T X E n t e r o c o cc u s f ae c a li s T X E n t e r o c o cc u s f ae c a li s T X E n t e r o c o cc u s s a cc ha r o l y t i c u s E n t e r o c o cc u s s p . E r ys i pe l o t r i c ha c eae ba c t e r i u m A E r ys i pe l o t r i c ha c eae ba c t e r i u m E r ys i pe l o t r i c ha c eae ba c t e r i u m F AA E r ys i pe l o t r i c ha c eae ba c t e r i u m E sc he r i c h i a c o li F AA E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li O : H s t r . S a k a i E sc he r i c h i a c o li SE E sc he r i c h i a c o li SE E sc he r i c h i a c o li s t r . K - s ub s t r . M G E sc he r i c h i a c o li U T I E sc he r i c h i a s p . E sc he r i c h i a s p . F AA E sc he r i c h i a s p . B E uba c t e r i u m b i f o r m e D S M E uba c t e r i u m do li c hu m D S M E uba c t e r i u m ha llii D S M E uba c t e r i u m r e c t a l e D S M E uba c t e r i u m r e c t a l e M / E uba c t e r i u m s i r aeu m D S M E uba c t e r i u m s i r aeu m V S c E uba c t e r i u m s p . F ae c a li ba c t e r i u m c f. p r au s n i t z ii K L E F ae c a li ba c t e r i u m p r au s n i t z ii A - F ae c a li ba c t e r i u m p r au s n i t z ii L2 - F ae c a li ba c t e r i u m p r au s n i t z ii M / F ae c a li ba c t e r i u m p r au s n i t z ii S L3 / F u s oba c t e r i u m gon i d i a f o r m an s A T CC F u s oba c t e r i u m m o r t i f e r u m A T CC F u s oba c t e r i u m ne c r opho r u m s ub s p . f undu li f o r m e S F u s oba c t e r i u m s p . F AA F u s oba c t e r i u m s p . F u s oba c t e r i u m s p . B F u s oba c t e r i u m s p . F u s oba c t e r i u m s p . A F u s oba c t e r i u m s p . F u s oba c t e r i u m s p . F u s oba c t e r i u m s p . A F u s oba c t e r i u m s p . R F u s oba c t e r i u m s p . F u s oba c t e r i u m s p . F u s oba c t e r i u m s p . D F u s oba c t e r i u m s p . D F u s oba c t e r i u m u l c e r an s A T CC F u s oba c t e r i u m v a r i u m A T CC G o r don i ba c t e r pa m e l aeae - - - b H a f n i a a l v e i A T CC H e li c oba c t e r b ili s A T CC H e li c oba c t e r c i naed i A T CC BAA - H o l de m an i a f ili f o r m i s D S M K l eb s i e ll a pneu m on i ae K l eb s i e ll a pneu m on i ae s ub s p . pneu m on i ae W G L W K l eb s i e ll a s p . K l eb s i e ll a s p . F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA _ C T c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m B F AA La c t oba c ill u s a c i doph il u s NC F M La c t oba c ill u s a m y l o l y t i c u s D S M c t oba c ill u s an t r i D S M c t oba c ill u s b r e v i s s ub s p . g r a v e s en s i s A T CC c t oba c ill u s bu c hne r i A T CC c t oba c ill u s c a s e i A T CC
334 La c t oba c ill u s c a s e i B L23 La c t oba c ill u s c r i s pa t u s - - CHN La c t oba c ill u s de l b r ue ck ii s ub s p . bu l ga r i c u s A T CC c t oba c ill u s de l b r ue ck ii s ub s p . bu l ga r i c u s A T CC BAA -
365 La c t oba c ill u s ga ss e r i A T CC c t oba c ill u s h il ga r d ii A T CC c t oba c ill u s j ohn s on ii NCC
533 La c t oba c ill u s pa r a c a s e i s ub s p . pa r a c a s e i : c t oba c ill u s pa r a c a s e i s ub s p . pa r a c a s e i A T CC c t oba c ill u s p l an t a r u m
16 La c t oba c ill u s p l an t a r u m s ub s p . p l an t a r u m A T CC c t oba c ill u s p l an t a r u m W C F S c t oba c ill u s r ha m no s u s A T CC c t oba c ill u s r ha m no s u s GG La c t oba c ill u s r ha m no s u s L M S - c t oba c ill u s r u m i n i s A T CC c t oba c ill u s s a k e i s ub s p . s a k e i K La c t oba c ill u s s a li v a r i u s A T CC c t oba c ill u s s a li v a r i u s UCC
118 La c t oba c ill u s s p . F AA La c t oba c ill u s u l t unen s i s D S M i s t e r i a g r a y i D S M M ega m ona s f un i f o r m i s Y I T M ega m ona s h y pe r m ega l e A R T / M i t s uo k e ll a m u l t a c i da D S M M o lli c u t e s ba c t e r i u m D O do r i ba c t e r l aneu s Y I T P aen i ba c ill u s s p . H G F P aen i ba c ill u s s p . H G F P aen i ba c ill u s s p . H G H P a r aba c t e r o i de s d i s t a s on i s A T CC P a r aba c t e r o i de s j ohn s on ii D S M P a r aba c t e r o i de s m e r dae A T CC P a r aba c t e r o i de s s p . D P a r aba c t e r o i de s s p . D P ed i o c o cc u s a c i d il a c t i c i P ed i o c o cc u s a c i d il a c t i c i D S M P r e v o t e ll a c op r i D S M P r e v o t e ll a o r a li s H G A P r e v o t e ll a s a li v ae D S M P r op i on i ba c t e r i u m s p . U _42 A F AA P r op i on i ba c t e r i u m s p . H G H P r o t eu s m i r ab ili s W G L W P r o t eu s penne r i A T CC P r o v i den c i a a l c a li f a c i en s D S M P r o v i den c i a r e tt ge r i D S M P r o v i den c i a r u s t i g i an ii D S M P r o v i den c i a s t ua r t ii A T CC R o s ebu r i a i n t e s t i na li s L1 - R o s ebu r i a i n t e s t i na li s M / R o s ebu r i a i n t e s t i na li s XB B R o s ebu r i a i nu li n i v o r an s D S M R u m i no c o cc a c eae ba c t e r i u m D R u m i no c o cc u s b r o m ii L2 - R u m i no c o cc u s gna v u s A T CC R u m i no c o cc u s l a c t a r i s A T CC R u m i no c o cc u s obeu m A - R u m i no c o cc u s s p . P R u m i no c o cc u s s p . B F AA R u m i no c o cc u s s p . S R / R u m i no c o cc u s t o r que s A T CC R u m i no c o cc u s t o r que s L2 - S a l m one ll a en t e r i c a s ub s p . en t e r i c a s e r o v a r T y ph i m u r i u m s t r . L T S t aph y l o c o cc u s s p . H G B S t r ep t o c o cc u s ang i no s u s C V S t r ep t o c o cc u s equ i nu s A T CC S t r ep t o c o cc u s s p . F AA S t r ep t o c o cc u s s p . H P H S t r ep t o m yc e s s p . H G B S t r ep t o m yc e s s p . H P H S ubdo li g r anu l u m s p . A F AA S ubdo li g r anu l u m v a r i ab il e D S M S u cc i na t i m ona s h i ppe i Y I T T anne r e ll a s p . F AA _ C T T u r i c i ba c t e r s p . H G F T u r i c i ba c t e r s p . P C V e ill one ll a s p . V e ill one ll a s p . W e i ss e ll a pa r a m e s en t e r o i de s A T CC Y o k ene ll a r egen s bu r ge i A T CC Abiotrophia defectiva ATCC 49176
Donor organism achnospiraceae bacterium 5_1_63FAA u c - a l ph a1 , - G a l Fu c - a l ph a1 , - G l c NA c G a l - a l ph a1 , - G a l G a l - b e t a1 , - G a l NA c G a l - b e t a1 , - G l c NA c G a l - b e t a1 , - G l c NA c G a l NA c - a l ph a1 , - G a l G a l NA c - a l ph a1 , - G a l G l c NA c - a l ph a1 , - G a l G l c NA c - b e t a1 , - G a l G l c NA c - b e t a1 , - G a l NA c G l c NA c - b e t a1 , - G a l G l c NA c - b e t a1 , - G a l NA c N e u A c - a l ph a2 , - G a l N e u A c - a l ph a2 , - G a l N e u A c - a l ph a2 , - G a l NA c Bonds Mucin No No of genomes Specific groups Table S12.
