Sanghwa Park

Advenella faeciporci sp. nov., a nitrite-denitrifying bacterium isolated from nitrifying–denitrifying activated sludge collected from a laboratory-scale bioreactor treating piggery wastewater

Strain M-07(T) was isolated from nitrifying-denitrifying activated sludge treating piggery wastewater. Phylogenetic analysis based on 16S rRNA gene sequences demonstrated that strain M-07(T) belonged to the genus Advenella. 16S rRNA gene sequence similarity between M-07(T) and Advenella incenata CCUG 45225(T), Advenella mimigardefordensis DPN7(T) and Advenella kashmirensis WT001(T) was 96.5, 97.3 and 96.9%, respectively. The DNA G+C content of strain M-07(T) was 49.5 mol%, which was approximately 5 mol% lower than the range for the genus Advenella (53.5-58.0 mol%). The predominant cellular fatty acids of strain M-07(T) were C(16:0), summed feature 3 (comprising C(16:1)ω7c and/or iso-C(15:0) 2-OH), C(17:0) cyclo and summed feature 2 (comprising one or more of C(14:0) 3-OH, iso-C(16:1) I, an unidentified fatty acid with an equivalent chain-length of 10.928 and C(12:0) alde). The isoprenoid quinone was Q-8. On the basis of phenotypic characteristics, phylogenetic analysis and DNA-DNA relatedness, strain M-07(T) should be classified as a novel species of the genus Advenella, for which the name Advenella faeciporci sp. nov. is proposed. The type strain is M-07(T) ( = JCM 17746(T)  = KCTC 23732(T)).

Halioglobus japonicus gen. nov., sp. nov. and Halioglobus pacificus sp. nov., members of the class Gammaproteobacteria isolated from seawater.

Two coccoid, non-motile bacteria were isolated from seawater in the north-western Pacific Ocean near Japan. The two strains, designated S1-36(T) and S1-72(T), were Gram-negative, obligately aerobic, heterotrophic and catalase-negative. They were able to reduce nitrate to nitrogen. Both strains required NaCl for growth, with optimum growth in 2% NaCl, and grew at 15-30 °C, with optimum growth at 20-25 °C. Genomic DNA G+C contents of strains S1-36(T) and S1-72(T) were 59.6 and 59.4 mol%, respectively. The predominant isoprenoid quinone was Q-8 and major cellular fatty acids were C(16:1)ω7c, C(18:1)ω7c and C(17:1)ω8c. Analyses of 16S rRNA gene sequences revealed that strains S1-36(T) and S1-72(T) were related to each other (96.1% sequence similarity) and both strains showed 92.3-94.7% sequence similarity with members of the genus Haliea. On the basis of phenotypic and phylogenetic features, strains S1-36(T) and S1-72(T) should be classified as representatives of two novel species in a new genus, Halioglobus gen. nov., within the class Gammaproteobacteria. The names proposed are Halioglobus japonicus sp. nov., the type species of the genus, with S1-36(T) ( = NBRC 107739(T) = KCTC 23429(T)) as type strain, and Halioglobus pacificus sp. nov., with S1-72(T) ( = NBRC 107742(T) = KCTC 23430(T)) as type strain.

Fabibacter misakiensis sp. nov., a marine bacterium isolated from coastal surface water.

A slightly curved-rod-shaped, pink-pigmented, Gram-stain-negative, aerobic bacterial strain with gliding motility, designated SK-8T, was isolated from coastal surface water of Misaki, Japan. Phylogenetic trees generated using 16S rRNA gene sequences revealed that strain SK-8T belonged to the genus Fabibacter and showed 96.0 % sequence similarity to the type strain of the most closely related species, Fabibacter pacificus DY53T. The novel isolate was phenotypically and physiologically different from previously described strains. The major cellular fatty acids were iso-C15 : 1 G, iso-C15 : 0 and iso-C17 : 0 3-OH. Major polar lipids were phosphatidylethanolamine, two aminophospholipids and an unidentified phospholipid. The DNA G+C content was 39.1 mol% and MK-7 was the only predominant isoprenoid quinone. On the basis of this taxonomic study employing a polyphasic approach, it was suggested that strain SK-8T represents a novel species of the genus Fabibacter, with the newly proposed name Fabibacter misakiensis sp. nov. The type strain is SK-8T ( = NBRC 110216T = KCTC 32969T).

