Gonzalo Platas

Endophytic fungi from plants living on gypsum soils as a source of secondary metabolites with antimicrobial activity

Endophytic fungi were isolated from nine plant species growing on gypsum and saline soils in central Spain. The plants sampled were Arundo donax, Afriplex halimus, Diplotaxis erucoides, Ephedra nebrodensis, Phragmites australis, Rosmarinus officinalis, Scirpus holoschoenus, S maritimus and Stipa tenacissima. A total of 152 fungal species were recovered from 2880 samples of leaves, stems or twigs, taken from 45 individual plants. Ephedra and Rosmarinus showed the highest diversity of endophytes, whereas both species of Scirpus showed the lowest. The most frequently isolated fungi were Allernaria alternata, Sporormiella intermedia, Rhizoctonia sp., Epicoccum purpurascens, Pleospora herbarum, Cladosporium herbarum, Sporormiella australis and a sterile fungus. A total of 187 strains belonging to 136 species were tested for the production of antimicrobial activities, using a panel of bacteria and yeasts, some of them of clinical relevance. Production of antimicrobial compounds was detected in 45 strains, belonging to 37 species. Large differences were observed among isolates from the same species, with respect to their ability to produce metabolites with antimicrobial activity.

Enhancement of antibiotic and secondary metabolite detection from filamentous fungi by growth on nutritional arrays

Aims:  We asked to what extent does the application of the OSMAC (one strain, many compounds) approach lead to enhanced detection of antibiotics and secondary metabolites in fungi? Protocols for bacterial microfermentations were adapted to grow fungi in nutritional arrays.

The Discovery of Enfumafungin, a Novel Antifungal Compound Produced by an Endophytic Hormonema Species Biological Activity and Taxonomy of the Producing Organisms

In a screening of natural products with antifungal activity derived from endophytic fungi, we detected a potent activity in a culture belonging to the form-genus Hormonema, isolated from leaves of Juniperus communis. The compound is a new triterpene glycoside, showing an antifungal activity highly potent in vitro against Candida and Aspergillus and with moderate efficacy in an in vivo mouse model of disseminated candidiasis. The agent is especially interesting since its antifungal spectrum and its effect on morphology of Aspergillus fumigatus is comparable to that of the glucan synthase inhibitor pneumocandin B,,, the natural precursor of the clinical candidate MK-0991 (caspofungin acetate). An additional search for other Hormonema isolates producing improved titers or derivatives resulted in the isolation of two more strains recovered from the same plant host showing identical activity. The producing isolates were compared with other non-producing Hormonema strains by DNA fingerprinting and sequencing of the rDNA internal transcribed spacers. Comparison of rDNA sequences with other fungal species suggests that the producing fungus could be an undetermined Kabatina species. Kabatina is a coelomycetous genus whose members are known to produce Hormonema-like states in culture.

Reclassification of a pneumocandin-producing anamorph, Glarea lozoyensis gen. et sp. nov., previously identified as Zalerion arboricola

The importance of pneumocandin B O as the fermentation-derived starting material for the antifungal drug candidate, MK-991, along with the identification of our production strain as Z. arboricola (ATCC 20868) as CBS prompted a search for other strains of Z. arboricola or Zalerion species with improved titres or that might produce natural pneumocandin analogues. Analysis of morphology, secondary metabolites profiles, and DNA fingerprinting demonstrated that ATCC 20868 was not congeneric with Z. arboricola. Ribosomal DNA sequences were compared among Zalerion species and pneumocandin-producing fungi and with rDNA sequences in GenBank. No good matches with sequences in GenBank were obtained for Z. arboricola or Z. maritimum , but for Z. varium, P. carpinea and ATCC 20868, relevant similarities were observed with ITS1 sequences from fungi of Leotiales. ATCC 20868 was phylogenetically more akin to P. carpinea , another pneumocandin producer, than initially suspected. The closest relative of ATCC 20868 seemed to be Hymenoscyphus monotropae. We conclude that the genus Zalerion is artificial; its species bear no phylogenetic relation among themselves. ATCC 20868 and Z. varium were related to fungi of the Leotiales. We propose a new anamorph genus and species, Glarea lozoyensis , to accommodate ATCC 20868.