Properties of known mucin glycans found in human intestine. Numbers of glycan structures in agreement with the Supplementary Figure S9. Bonds found in glycan structures: "+", presence of this type of bond; "-", absence of this type of bond. Specific features of the glycan structures: aGal, contain alpha-bound galactose; aGalNAc, contain alpha-bound N-acetylgalactosamine; aGlcNAc, contain alpha-bound N-acetylglucosamine; lpha-N-acetylgalactosaminidases Alpha-galactosidases Alpha-L-fucosidases Alpha-N-acetylglucosaminidase Beta-galactosidases Beta-hexosaminidases Sialidases Number Glycans Abiotrophia defectiva ATCC 49176 (592010.4) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Acidaminococcus sp. D21 (563191.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Acidaminococcus sp. HPA0509 (1203555.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Acinetobacter junii SH205 (575587.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Actinomyces odontolyticus ATCC 17982 (411466.7) 0 1 1 0 0 0 1 1 1 Only Syalyl-Tn-antigen can be hydrolyzed.Actinomyces sp. HPA0247 (1203556.3) 0 0 1 0 1 1 1 34 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 32, 33, 39, 40, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55 Glycans with alpha-Gal, alpha-GalNAc, or alpha-GlcNAc cannot be hydrolyzed.Akkermansia muciniphila ATCC BAA-835 (349741.6) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Alistipes indistinctus YIT 12060 (742725.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Alistipes shahii WAL 8301 (717959.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Anaerobaculum hydrogeniformans ATCC BAA-1850 (592015.5) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Anaerococcus hydrogenalis DSM 7454 (561177.4) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Anaerofustis stercorihominis DSM 17244 (445971.6) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Anaerostipes caccae DSM 14662 (411490.6) 0 1 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Anaerostipes hadrus DSM 3319 (649757.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Anaerostipes sp. 3_2_56FAA (665937.3) 0 1 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Anaerotruncus colihominis DSM 17241 (445972.6) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Bacillus smithii 7_3_47FAA (665952.3) 0 1 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Bacillus sp. 7_6_55CFAA_CT2 (665957.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Bacillus subtilis subsp. subtilis str. 168 (224308.113) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bacteroides caccae ATCC 43185 (411901.7) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides capillosus ATCC 29799 (411467.6) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bacteroides cellulosilyticus DSM 14838 (537012.5) 0 1 1 1 1 1 0 28 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 55, 56 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Bacteroides clarus YIT 12056 (762984.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Bacteroides coprocola DSM 17136 (470145.6) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Bacteroides coprophilus DSM 18228 (547042.5) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides dorei DSM 17855 (483217.6) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides eggerthii 1_2_48FAA (665953.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Bacteroides eggerthii DSM 20697 (483216.6) 0 0 1 0 1 1 0 21 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 32, 33, 39, 40, 43, 44, 45, 46, 55 Only (fucosylated) ploylactosamine structures can be hydrolyzed.Bacteroides finegoldii DSM 17565 (483215.6) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides fluxus YIT 12057 (763034.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.
Organism (PubSEED ID) Glycosyl Hydrolases CommentsTable S13.
Repertoire of GHs and hydrolysed mucin glycans in the analysed HGM genomes. Numbers of glycan structures correspond to that in Supplementary Figure S9.