Rubrivirga marina gen. nov., sp. nov., a member of the family Rhodothermaceae isolated from deep seawater.

Two aerobic, Gram-stain-negative, pale-red-pigmented and rod-shaped bacterial strains, designated SAORIC-26 and SAORIC-28T, were isolated from seawater (3000 m depth) from the Pacific Ocean. Phylogenetic analysis based on their 16S rRNA gene sequences revealed that the novel isolates could be affiliated with the family Rhodothermaceae of the class Cytophagia . Strains SAORIC-26 and SAORIC-28T shared 99.7 % pairwise sequence similarity with each other and showed less than 92.6 % similarity with other cultivated members of the class Cytophagia . The strains were found to be non-motile, oxidase-positive, catalase-negative and able to hydrolyse gelatin and aesculin. The DNA G+C contents were determined to be 64.8–65.8 mol% and MK-7 was the predominant menaquinone. Summed feature 9 (iso-C17 : 1ω9c and/or C16 : 0 10-methyl), summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c) and iso-C15 : 0 were found to be the major cellular fatty acids. On the basis of this taxonomic study using a polyphasic approach, it was concluded that strains SAORIC-26 and SAORIC-28T represent a novel species of a new genus in the family Rhodothermaceae , for which the name Rubrivirga marina gen. nov., sp. nov. is proposed. The type strain of the type species of is SAORIC-28T ( = KCTC 23867T = NBRC 108816T). An additional strain of the species is SAORIC-26.

Sphingomonas jejuensis sp. nov., isolated from marine sponge Hymeniacidon flavia

A Gram-negative, non-motile, rod shaped, and orange-pigmented chemoheterotrophic bacterium, strain MS-31T was isolated from the marine sponge Hymeniacidon flavia, collected from near Jeju Island, Korea. The Strain MS-31T was subjected to a polyphasic taxonomic study. The phylogenetic analysis based on the 16S rRNA gene sequences revealed that the novel isolate could be affiliated within the genus Sphingomonas. The strain MS-31T showed 95.6% of 16S rRNA gene sequence similarity with the most closely related species Sphingomonas koreensis JSS26T. The DNA G+C content of the strain MS-31T was 69.4 mol%. The major isoprenoid quinone was ubiqunone 10 and predominant cellular fatty acids were summed feature 7 (comprising C18:1 ω7c, C18:1 Ω9t and/or C18:1 ωl2t, 39.7%), C16:0 (16.3%), C14:0 2OH (15.9%) and summed feature 3 (comprising C16:1 ω7c and/or C15:0 iso 2OH, 11.7%). The polar lipids were sphingoglycolipid, phosphatidyletha-nolamine, phosphatidylglycerol, diphosphatidylglycerol and unidentified glycolipid. Based on the evidence from the polyphasic taxonomic study, the strain should be classified as a new species of the genus Sphingomonas. As a result, the name Sphingomonas jejuensis sp. nov. (type strain MS-31T =KCTC 23321T =NBRC 107775T) is proposed.

Aureitalea marina gen. nov., sp. nov., a member of the family Flavobacteriaceae, isolated from seawater