Isolation and characterization of melanized fungi from limestone formations in Mallorca

Melanized fungi were isolated from limestone surfaces in upland and coastal environments in the Mediterranean island of Mallorca. One hundred seventeen isolates were recovered from two topographically distinct sites. Due to the difficulty in distinguishing among isolates based on morphological criteria, microsatellite-primed PCR techniques were used to group isolates into genotypes that were assumed to represent species. Seventeen genotypes were characterized from one site and twenty six from the other, with four genotypes common to both. Classical and molecular methods were used to identify representative strains. Morphological methods rarely provided a reliable identification; only three isolates, Hortaea werneckii, Trimmatostroma abietis and Aureobasidium pullulans were identified with certainty, and the identification was confirmed by molecular data. Morphological characters that were widespread among the isolates included scarce micronematous conidial states or non-sporulating sterile mycelia, mature mycelia with dark olive green or black hyphae, mycelia with torulous hyphae, whose cells developed one or more transverse septa. In many of these fungi, the cells of mature hyphae disarticulated, suggesting asexual reproduction by a thallic micronematous conidiogenesis or by simple propagative fragmentation. Sequencing of the internal transcribed spacers (ITS1, ITS2) and 5.8S ribosomal gene, as well as the 18S rDNA ribosomal gene were employed to investigate the isolates’ phylogenetic affinities. The majority of the isolates could be grouped in two main classes of Ascomycetes, Dothideomycetes and Chaetothyriomycetes, although many others did not correspond with any sequence deposited in public databases, suggesting they could be of unknown genera that did not correspond with any well-defined Ascomycete order.

PAP Inhibitor with In Vivo Efficacy Identified by Candida albicans Genetic Profiling of Natural Products

Natural products provide an unparalleled source of chemical scaffolds with diverse biological activities and have profoundly impacted antimicrobial drug discovery. To further explore the full potential of their chemical diversity, we survey natural products for antifungal, target-specific inhibitors by using a chemical-genetic approach adapted to the human fungal pathogen Candida albicans and demonstrate that natural-product fermentation extracts can be mechanistically annotated according to heterozygote strain responses. Applying this approach, we report the discovery and characterization of a natural product, parnafungin, which we demonstrate, by both biochemical and genetic means, to inhibit poly(A) polymerase. Parnafungin displays potent and broad spectrum activity against diverse, clinically relevant fungal pathogens and reduces fungal burden in a murine model of disseminated candidiasis. Thus, mechanism-of-action determination of crude fermentation extracts by chemical-genetic profiling brings a powerful strategy to natural-product-based drug discovery.

Hypoxylon pulicicidum sp. nov. (Ascomycota, Xylariales), a pantropical insecticide-producing endophyte

Background Nodulisporic acids (NAs) are indole diterpene fungal metabolites exhibiting potent systemic efficacy against blood-feeding arthropods, e.g., bedbugs, fleas and ticks, via binding to arthropod specific glutamate-gated chloride channels. Intensive medicinal chemistry efforts employing a nodulisporic acid A template have led to the development of N-tert-butyl nodulisporamide as a product candidate for a once monthly treatment of fleas and ticks on companion animals. The source of the NAs is a monophyletic lineage of asexual endophytic fungal strains that is widely distributed in the tropics, tentatively identified as a Nodulisporium species and hypothesized to be the asexual state of a Hypoxylon species. Methods and Results Inferences from GenBank sequences indicated that multiple researchers have encountered similar Nodulisporium endophytes in tropical plants and in air samples. Ascomata-derived cultures from a wood-inhabiting fungus, from Martinique and closely resembling Hypoxylon investiens, belonged to the same monophyletic clade as the NAs-producing endophytes. The hypothesis that the Martinique Hypoxylon collections were the sexual state of the NAs-producing endophytes was tested by mass spectrometric analysis of NAs, multi-gene phylogenetic analysis, and phenotypic comparisons of the conidial states. We established that the Martinique Hypoxylon strains produced an ample spectrum of NAs and were conspecific with the pantropical Nodulisporium endophytes, yet were distinct from H. investiens. A new species, H. pulicicidum, is proposed to accommodate this widespread organism. Conclusions and Significance Knowledge of the life cycle of H. pulicicidum will facilitate an understanding of the role of insecticidal compounds produced by the fungus, the significance of its infections in living plants and how it colonizes dead wood. The case of H. pulicicidum exemplifies how life cycle studies can consolidate disparate observations of a fungal organism, whether from environmental sequences, vegetative mycelia or field specimens, resulting in holistic species concepts critical to the assessment of the dimensions of fungal diversity.