Hydrolyzed glycans acteroides fragilis 3_1_12 (457424.5) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides fragilis 638R (862962.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides fragilis NCTC 9343 (272559.17) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides fragilis YCH46 (295405.11) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides intestinalis DSM 17393 (471870.8) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides ovatus 3_8_47FAA (665954.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides ovatus ATCC 8483 (411476.11) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides ovatus SD CC 2a (702444.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides ovatus SD CMC 3f (702443.3) 1 1 1 1 1 1 1 56 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 All glycans can be hydrolyzed.Bacteroides pectinophilus ATCC 43243 (483218.5) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Bacteroides plebeius DSM 17135 (484018.6) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. 1_1_14 (469585.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. 1_1_30 (457387.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. 1_1_6 (469586.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. 2_1_16 (469587.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. 2_1_22 (469588.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. 2_1_33B (469589.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Bacteroides sp. 2_1_56FAA (665938.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. 2_1_7 (457388.5) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.acteroides sp. 2_2_4 (469590.5) 1 1 1 1 1 1 1 56 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 All glycans can be hydrolyzed.Bacteroides sp. 20_3 (469591.4) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Bacteroides sp. 3_1_19 (469592.4) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Bacteroides sp. 3_1_23 (457390.3) 1 1 1 1 1 1 1 56 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 All glycans can be hydrolyzed.Bacteroides sp. 3_1_33FAA (457391.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. 3_1_40A (469593.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. 3_2_5 (457392.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. 4_1_36 (457393.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Bacteroides sp. 4_3_47FAA (457394.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. 9_1_42FAA (457395.6) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. D1 (556258.5) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. D2 (556259.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. D20 (585543.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Bacteroides sp. D22 (585544.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides sp. HPS0048 (1078089.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides stercoris ATCC 43183 (449673.7) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Bacteroides thetaiotaomicron VPI-5482 (226186.12) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides uniformis ATCC 8492 (411479.10) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Bacteroides vulgatus ATCC 8482 (435590.9) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides vulgatus PC510 (702446.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.acteroides xylanisolvens SD CC 1b (702447.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bacteroides xylanisolvens XB1A (657309.4) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Barnesiella intestinihominis YIT 11860 (742726.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Bifidobacterium adolescentis L2-32 (411481.5) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium angulatum DSM 20098 = JCM 7096 (518635.7) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium animalis subsp. lactis AD011 (442563.4) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium bifidum NCIMB 41171 (398513.5) 0 1 0 1 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Bifidobacterium breve DSM 20213 = JCM 1192 (518634.7) 0 1 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Bifidobacterium breve HPH0326 (1203540.3) 0 1 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Bifidobacterium catenulatum DSM 16992 = JCM 1194 (566552.6) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium dentium ATCC 27678 (473819.7) 0 1 1 0 1 0 0 2 22, 43 Only (fucosylated) Core 1 structure can be Bifidobacterium gallicum DSM 20093 (561180.4) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium longum DJO10A (Prj:321) (205913.11) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium longum NCC2705 (206672.9) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium longum subsp. infantis 157F (565040.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222 (391904.8)0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Bifidobacterium longum subsp. infantis ATCC 55813 (548480.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium longum subsp. infantis CCUG 52486 (537937.5) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium longum subsp. longum 2-2B (1161745.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium longum subsp. longum 44B (1161743.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium longum subsp. longum F8 (722911.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium longum subsp. longum JCM 1217 (565042.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 (547043.8)0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bifidobacterium sp. 12_1_47BFAA (469594.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bilophila wadsworthia 3_1_6 (563192.3) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Blautia hansenii DSM 20583 (537007.6) 0 1 1 0 1 0 1 6 1, 22, 43, 48, 49, 50, 52 Only Syalyl-Tn-antigen and (fucosylated or syalated) Core 3 structure can be hydrolyzed.Blautia hydrogenotrophica DSM 10507 (476272.5) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Bryantella formatexigens DSM 14469 (478749.5) 0 1 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Burkholderiales bacterium 1_1_47 (469610.4) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.butyrate-producing bacterium SM4/1 (245012.3) 0 1 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.butyrate-producing bacterium SS3/4 (245014.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.butyrate-producing bacterium SSC/2 (245018.3) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Butyricicoccus pullicaecorum 1.2 (1203606.4) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Butyrivibrio crossotus DSM 2876 (511680.4) 0 0 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Butyrivibrio fibrisolvens 16/4 (657324.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Campylobacter coli JV20 (864566.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Campylobacter upsaliensis JV21 (888826.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Catenibacterium mitsuokai DSM 15897 (451640.5) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Cedecea davisae DSM 4568 (566551.4) 1 1 0 0 0 0 0 0 - No glycans are hydrolyzed.Citrobacter freundii 4_7_47CFAA (742730.3) 0 1 0 1 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Citrobacter sp. 30_2 (469595.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Citrobacter youngae ATCC 29220 (500640.5) 0 1 0 1 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Clostridiales bacterium 1_7_47FAA (457421.5) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Clostridium asparagiforme DSM 15981 (518636.5) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Clostridium bartlettii DSM 16795 (445973.7) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Clostridium bolteae 90A5 (997893.5) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Clostridium bolteae ATCC BAA-613 (411902.9) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Clostridium celatum DSM 1785 (545697.3) 1 0 1 1 1 1 1 50 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 32, 33, 37, 38, 39, 40, 41, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55 Glycans with alpha-Gal cannot be hydrolyzed.Clostridium cf. saccharolyticum K10 (717608.3) 0 1 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Clostridium citroniae WAL-17108 (742733.