1887

Abstract

An obligately anaerobic, rod-shaped (0.5–1.0 × 2.0–10.0 μm), Gram-stain-positive bacterium, occurring mainly singly or in pairs, and designated BLPYG-8, was isolated from faeces of a healthy human volunteer aged 56 years. Cells were non-motile. Oval, terminal spores were formed that swell the cells. The strain was affiliated with the genus ( rRNA cluster I) as revealed by 16S rRNA gene sequence analysis. Strain BLPYG-8 showed 97.3 to 97.4 % 16S rRNA gene sequence similarity with DSM 18982, DSM 6970 and DSM 13105. DNA–DNA hybridization and phenotypic analysis showed that the strain was distinct from its closest relatives, DSM 18982, DSM 6970, DSM 13105 with 54.2, 53.9 and 53.3 % DNA–DNA relatedness, respectively. Strain BLPYG-8 grew in PYG broth at temperatures between 20 and 40 °C (optimum 37 °C). The strain utilized a range of amino acids as well as carbohydrates as a source of carbon and energy. Glucose fermentation resulted in the formation of volatile fatty acids mainly acetic acid, n-butyric acid and organic acids such as succinic and lactic acid. The DNA G+C content of strain BLPYG-8 was 44.1 mol%. The major fatty acids (>10 %) were C, iso-C, Cω7 and C. Phylogenetic analysis and specific phenotypic characteristics and/or DNA G+C content differentiated the strain from its closest relatives. On the basis of these data, strain BLPYG-8 represents a novel species of the genus for which the name sp. nov. is proposed. The type strain is BLPYG-8 ( = DSM 28650 = CCUG 64195 = MCC 2737).

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2015-12-01
2019-12-07
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References