Isolation and structure elucidation of parnafungins, antifungal natural products that inhibit mRNA polyadenylation.

The Candida albicans Fitness Test, a whole-cell screening platform, was used to profile crude fermentation extracts for novel antifungal natural products with interesting mechanisms of action. An extract with intrinsic antifungal activity from the fungus Fusarium larvarum displayed a Fitness Test profile that strongly implicated mRNA processing as the molecular target responsible for inhibition of fungal growth. Isolation of the active components from this sample identified a novel class of isoxazolidinone-containing natural products, which we have named parnafungins. These natural products were isolated as an interconverting mixture of four structural- and stereoisomers. The isomerization of the parnafungins was due to a retro-Michael ring-opening and subsequent reformation of a xanthone ring system. This interconversion was blocked by methylation of an enol moiety. Structure elucidation of purified parnafungin derivatives was accomplished by X-ray crystallography and NMR analysis. The biochemical target of these natural products has been identified as the fungal polyadenosine polymerase. Parnafungins demonstrated broad spectrum antifungal activity with no observed activity against gram-positive or gram-negative bacteria. The intact isoxazolidinone ring was required for antifungal activity. In addition, the natural products were efficacious in a mouse model of disseminated candidiasis.

Infraspecific variation in two species of aquatic hyphomycetes assessed by RAPD analysis

During a survey of aquatic hyphomycetes isolated from foam patches in a stream of the Central Region of Spain, random amplified polymorphic DNA (RAPD) profiles were used to analyse the infraspecific variability within the populations of the two dominant species, Heliscus lugdunensis and Articulospora tetracladia . Thirteen foam samples were collected along ∼ 1 km of the stream course and strains of these two species were cultured from single conidia. More than 100 isolates of each species were subjected to PCR under low-stringency conditions, using two primers derived from consensus sequences of the 5·8S rRNA gene. The Heliscus and Articulospora strains could be divided into seven or five different RAPD types, respectively, each group containing at least four isolates. Up to 10 of these different genotypes could be detected in the same foam sample. The distribution of these RAPD types among the foam samples seems to be random. These results suggest the presence of a relatively stable pool of fungal genotypes colonizing the plant substrates along the stream. However, the mechanisms of fungal dispersion occurring in freshwater courses could also account for the high percentage of RAPD groups shared among relatively distant foam patches.

Antisense-Guided Isolation and Structure Elucidation of Pannomycin, a Substituted cis-Decalin from Geomyces pannorum

Antisense-based screening strategies can be used to sensitize a microorganism and selectively detect inhibitors against a particular cellular target of interest. A strain of Staphylococcus aureus that generates an antisense RNA against SecA,a central member of the protein secretion machinery, has been used to screen for novel antibacterials. Possible inhibitors of the SecA ATP-ase were selected with a high-throughput, two-plate agar-based whole cell differential sensitivity screen. After screening a library of over 115 000 natural products extracts with the SecA antisense strain, an extract of Geomyces pannorum was identified as providing increased activity against the sensitized strain as compared with the wild-type control. Bioassay-guided isolation of the active component from this fungal extract provided a new cis-decalin secondary metabolite, which we have named pannomycin.