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Clostridium clostridioforme 2_1_49FAA (742735.4) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Clostridium difficile CD196 (645462.3) 0 0 0 0 0 0 1 1 1 Only Syalyl-Tn-antigen can be hydrolyzed.Clostridium difficile NAP07 (525258.3) 0 0 0 0 0 0 1 1 1 Only Syalyl-Tn-antigen can be hydrolyzed.Clostridium difficile NAP08 (525259.3) 0 0 0 0 0 0 1 1 1 Only Syalyl-Tn-antigen can be hydrolyzed.Clostridium hathewayi WAL-18680 (742737.3) 0 1 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Clostridium hiranonis DSM 13275 (500633.7) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.lostridium hylemonae DSM 15053 (553973.6) 0 1 0 0 1 0 1 5 1, 43, 48, 49, 52 Only (syalated) Core 3 structure can be hydrolyzed.Clostridium leptum DSM 753 (428125.8) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Clostridium methylpentosum DSM 5476 (537013.3) 0 0 1 0 0 0 0 0 - No glycans are hydrolyzed.Clostridium nexile DSM 1787 (500632.7) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Clostridium perfringens WAL-14572 (742739.3) 1 1 1 1 1 1 1 56 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 All glycans can be hydrolyzed.Clostridium ramosum DSM 1402 (445974.6) 0 1 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Clostridium scindens ATCC 35704 (411468.9) 0 0 1 0 1 0 1 6 1, 22, 43, 48, 49, 50, 52 Only Syalyl-Tn-antigen and (fucosylated or syalated) Core 3 structure can be hydrolyzed.Clostridium sp. 7_2_43FAA (457396.3) 0 1 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Clostridium sp. 7_3_54FAA (665940.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Clostridium sp. D5 (556261.3) 0 1 1 0 1 0 0 2 22, 43 Only (fucosylated) Core 1 structure can be Clostridium sp. HGF2 (908340.3) 0 1 0 0 0 0 0 0 - No glycans are hydrolyzed.Clostridium sp. L2-50 (411489.7) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Clostridium sp. M62/1 (411486.3) 0 1 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Clostridium sp. SS2/1 (411484.7) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Clostridium spiroforme DSM 1552 (428126.7) 1 0 1 1 1 1 0 33 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 32, 33, 37, 38, 39, 40, 41, 43, 44, 45, 46, 47, 55 Glycans with alpha-Gal as well syalated glycans cannot be hydrolyzed.Clostridium sporogenes ATCC 15579 (471871.7) 0 0 0 0 0 0 1 1 1 Only Syalyl-Tn-antigen can be hydrolyzed.Clostridium symbiosum WAL-14163 (742740.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Clostridium symbiosum WAL-14673 (742741.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Collinsella aerofaciens ATCC 25986 (411903.6) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Collinsella intestinalis DSM 13280 (521003.7) 0 0 0 0 0 1 1 3 1, 2, 11 Only Syalyl-Tn-antigen and (syalated) Core 3 structure can be hydrolyzed.Collinsella stercoris DSM 13279 (445975.6) 1 0 1 1 1 1 0 33 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 32, 33, 37, 38, 39, 40, 41, 43, 44, 45, 46, 47, 55 Glycans with alpha-Gal as well syalated glycans cannot be hydrolyzed.Collinsella tanakaei YIT 12063 (742742.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Coprobacillus sp. 29_1 (469596.3) 0 0 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Coprobacillus sp. 3_3_56FAA (665941.3) 0 1 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Coprobacillus sp. 8_2_54BFAA (469597.4) 0 1 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Coprobacillus sp. D6 (556262.3) 0 0 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Coprococcus catus GD/7 (717962.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Coprococcus comes ATCC 27758 (470146.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Coprococcus eutactus ATCC 27759 (411474.6) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Coprococcus sp. ART55/1 (751585.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Coprococcus sp. HPP0048 (1078091.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Coprococcus sp. HPP0074 (1078090.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Corynebacterium ammoniagenes DSM 20306 (649754.3) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Corynebacterium sp. HFH0082 (1078764.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Dermabacter sp. HFH0086 (1203568.3) 0 1 0 0 0 0 1 1 1 Only Syalyl-Tn-antigen can be hydrolyzed.Desulfitobacterium hafniense DP7 (537010.4) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Desulfovibrio piger ATCC 29098 (411464.8) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Desulfovibrio sp. 3_1_syn3 (457398.5) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Dorea formicigenerans 4_6_53AFAA (742765.5) 0 0 1 0 1 0 1 6 1, 22, 43, 48, 49, 50, 52 Only Syalyl-Tn-antigen and (fucosylated or syalated) Core 3 structure can be hydrolyzed.Dorea formicigenerans ATCC 27755 (411461.4) 0 0 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Dorea longicatena DSM 13814 (411462.6) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Dysgonomonas gadei ATCC BAA-286 (742766.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Dysgonomonas mossii DSM 22836 (742767.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Edwardsiella tarda ATCC 23685 (500638.3) 0 1 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Eggerthella sp. 1_3_56FAA (665943.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Eggerthella sp. HGA1 (910311.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.nterobacter cancerogenus ATCC 35316 (500639.8) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Enterobacter cloacae subsp. cloacae NCTC 9394 (718254.4) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Enterobacteriaceae bacterium 9_2_54FAA (469613.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Enterococcus faecalis PC1.1 (702448.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Enterococcus faecalis TX0104 (491074.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Enterococcus faecalis TX1302 (749513.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Enterococcus faecalis TX1322 (525278.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Enterococcus faecalis TX1341 (749514.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Enterococcus faecalis TX1342 (749515.3) 0 0 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Enterococcus faecalis TX1346 (749516.3) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Enterococcus faecalis TX2134 (749518.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Enterococcus faecalis TX2137 (749491.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Enterococcus faecalis TX4244 (749494.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Enterococcus faecium PC4.1 (791161.5) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Enterococcus faecium TX1330 (525279.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Enterococcus saccharolyticus 30_1 (742813.4) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Enterococcus sp. 7L76 (657310.3) 0 0 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Erysipelotrichaceae bacterium 2_2_44A (457422.3) 0 1 0 0 0 0 0 0 - No glycans are hydrolyzed.Erysipelotrichaceae bacterium 21_3 (658657.3) 0 1 0 0 0 0 0 0 - No glycans are hydrolyzed.Erysipelotrichaceae bacterium 3_1_53 (658659.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Erysipelotrichaceae bacterium 5_2_54FAA (552396.3) 0 0 0 1 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Erysipelotrichaceae bacterium 6_1_45 (469614.3) 0 1 0 0 0 0 0 0 - No glycans are hydrolyzed.Escherichia coli 4_1_47FAA (1127356.4) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 107-1 (679207.4) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 115-1 (749537.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 116-1 (749538.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 119-7 (679206.4) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 124-1 (679205.4) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 145-7 (679204.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 146-1 (749540.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 175-1 (749544.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 182-1 (749545.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 185-1 (749546.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 187-1 (749547.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 196-1 (749548.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 198-1 (749549.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 200-1 (749550.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 21-1 (749527.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 45-1 (749528.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 69-1 (749531.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 78-1 (749532.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 79-10 (796392.4) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 84-1 (749533.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli MS 85-1 (679202.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli O157:H7 str. Sakai (386585.9) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli SE11 (409438.11) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli SE15 (431946.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli str. K-12 substr. MG1655 (511145.12) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia coli UTI89 (364106.8) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia sp. 1_1_43 (457400.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia sp. 3_2_53FAA (469598.5) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Escherichia sp. 4_1_40B (457401.