An irregular rod-shaped, non-gliding, yellow-pigmented bacterium was isolated from seawater from the western North Pacific Ocean near Japan. The strain, designated S1-66T, was Gram-negative, obligately aerobic, heterotrophic and oxidase-positive. Growth occurred in the presence of 1-4 % NaCl, with optimum growth at 2 % NaCl. The strain grew at 15-30 °C, with optimum growth at 20-25 °C. The G+C content of genomic DNA was 48.1 mol% (HPLC). The predominant isoprenoid quinone was MK-6 and the major cellular fatty acids were iso-C15:0 (26.4 %), iso-C15:1 (20.3 %) and iso-C17:0 3-OH (14.2 %). Phylogenetic trees generated by using 16S rRNA gene sequences revealed that strain S1-66T belongs to the family Flavobacteriaceae and showed 94.2 % sequence similarity to the most closely related type strain, Ulvibacter antarcticus IMCC3101T. On the basis of phenotypic and phylogenetic features, S1-66T is classified in a novel genus and species within the family Flavobacteriaceae, for which the name Aureitalea marina gen. nov., sp. nov. is proposed. The type strain of Aureitalea marina is S1-66T (=NBRC 107741T=KCTC 23434T).

Oceanicoccus sagamiensis gen. nov., sp. nov., a gammaproteobacterium isolated from sea water of Sagami Bay in Japan.

A gram-negative, motile, coccoid- and amorphous-shaped, non-pigmented chemoheterotrophic bacterium, designated strain PZ-5T, was isolated from sea water of Sagami Bay in Japan and subjected to a polyphasic taxonomic study. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the novel isolate could be affiliated with the class Gammaproteobacteria. Strain PZ-5T showed below 93.9% similarity with validly published bacteria and demonstrated the highest sequence similarity to Dasania marina KOPRI 20902T (93.9%). Strain PZ-5T formed a monophyletic group with D. marina KOPRI 20902T. The DNA G+C content of strain PZ-5T was 49.8 mol%. The major isoprenoid quinone was Q-8 and predominant cellular fatty acids were C15:0 ISO 20H (19%), C16:1 ω7c (17.4%), C17;1 ω8c (16.2%), C11:0 3OH (7.5%), and C15:1 ω8c (6.5%). Based on evidence from a polyphasic taxonomical study, it was concluded that the strain should be classified as representing a new genus and species of the class Gammaproteobacteria, for which the name Oceanicoccus sagamiensis gen. nov., sp. nov., (type strain PZ-5T =NBRC 107125T =KCTC 23278T) is proposed.

Draft Genome Sequence of Rubricoccus marinus SG-29 T , a Marine Bacterium within the Family Rhodothermaceae , Which Contains Two Different Rhodopsin Genes

ABSTRACT Here, we report the draft genome sequence of Rubricoccus marinus SG-29T, a bacterium isolated from the western North Pacific Ocean. R. marinus SG-29T possesses two different types of rhodopsin genes and belongs to the family Rhodothermaceae, with which halophilic, thermophilic, and marine bacteria are associated.

Aureicoccus marinus gen. nov., sp. nov., a member of the family Flavobacteriaceae, isolated from seawater

A coccoid and amorphous-shaped, non-gliding, proteorhodopsin-containing, yellow bacterium, designated strain SG-18(T), was isolated from seawater in the western North Pacific Ocean near Japan. The strain was Gram-stain-negative, obligately aerobic, heterotrophic and oxidase-positive. It hydrolysed aesculin but not DNA, urea, gelatin or agar. Growth occurred in the presence of 1-5 % NaCl, with optimum growth at 2 % NaCl. The strain grew at 15-37 °C with an optimum temperature of 25-30 °C. The DNA G+C content of the genomic DNA of strain SG-18(T) was 47.0 mol% (HPLC). The predominant isoprenoid quinone was MK-6, and major cellular fatty acids were iso-C15 : 1 G, iso-C15 : 0, iso-C15 : 0 3-OH. Phylogenetic trees generated by using 16S rRNA gene sequences revealed that strain SG-18(T) belonged to the family Flavobacteriaceae and showed 92.7 % sequence similarity to the most closely related species, Croceitalea eckloniae DOKDO 025(T). On the basis of phenotypic and phylogenetic features, strain SG-18(T) is classified as representing a novel species of a new genus within the family Flavobacteriaceae, for which the name Aureicoccus marinus gen. nov., sp. nov. is proposed. The type strain of the type species is SG-18(T) ( = NBRC 108814(T) = KCTC 23967(T)).