  1. Amann R. I., Lin C., Key R., Montgomery L., Stahl D. A.. ( 1992;). Diversity among Fibrobacter isolates: towards a phylogenetic classification. Syst Appl Microbiol 15: 23–31 [CrossRef].
    [Google Scholar]
  2. Auch A. F., von Jan M., Klenk H. P., Göker M.. ( 2010;). Digital DNA-DNA hybridization for microbial species delineation by means of genome-to-genome sequence comparison. Stand Genomic Sci 2: 117–134 [CrossRef] [PubMed].
    [Google Scholar]
  3. Collins M. D., Lawson P. A., Willems A., Cordoba J. J., Fernandez-Garayzabal J., Garcia P., Cai J., Hippe H., Farrow J. A.. ( 1994;). The phylogeny of the genus Clostridium: proposal of five new genera and eleven new species combinations. Int J Syst Bacteriol 44: 812–826 [CrossRef] [PubMed].
    [Google Scholar]
  4. Dighe A. S., Shouche Y. S., Ranade D. R.. ( 1998;). Selenomonas lipolytica sp. nov., an obligately anaerobic bacterium possessing lipolytic activity. Int J Syst Bacteriol 48: 783–791 [CrossRef] [PubMed].
    [Google Scholar]
  5. Eckburg P. B., Bik E. M., Bernstein C. N., Purdom E., Dethlefsen L., Sargent M., Gill S. R., Nelson K. E., Relman D. A.. ( 2005;). Diversity of the human intestinal microbial flora. Science 308: 1635–1638 [CrossRef] [PubMed].
    [Google Scholar]
  6. Felsenstein J.. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783–791 [CrossRef].
    [Google Scholar]
  7. Hernández-Eugenio G., Fardeau M.-L., Cayol J.-L., Patel B. K. C., Thomas P., Macarie H., Garcia J.-L., Ollivier B.. ( 2002;). Clostridium thiosulfatireducens sp. nov., a proteolytic, thiosulfate- and sulfur-reducing bacterium isolated from an upflow anaerobic sludge blanket (UASB) reactor. Int J Syst Evol Microbiol 52: 1461–1468 [PubMed].
    [Google Scholar]
  8. Holdeman L. V., Moore W. E. C..), ( 1977;). V.P.I. Anaerobic Laboratory Manual., Blacksburg, USA: Virginia Polytechnic Institute and State University;.
    [Google Scholar]
  9. Kimura M.. ( 1980;). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16: 111–120 [CrossRef] [PubMed].
    [Google Scholar]
  10. Lanjekar V. B., Marathe N. P., Ramana V. V., Shouche Y. S., Ranade D. R.. ( 2014;). Megasphaera indica sp. nov., an obligate anaerobic bacteria isolated from human faeces. Int J Syst Evol Microbiol 64: 2250–2256 [CrossRef] [PubMed].
    [Google Scholar]
  11. Marathe N., Shetty S., Lanjekar V., Ranade D., Shouche Y.. ( 2012;). Changes in human gut flora with age: an Indian familial study. BMC Microbiol 12: 222 [CrossRef] [PubMed].
    [Google Scholar]
  12. Marathe N. P., Regina V. R., Walujkar S. A., Charan S. S., Moore E. R. B., Larsson D. G. J., Shouche Y. S.. ( 2013;). A treatment plant receiving waste water from multiple bulk drug manufacturers is a reservoir for highly multi-drug resistant integron-bearing bacteria. PLoS One 8: e77310 [CrossRef] [PubMed].
    [Google Scholar]
  13. Marathe N. P., Shetty S. A., Lanjekar V. B., Rasane M. H., Ranade D. R., Shouche Y. S.. ( 2014;). Genome sequencing of multidrug resistant novel Clostridium sp. BL8 reveals its potential for pathogenicity. Gut Pathog 6: 30 [CrossRef] [PubMed].
    [Google Scholar]
  14. Meier-Kolthoff J. P., Auch A. F., Klenk H. P., Göker M.. ( 2013;). Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 14: 60 [CrossRef] [PubMed].
    [Google Scholar]
  15. MIDI. ( 1999;). Sherlock Microbial Identification System Operating Manual, version 3.0. Newark. DE: MIDI, Inc;.
  16. Pidiyar V. J., Jangid K., Patole M. S., Shouche Y. S.. ( 2004;). Studies on cultured and uncultured microbiota of wild Culex quinquefasciatus mosquito midgut based on 16s ribosomal RNA gene analysis. Am J Trop Med Hyg 70: 597–603 [PubMed].
    [Google Scholar]
  17. Rainey F. A., Hollen B. J., Small A.. ( 2009;). Genus I. Clostridium. Prazmowski 1880, 23AL. . In Bergey's Manual of Systematic Bacteriology, 2nd edn.., vol. 3 (The Firmicutes), pp. 738–828. Edited by Vos P., Garrity G. M., Jones D., Krieg N. R., Ludwig W., Rainey F. A., Schleifer K. H., Whitman W. B.. New York: Springer;.
    [Google Scholar]
  18. Saitou N., Nei M.. ( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4: 406–425 [PubMed].
    [Google Scholar]
  19. Sallam A., Steinbüchel A.. ( 2009;). Clostridium sulfidigenes sp. nov., a mesophilic, proteolytic, thiosulfate- and sulfur-reducing bacterium isolated from pond sediment. Int J Syst Evol Microbiol 59: 1661–1665 [CrossRef] [PubMed].
    [Google Scholar]
  20. Sambrook J., Russell D. W.. ( 2000;). Molecular Cloning: a Laboratory Manual, pp. 1.32–1.371, 3rd edn.., Cold Spring Harbor, NY: Cold Spring Harbor Laboratory;.
    [Google Scholar]
  21. Shetty S. A., Marathe N. P., Lanjekar V., Ranade D., Shouche Y. S.. ( 2013;). Comparative genome analysis of Megasphaera sp. reveals niche specialization and its potential role in the human gut. PLoS One 8: e79353 [CrossRef] [PubMed].
    [Google Scholar]
  22. Stackebrandt E., Ebers J.. ( 2006;). Taxonomic parameters revisited: tarnished gold standards. Microbiol Today 33: 152–155.
    [Google Scholar]
  23. Stackebrandt E., Goebel B. M.. ( 1994;). Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44: 846–849 [CrossRef].
    [Google Scholar]
  24. Suau A., Bonnet R., Sutren M., Godon J. J., Gibson G. R., Collins M. D., Doré J.. ( 1999;). Direct analysis of genes encoding 16S rRNA from complex communities reveals many novel molecular species within the human gut. Appl Environ Microbiol 65: 4799–4807 [PubMed].
    [Google Scholar]
  25. Sun L., Wang Y., Yu C., Zhao Y., Gan Y.. ( 2012;). Genome sequence of Clostridium tunisiense TJ, isolated from drain sediment from a pesticide factory. J Bacteriol 194: 6950–6951 [CrossRef] [PubMed].
    [Google Scholar]
  26. Tamura K., Dudley J., Nei M., Kumar S.. ( 2007;). mega4: molecular evolutionary genetics analysis (mega) software version 4.0. Mol Biol Evol 24: 1596–1599 [CrossRef] [PubMed].
    [Google Scholar]
  27. Thabet O. B. D., Fardeau M.-L., Joulian C., Thomas P., Hamdi M., Garcia J.-L., Ollivier B.. ( 2004;). Clostridium tunisiense sp. nov., a new proteolytic, sulfur-reducing bacterium isolated from an olive mill wastewater contaminated by phosphogypse. Anaerobe 10: 185–190 [CrossRef] [PubMed].
    [Google Scholar]
  28. Thakker C., Suresh B., Ranade D. R.. ( 2006;). Formation of succinic acid by Klebsiella pneumoniae MCM B-325 under aerobic and anaerobic conditions. J Microbiol Biotechnol 16: 870–879.
    [Google Scholar]
  29. Thompson J. D., Higgins D. G., Gibson T. J.. ( 1994;). clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22: 4673–4680 [CrossRef] [PubMed].
    [Google Scholar]
  30. Wayne L. G., Brenner D. J., Colwell R. R., Grimont P. A. D., Kandler O., Krichevsky M. I., Moore L. H., Moore W. E. C., Murray R. G. E., other authors. ( 1987;). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37: 463–464 [CrossRef].
    [Google Scholar]
  31. Wiegel J.. ( 2009;). Family I Clostridiaceae. In Bergey's Manual of Systematic Bacteriology, 2nd edn.vol. 3 The Firmicutes. pp. 736–851. Edited by Vos P., Garrity G. M., Jones D., Kreig N. R., Ludwig W., Rainey F. A., Schleifer K., Whitman W. B.. New York: Springer;.
  32. Xu H. X., Kawamura Y., Li N., Zhao L., Li T. M., Li Z. Y., Shu S., Ezaki T.. ( 2000;). A rapid method for determining the G+C content of bacterial chromosomes by monitoring fluorescence intensity during DNA denaturation in a capillary tube. Int J Syst Evol Microbiol 50: 1463–1469 [CrossRef] [PubMed].
    [Google Scholar]
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