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Eubacterium biforme DSM 3989 (518637.5) 0 0 1 0 1 0 0 2 22, 43 Only (fucosylated) Core 1 structure can be Eubacterium cylindroides T2-87 (717960.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Eubacterium dolichum DSM 3991 (428127.7) 1 0 0 1 1 1 0 13 11, 12, 13, 14, 16, 18, 19, 21, 39, 43, 44, 45, 46 Only (syalated) ploylactosamine structures can be Eubacterium hallii DSM 3353 (411469.3) 0 0 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Eubacterium rectale DSM 17629 (657318.4) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Eubacterium rectale M104/1 (657317.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Eubacterium siraeum 70/3 (657319.3) 0 1 1 0 1 0 0 2 22, 43 Only (fucosylated) Core 1 structure can be Eubacterium siraeum DSM 15702 (428128.7) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Eubacterium siraeum V10Sc8a (717961.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Eubacterium sp. 3_1_31 (457402.3) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Eubacterium ventriosum ATCC 27560 (411463.4) 0 0 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Faecalibacterium cf. prausnitzii KLE1255 (748224.3) 0 0 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Faecalibacterium prausnitzii A2-165 (411483.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Faecalibacterium prausnitzii L2-6 (718252.3) 0 0 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Faecalibacterium prausnitzii M21/2 (411485.10) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Faecalibacterium prausnitzii SL3/3 (657322.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Fusobacterium gonidiaformans ATCC 25563 (469615.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium mortiferum ATCC 9817 (469616.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.usobacterium necrophorum subsp. funduliforme 1_1_36S (742814.3)0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. 1_1_41FAA (469621.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. 11_3_2 (457403.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. 12_1B (457404.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. 2_1_31 (469599.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. 21_1A (469601.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. 3_1_27 (469602.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. 3_1_33 (469603.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. 3_1_36A2 (469604.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. 3_1_5R (469605.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. 4_1_13 (469606.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. 7_1 (457405.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. D11 (556264.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium sp. D12 (556263.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium ulcerans ATCC 49185 (469617.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Fusobacterium varium ATCC 27725 (469618.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Gordonibacter pamelaeae 7-10-1-b (657308.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Hafnia alvei ATCC 51873 (1002364.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Helicobacter bilis ATCC 43879 (613026.4) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Helicobacter canadensis MIT 98-5491 (Prj:30719) (537970.9) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Helicobacter cinaedi ATCC BAA-847 (1206745.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Helicobacter cinaedi CCUG 18818 (537971.5) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Helicobacter pullorum MIT 98-5489 (537972.5) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Helicobacter winghamensis ATCC BAA-430 (556267.4) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Holdemania filiformis DSM 12042 (545696.5) 0 0 1 0 1 1 0 21 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 32, 33, 39, 40, 43, 44, 45, 46, 55 Only (fucosylated) ploylactosamine structures can be hydrolyzed.Klebsiella pneumoniae 1162281 (1037908.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Klebsiella pneumoniae subsp. pneumoniae WGLW5 (1203547.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Klebsiella sp. 1_1_55 (469608.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Klebsiella sp. 4_1_44FAA (665944.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lachnospiraceae bacterium 1_1_57FAA (658081.3) 1 1 1 1 1 1 1 56 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 All glycans can be hydrolyzed.Lachnospiraceae bacterium 1_4_56FAA (658655.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Lachnospiraceae bacterium 2_1_46FAA (742723.3) 0 0 1 1 1 1 1 35 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 32, 33, 39, 40, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55 Glycans with alpha-Gal or alpha-GalNAc cannot be hydrolyzed.Lachnospiraceae bacterium 2_1_58FAA (658082.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Lachnospiraceae bacterium 3_1_46FAA (665950.3) 1 1 1 1 1 1 1 56 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 All glycans can be hydrolyzed.Lachnospiraceae bacterium 3_1_57FAA_CT1 (658086.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Lachnospiraceae bacterium 4_1_37FAA (552395.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Lachnospiraceae bacterium 5_1_57FAA (658085.3) 0 0 1 0 1 0 1 6 1, 22, 43, 48, 49, 50, 52 Only Syalyl-Tn-antigen and (fucosylated or syalated) Core 3 structure can be hydrolyzed.Lachnospiraceae bacterium 5_1_63FAA (658089.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Lachnospiraceae bacterium 6_1_63FAA (658083.3) 0 1 1 0 1 0 0 2 22, 43 Only (fucosylated) Core 1 structure can be Lachnospiraceae bacterium 7_1_58FAA (658087.3) 0 1 0 0 1 0 1 5 1, 43, 48, 49, 52 Only (syalated) Core 3 structure can be hydrolyzed.Lachnospiraceae bacterium 8_1_57FAA (665951.3) 1 1 1 1 1 1 1 56 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 All glycans can be hydrolyzed.Lachnospiraceae bacterium 9_1_43BFAA (658088.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Lactobacillus acidophilus ATCC 4796 (525306.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus acidophilus NCFM (272621.13) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus amylolyticus DSM 11664 (585524.3) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Lactobacillus antri DSM 16041 (525309.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus brevis ATCC 367 (387344.15) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus brevis subsp. gravesensis ATCC 27305 (525310.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Lactobacillus buchneri ATCC 11577 (525318.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.actobacillus casei ATCC 334 (321967.11) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Lactobacillus casei BL23 (543734.4) 0 1 1 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Lactobacillus crispatus 125-2-CHN (575595.3) 0 0 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842 (390333.7)0 0 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365 (321956.7)0 0 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus fermentum ATCC 14931 (525325.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus fermentum IFO 3956 (334390.5) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus gasseri ATCC 33323 (324831.13) 0 1 0 0 0 0 0 0 - No glycans are hydrolyzed.Lactobacillus helveticus DPC 4571 (405566.6) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus helveticus DSM 20075 (585520.4) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus hilgardii ATCC 8290 (525327.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Lactobacillus johnsonii NCC 533 (257314.6) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus paracasei subsp. paracasei 8700:2 (537973.8) 0 1 1 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Lactobacillus paracasei subsp. paracasei ATCC 25302 (525337.3) 0 1 1 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Lactobacillus plantarum 16 (1327988.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus plantarum subsp. plantarum ATCC 14917 (525338.3)0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus plantarum WCFS1 (220668.9) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus reuteri CF48-3A (525341.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus reuteri DSM 20016 (557436.4) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus reuteri F275 (299033.6) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus reuteri MM2-3 (585517.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus reuteri MM4-1A (548485.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus reuteri SD2112 (491077.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus rhamnosus ATCC 21052 (1002365.5) 0 1 1 0 0 0 0 0 - No glycans are hydrolyzed.Lactobacillus rhamnosus GG (Prj:40637) (568703.30) 0 1 1 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Lactobacillus rhamnosus LMS2-1 (525361.3) 0 1 1 0 0 0 0 0 - No glycans are hydrolyzed.Lactobacillus ruminis ATCC 25644 (525362.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Lactobacillus sakei subsp. sakei 23K (314315.12) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Lactobacillus salivarius ATCC 11741 (525364.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Lactobacillus salivarius UCC118 (362948.14) 0 1 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Lactobacillus sp. 7_1_47FAA (665945.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Lactobacillus ultunensis DSM 16047 (525365.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Leuconostoc mesenteroides subsp. cremoris ATCC 19254 (586220.3)0 0 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Listeria grayi DSM 20601 (525367.9) 0 1 0 0 0 0 0 0 - No glycans are hydrolyzed.Listeria innocua ATCC 33091 (1002366.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Megamonas funiformis YIT 11815 (742816.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Megamonas hypermegale ART12/1 (657316.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Methanobrevibacter smithii ATCC 35061 (420247.6) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Methanosphaera stadtmanae DSM 3091 (339860.6) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Mitsuokella multacida DSM 20544 (500635.8) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Mollicutes bacterium D7 (556270.3) 0 1 0 0 1 1 1 22 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 39, 43, 44, 45, 46, 48, 49, 51, 52, 53, 54 Glycans with alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Odoribacter laneus YIT 12061 (742817.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Oxalobacter formigenes HOxBLS (556268.6) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Oxalobacter formigenes OXCC13 (556269.4) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Paenibacillus sp. HGF5 (908341.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Paenibacillus sp. HGF7 (944559.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Paenibacillus sp. HGH0039 (1078505.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Parabacteroides distasonis ATCC 8503 (435591.13) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Parabacteroides johnsonii DSM 18315 (537006.5) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Parabacteroides merdae ATCC 43184 (411477.4) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Parabacteroides sp. D13 (563193.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Parabacteroides sp. D25 (658661.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.araprevotella clara YIT 11840 (762968.3) 0 1 1 0 1 0 0 2 22, 43 Only (fucosylated) Core 1 structure can be Paraprevotella xylaniphila YIT 11841 (762982.3) 0 1 1 0 1 0 0 2 22, 43 Only (fucosylated) Core 1 structure can be Parvimonas micra ATCC 33270 (411465.10) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Pediococcus acidilactici 7_4 (563194.3) 0 1 1 0 0 0 0 0 - No glycans are hydrolyzed.Pediococcus acidilactici DSM 20284 (862514.3) 0 0 1 0 1 0 1 6 1, 22, 43, 48, 49, 50, 52 Only Syalyl-Tn-antigen and (fucosylated or syalated) Core 3 structure can be hydrolyzed.Phascolarctobacterium sp. YIT 12067 (626939.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Prevotella copri DSM 18205 (537011.5) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Prevotella oralis HGA0225 (1203550.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.Prevotella salivae DSM 15606 (888832.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Propionibacterium sp. 5_U_42AFAA (450748.3) 0 0 1 0 1 1 1 34 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 32, 33, 39, 40, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55 Glycans with alpha-Gal, alpha-GalNAc, or alpha-GlcNAc cannot be hydrolyzed.Propionibacterium sp. HGH0353 (1203571.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Proteus mirabilis WGLW6 (1125694.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Proteus penneri ATCC 35198 (471881.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Providencia alcalifaciens DSM 30120 (520999.6) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Providencia rettgeri DSM 1131 (521000.6) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Providencia rustigianii DSM 4541 (500637.6) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Providencia stuartii ATCC 25827 (471874.6) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Pseudomonas sp. 2_1_26 (665948.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Ralstonia sp. 5_7_47FAA (658664.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Roseburia intestinalis L1-82 (536231.5) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Roseburia intestinalis M50/1 (657315.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Roseburia intestinalis XB6B4 (718255.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Roseburia inulinivorans DSM 16841 (622312.4) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Ruminococcaceae bacterium D16 (552398.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Ruminococcus bromii L2-63 (657321.5) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Ruminococcus gnavus ATCC 29149 (411470.6) 0 1 1 0 1 0 1 6 1, 22, 43, 48, 49, 50, 52 Only Syalyl-Tn-antigen and (fucosylated or syalated) Core 3 structure can be hydrolyzed.Ruminococcus lactaris ATCC 29176 (471875.6) 0 0 1 1 1 1 1 35 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 32, 33, 39, 40, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55 Glycans with alpha-Gal or alpha-GalNAc cannot be hydrolyzed.Ruminococcus obeum A2-162 (657314.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Ruminococcus obeum ATCC 29174 (411459.7) 0 1 1 0 1 0 0 2 22, 43 Only (fucosylated) Core 1 structure can be Ruminococcus sp. 18P13 (213810.4) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Ruminococcus sp. 5_1_39BFAA (457412.4) 0 1 1 0 1 0 0 2 22, 43 Only (fucosylated) Core 1 structure can be Ruminococcus sp. SR1/5 (657323.3) 0 1 1 0 1 0 0 2 22, 43 Only (fucosylated) Core 1 structure can be Ruminococcus torques ATCC 27756 (411460.6) 1 1 1 1 1 1 1 56 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 All glycans can be hydrolyzed.Ruminococcus torques L2-14 (657313.3) 0 1 1 0 1 0 0 2 22, 43 Only (fucosylated) Core 1 structure can be Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (99287.12)0 1 0 0 0 0 1 1 1 Only Syalyl-Tn-antigen can be hydrolyzed.Staphylococcus sp. HGB0015 (1078083.3) 0 0 0 0 0 0 1 1 1 Only Syalyl-Tn-antigen can be hydrolyzed.Streptococcus anginosus 1_2_62CV (742820.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Streptococcus equinus ATCC 9812 (525379.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Streptococcus infantarius subsp. infantarius ATCC BAA-102 (471872.6)0 1 0 0 0 0 0 0 - No glycans are hydrolyzed.Streptococcus sp. 2_1_36FAA (469609.3) 0 0 1 0 1 1 0 21 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 32, 33, 39, 40, 43, 44, 45, 46, 55 Only (fucosylated) ploylactosamine structures can be hydrolyzed.Streptococcus sp. HPH0090 (1203590.3) 0 0 1 0 1 1 1 34 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 32, 33, 39, 40, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55 Glycans with alpha-Gal, alpha-GalNAc, or alpha-GlcNAc cannot be hydrolyzed.Streptomyces sp. HGB0020 (1078086.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Streptomyces sp. HPH0547 (1203592.3) 0 1 1 1 1 1 1 41 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc cannot be hydrolyzed.ubdoligranulum sp. 4_3_54A2FAA (665956.3) 0 1 1 0 1 1 1 40 1, 2, 3, 4, 5, 10, 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 48, 49, 50, 51, 52, 53, 54, 55, 56 Glycans with alpha-GalNAc or alpha-GlcNAc cannot be hydrolyzed.Subdoligranulum variabile DSM 15176 (411471.5) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.Succinatimonas hippei YIT 12066 (762983.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Sutterella wadsworthensis 3_1_45B (742821.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Sutterella wadsworthensis HGA0223 (1203554.3) 0 0 0 0 0 0 0 0 - No glycans are hydrolyzed.Tannerella sp. 6_1_58FAA_CT1 (665949.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Turicibacter sp. HGF1 (910310.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Turicibacter sp. PC909 (702450.3) 0 1 1 0 1 1 0 27 11, 12, 13, 14, 18, 22, 23, 25, 26, 27, 28, 30, 31, 32, 33, 34, 35, 36, 39, 40, 42, 43, 44, 45, 46, 55, 56 Glycans with alpha-Gal or alpha-GalNAc as well syalated glycans cannot be hydrolyzed.Veillonella sp. 3_1_44 (457416.3) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Veillonella sp. 6_1_27 (450749.3) 0 0 0 0 0 1 0 1 11 Only Core 3 structure can be hydrolyzed.Weissella paramesenteroides ATCC 33313 (585506.3) 0 1 0 0 1 0 0 1 43 Only Core 1 structure can be hydrolyzed.Yokenella regensburgei ATCC 43003 (1002368.3) 0 1 0 0 1 1 0 9 11, 12, 13, 14, 39, 43, 44, 45, 46 Only ploylactosamine structures can be hydrolyzed.
Summary
Number Hydrolyzed glycans Comments
Number of b i o t r oph i a de f e c t i v a A T CC A c t i no m yc e s odon t o l y t i c u s A T CC A c t i no m yc e s s p . H PA A kk e r m an s i a m u c i n i ph il a A T CC BAA - A li s t i pe s i nd i s t i n c t u s Y I T A li s t i pe s s hah ii W A L A nae r o s t i pe s c a cc ae D S M A nae r o s t i pe s had r u s D S M A nae r o s t i pe s s p . F AA B a c ill u s s m i t h ii F AA B a c ill u s s ub t ili s B a c t e r o i de s c a cc ae A T CC B a c t e r o i de s c ap ill o s u s A T CC B a c t e r o i de s c e ll u l o s il y t i c u s D S M B a c t e r o i de s c l a r u s Y I T B a c t e r o i de s c op r o c o l a D S M B a c t e r o i de s c op r oph il u s D S M B a c t e r o i de s do r e i D S M B a c t e r o i de s egge r t h ii F AA B a c t e r o i de s egge r t h ii D S M B a c t e r o i de s f i nego l d ii D S M B a c t e r o i de s f l u x u s Y I T B a c t e r o i de s f r ag ili s B a c t e r o i de s f r ag ili s R B a c t e r o i de s f r ag ili s NC T C B a c t e r o i de s f r ag ili s Y CH B a c t e r o i de s i n t e s t i na li s D S M B a c t e r o i de s o v a t u s F AA B a c t e r o i de s o v a t u s A T CC B a c t e r o i de s o v a t u s S D CC B a c t e r o i de s p l ebe i u s D S M B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . B B a c t e r o i de s s p . F AA B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . F AA B a c t e r o i de s s p . A B a c t e r o i de s s p . B a c t e r o i de s s p . B a c t e r o i de s s p . F AA B a c t e r o i de s s p . F AA B a c t e r o i de s s p . D B a c t e r o i de s s p . D B a c t e r o i de s s p . D B a c t e r o i de s s p . D B a c t e r o i de s s p . H PS B a c t e r o i de s s t e r c o r i s A T CC B a c t e r o i de s t he t a i o t ao m i c r on VP I - B a c t e r o i de s un i f o r m i s A T CC B a c t e r o i de s v u l ga t u s A T CC B a c t e r o i de s v u l ga t u s P C B a c t e r o i de s xy l an i s o l v en s S D CC B a c t e r o i de s xy l an i s o l v en s XB A B a r ne s i e ll a i n t e s t i n i ho m i n i s Y I T B i f i doba c t e r i u m ado l e sc en t i s L2 - B i f i doba c t e r i u m angu l a t u m D S M B i f i doba c t e r i u m an i m a li s A D B i f i doba c t e r i u m b i f i du m NC I M B B i f i doba c t e r i u m b r e v e D S M B i f i doba c t e r i u m b r e v e H P H B i f i doba c t e r i u m c a t enu l a t u m D S M B i f i doba c t e r i u m den t i u m A T CC B i f i doba c t e r i u m ga lli c u m D S M B i f i doba c t e r i u m l ongu m F B i f i doba c t e r i u m l ongu m - B B i f i doba c t e r i u m l ongu m B B i f i doba c t e r i u m l ongu m A T CC B i f i doba c t e r i u m l ongu m A T CC B i f i doba c t e r i u m l ongu m CCU G B i f i doba c t e r i u m l ongu m D J O A B i f i doba c t e r i u m l ongu m F B i f i doba c t e r i u m l ongu m J C M B i f i doba c t e r i u m l ongu m NCC B i f i doba c t e r i u m p s eudo c a t enu l a t u m D S M B i f i doba c t e r i u m s p . B F AA B il oph il a w ad s w o r t h i a B l au t i a han s en ii D S M B l au t i a h y d r ogeno t r oph i c a D S M B r y an t e ll a f o r m a t e x i gen s D S M t y r a t e - p r odu c i ng ba c t e r i u m S M / t y r a t e - p r odu c i ng ba c t e r i u m SS C / B u t y r i c i c o cc u s pu lli c ae c o r u m . B u t y r i v i b r i o c r o ss o t u s D S M B u t y r i v i b r i o f i b r i s o l v en s / C a t en i ba c t e r i u m m i t s uo k a i D S M C ede c ea da v i s ae D S M C i t r oba c t e r f r eund ii C F AA C i t r oba c t e r s p . C i t r oba c t e r y oungae A T CC C l o s t r i d i a l e s ba c t e r i u m F AA C l o s t r i d i u m a s pa r ag i f o r m e D S M C l o s t r i d i u m ba r t l e tt ii D S M C l o s t r i d i u m bo l t eae A C l o s t r i d i u m bo l t eae A T CC BAA - C l o s t r i d i u m c e l a t u m D S M C l o s t r i d i u m c f. s a cc ha r o l y t i c u m K C l o s t r i d i u m c i t r on i ae W A L - C l o s t r i d i u m c l o s t r i d i o f o r m e F AA C l o s t r i d i u m d i ff i c il e CD C l o s t r i d i u m d i ff i c il e N AP C l o s t r i d i u m d i ff i c il e N AP C l o s t r i d i u m ha t he w a y i W A L - C l o s t r i d i u m h i r anon i s D S M C l o s t r i d i u m h y l e m onae D S M C l o s t r i d i u m l ep t u m D S M C l o s t r i d i u m m e t h y l pen t o s u m D S M C l o s t r i d i u m ne x il e D S M C l o s t r i d i u m r a m o s u m D S M C l o s t r i d i u m sc i nden s A T CC C l o s t r i d i u m s p . F AA C l o s t r i d i u m s p . F AA C l o s t r i d i u m s p . D C l o s t r i d i u m s p . H G F C l o s t r i d i u m s p . L2 - C l o s t r i d i u m s p . M / C l o s t r i d i u m s p . SS / C l o s t r i d i u m s p i r o f o r m e D S M C l o s t r i d i u m s po r ogene s A T CC C l o s t r i d i u m sy m b i o s u m W A L - C l o s t r i d i u m sy m b i o s u m W A L - C o lli n s e ll a i n t e s t i na li s D S M C o lli n s e ll a s t e r c o r i s D S M C op r oba c ill u s s p . C op r oba c ill u s s p . F AA C op r oba c ill u s s p . B F AA C op r oba c ill u s s p . D C op r o c o cc u s c a t u s G D / C op r o c o cc u s c o m e s A T CC C op r o c o cc u s eu t a c t u s A T CC C op r o c o cc u s s p . A R T / C op r o c o cc u s s p . H PP C op r o c o cc u s s p . H PP C o r y neba c t e r i u m a mm on i agene s D S M D e r m aba c t e r s p . H F H D e s u l f i t oba c t e r i u m ha f n i en s e D P D e s u l f o v i b r i o s p . sy n3 D o r ea f o r m i c i gene r an s A F AA D o r ea f o r m i c i gene r an s A T CC D o r ea l ong i c a t ena D S M D ys gono m ona s gade i A T CC BAA - D ys gono m ona s m o ss ii D S M E d w a r d s i e ll a t a r da A T CC E n t e r oba c t e r c an c e r ogenu s A T CC E n t e r oba c t e r c l oa c ae NC T C E n t e r oba c t e r i a c eae ba c t e r i u m F AA E n t e r o c o cc u s f ae c a li s P C . E n t e r o c o cc u s f ae c a li s T X E n t e r o c o cc u s f ae c a li s T X E n t e r o c o cc u s f ae c a li s T X E n t e r o c o cc u s f ae c a li s T X E n t e r o c o cc u s f ae c a li s T X E n t e r o c o cc u s f ae c a li s T X E n t e r o c o cc u s f ae c a li s T X E n t e r o c o cc u s f ae c a li s T X E n t e r o c o cc u s f ae c a li s T X E n t e r o c o cc u s f ae c i u m P C . E n t e r o c o cc u s f ae c i u m T X E n t e r o c o cc u s s a cc ha r o l y t i c u s E n t e r o c o cc u s s p . E r ys i pe l o t r i c ha c eae ba c t e r i u m E r ys i pe l o t r i c ha c eae ba c t e r i u m A E r ys i pe l o t r i c ha c eae ba c t e r i u m F AA E r ys i pe l o t r i c ha c eae ba c t e r i u m E sc he r i c h i a c o li F AA E sc he r i c h i a c o li K - M G E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li M S - E sc he r i c h i a c o li O : H S a k a i E sc he r i c h i a c o li SE E sc he r i c h i a c o li SE E sc he r i c h i a c o li U T I E sc he r i c h i a s p . E sc he r i c h i a s p . F AA E sc he r i c h i a s p . B E uba c t e r i u m b i f o r m e D S M E uba c t e r i u m do li c hu m D S M E uba c t e r i u m ha llii D S M E uba c t e r i u m r e c t a l e D S M E uba c t e r i u m r e c t a l e M / E uba c t e r i u m s i r aeu m / E uba c t e r i u m s i r aeu m D S M E uba c t e r i u m s i r aeu m V S c E uba c t e r i u m s p . E uba c t e r i u m v en t r i o s u m A T CC F ae c a li ba c t e r i u m c f. p r au s n i t z ii K L E F ae c a li ba c t e r i u m p r au s n i t z ii A - F ae c a li ba c t e r i u m p r au s n i t z ii L2 - F ae c a li ba c t e r i u m p r au s n i t z ii M / F ae c a li ba c t e r i u m p r au s n i t z ii S L3 / F u s oba c t e r i u m m o r t i f e r u m A T CC H a f n i a a l v e i A T CC H o l de m an i a f ili f o r m i s D S M K l eb s i e ll a pneu m on i ae K l eb s i e ll a pneu m on i ae W G L W K l eb s i e ll a s p . K l eb s i e ll a s p . F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA _ C T c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m F AA La c hno s p i r a c eae ba c t e r i u m B F AA La c t oba c ill u s a c i doph il u s A T CC c t oba c ill u s a c i doph il u s NC F M La c t oba c ill u s a m y l o l y t i c u s D S M c t oba c ill u s an t r i D S M c t oba c ill u s b r e v i s A T CC c t oba c ill u s b r e v i s A T CC
367 La c t oba c ill u s bu c hne r i A T CC c t oba c ill u s c a s e i A T CC
334 La c t oba c ill u s c a s e i B L23 La c t oba c ill u s c r i s pa t u s - - CHN La c t oba c ill u s de l b r ue ck ii A T CC c t oba c ill u s de l b r ue ck ii A T CC BAA -
365 La c t oba c ill u s f e r m en t u m A T CC c t oba c ill u s f e r m en t u m I F O c t oba c ill u s ga ss e r i A T CC c t oba c ill u s he l v e t i c u s D P C c t oba c ill u s he l v e t i c u s D S M c t oba c ill u s h il ga r d ii A T CC c t oba c ill u s j ohn s on ii NCC
533 La c t oba c ill u s pa r a c a s e i : c t oba c ill u s pa r a c a s e i A T CC c t oba c ill u s p l an t a r u m
16 La c t oba c ill u s p l an t a r u m A T CC c t oba c ill u s p l an t a r u m W C F S c t oba c ill u s r eu t e r i C F - A La c t oba c ill u s r eu t e r i D S M c t oba c ill u s r eu t e r i F
275 La c t oba c ill u s r eu t e r i MM - c t oba c ill u s r eu t e r i MM - A La c t oba c ill u s r eu t e r i S D c t oba c ill u s r ha m no s u s A T CC c t oba c ill u s r ha m no s u s GG La c t oba c ill u s r ha m no s u s L M S - c t oba c ill u s r u m i n i s A T CC c t oba c ill u s s a k e i K La c t oba c ill u s s a li v a r i u s A T CC c t oba c ill u s s a li v a r i u s UCC
118 La c t oba c ill u s u l t unen s i s D S M c ono s t o c m e s en t e r o i de s A T CC i s t e r i a g r a y i D S M M ega m ona s f un i f o r m i s Y I T M ega m ona s h y pe r m ega l e A R T / M i t s uo k e ll a m u l t a c i da D S M M o lli c u t e s ba c t e r i u m D O do r i ba c t e r l aneu s Y I T P aen i ba c ill u s s p . H G F P aen i ba c ill u s s p . H G F P aen i ba c ill u s s p . H G H P a r aba c t e r o i de s d i s t a s on i s A T CC P a r aba c t e r o i de s j ohn s on ii D S M P a r aba c t e r o i de s m e r dae A T CC P a r aba c t e r o i de s s p . D P a r aba c t e r o i de s s p . D P a r ap r e v o t e ll a c l a r a Y I T P a r ap r e v o t e ll a xy l an i ph il a Y I T P ed i o c o cc u s a c i d il a c t i c i P ed i o c o cc u s a c i d il a c t i c i D S M P r e v o t e ll a c op r i D S M P r e v o t e ll a o r a li s H G A P r e v o t e ll a s a li v ae D S M P r op i on i ba c t e r i u m s p . U _42 A F AA P r op i on i ba c t e r i u m s p . H G H P r o v i den c i a r e tt ge r i D S M P r o v i den c i a s t ua r t ii A T CC R o s ebu r i a i n t e s t i na li s L1 - R o s ebu r i a i n t e s t i na li s M / R o s ebu r i a i n t e s t i na li s XB B R o s ebu r i a i nu li n i v o r an s D S M R u m i no c o cc a c eae ba c t e r i u m D R u m i no c o cc u s b r o m ii L2 - R u m i no c o cc u s gna v u s A T CC R u m i no c o cc u s l a c t a r i s A T CC R u m i no c o cc u s obeu m A - R u m i no c o cc u s obeu m A T CC R u m i no c o cc u s s p . P R u m i no c o cc u s s p . B F AA R u m i no c o cc u s s p . S R / R u m i no c o cc u s t o r que s L2 - S a l m one ll a en t e r i c a T y ph i m u r i u m L T S t aph y l o c o cc u s s p . H G B S t r ep t o c o cc u s i n f an t a r i u s A T CC BAA - S t r ep t o c o cc u s s p . F AA S t r ep t o c o cc u s s p . H P H S t r ep t o m yc e s s p . H G B S t r ep t o m yc e s s p . H P H S ubdo li g r anu l u m s p . A F AA S ubdo li g r anu l u m v a r i ab il e D S M T anne r e ll a s p . F AA _ C T T u r i c i ba c t e r s p . H G F T u r i c i ba c t e r s p . P C V e ill one ll a s p . V e ill one ll a s p . W e i ss e ll a pa r a m e s en t e r o i de s A T CC Y o k ene ll a r egen s bu r ge i A T CC Abiotrophia defectiva ATCC 49176