1887

Abstract

A novel anaerobic, mesophilic, heterotrophic bacterium, designated strain DY2726D, was isolated from West Pacific Ocean sediments. Cells were long rods (0.5–0.8 µm wide, 4–15 µm long), Gram-positive and motile by means of flagella. The temperature and pH ranges for growth were 25–40 °C and pH 6.5–9.0, while optimal growth occurred at 37 °C and pH 7.5, with a generation time of 76 min. The strain required sea salts for growth at concentrations from 10 to 30 g l (optimum at 20 g l). Substrates used as carbon sources were yeast extract, tryptone, glucose, cellobiose, starch, gelatin, dextrin, fructose, fucose, galactose, galacturonic acid, gentiobiose, glucosaminic acid, mannose, melibiose, palatinose and rhamnose. Products of fermentation were carbon dioxide, acetic acid and butyric acid. Strain DY2726D was able to reduce amorphous iron hydroxide, goethite, amorphous iron oxides, anthraquinone-2,6-disulfonate and crotonate, but did not reduce sulfur, sulfate, thiosulfate, sulfite or nitrate. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain DY2726D was affiliated to the family and was most closely related to the type strains of (90.0 % similarity) and (89.6 %). The genomic DNA G+C content was 33.4 mol%. The major cellular fatty acids of strain DY2726D were C, C and C. On the basis of its phenotypic and genotypic properties, strain DY2726D is suggested to represent a novel species of a new genus in the family , for which the name gen. nov., sp. nov. is proposed. The type strain of is DY2726D (=JCM 30224=MCCC 1A00776).

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2017-05-01
2024-04-18
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References

  1. Zengler K, Toledo G, Rappe M, Elkins J, Mathur EJ et al. Cultivating the uncultured. Proc Natl Acad Sci USA 2002; 99:15681–15686 [View Article][PubMed]
    [Google Scholar]
  2. Pettit RK. Culturability and secondary metabolite diversity of extreme microbes: expanding contribution of deep sea and deep-sea vent microbes to natural product discovery. Mar Biotechnol 2011; 13:1–11 [View Article][PubMed]
    [Google Scholar]
  3. Gärtner A, Blümel M, Wiese J, Imhoff JF. Isolation and characterisation of bacteria from the Eastern Mediterranean deep sea. Antonie van Leeuwenhoek 2011; 100:421–435 [View Article][PubMed]
    [Google Scholar]
  4. da Silva MA, Cavalett A, Spinner A, Rosa DC, Jasper RB et al. Phylogenetic identification of marine bacteria isolated from deep-sea sediments of the eastern South Atlantic Ocean. Springerplus 2013; 2:127 [View Article][PubMed]
    [Google Scholar]
  5. Arnosti C, Repeta DJ. Oligosaccharide degradation by anaerobic marine bacteria: characterization of an experimental system to study polymer degradation in sediments. Limnol Oceanogr 1994; 39:1865–1877 [View Article]
    [Google Scholar]
  6. Wiegel J. Family I. Clostridiaceae Pribram 1933, 90AL. In Bergey’s Manual of Systematic Bacteriology, 3rd ed. vol. 3 2009 pp. 736–804
    [Google Scholar]
  7. Takai K, Moser DP, Onstott TC, Spoelstra N, Pfiffner SM et al. Alkaliphilus transvaalensis gen. nov., sp. nov., an extremely alkaliphilic bacterium isolated from a deep South African gold mine. Int J Syst Evol Microbiol 2001; 51:1245–1256 [View Article][PubMed]
    [Google Scholar]
  8. Brisbarre N, Fardeau ML, Cueff V, Cayol JL, Barbier G et al. Clostridium caminithermale sp. nov., a slightly halophilic and moderately thermophilic bacterium isolated from an Atlantic deep-sea hydrothermal chimney. Int J Syst Evol Microbiol 2003; 53:1043–1049 [View Article][PubMed]
    [Google Scholar]
  9. Stieb M, Schink B. Anaerobic oxidation of fatty acids by Clostridium bryantii sp. nov., a sporeforming, obligately syntrophic bacterium. Arch Microbiol 1985; 140:387–390 [View Article]
    [Google Scholar]
  10. Oren A. Clostridium lortetii sp. nov., a halophilic obligatory anaerobic bacterium producing endospores with attached gas vacuoles. Arch Microbiol 1983; 136:42–48 [View Article]
    [Google Scholar]
  11. Smith LD. Clostridium oceanicum sp. nov., a sporeforming anaerobe isolated from marine sediments. J Bacteriol 1970; 103:811–813[PubMed]
    [Google Scholar]
  12. Fendrich C, Hippe H, Gottschalk G. Clostridium halophilium sp. nov. and C. litorale sp. nov., an obligate halophilic and a marine species degrading betaine in the Stickland reaction. Arch Microbiol 1990; 154:127–132 [View Article]
    [Google Scholar]
  13. Wery N, Moricet JM, Cueff V, Jean J, Pignet P et al. Caloranaerobacter azorensis gen. nov., sp. nov., an anaerobic thermophilic bacterium isolated from a deep-sea hydrothermal vent. Int J Syst Evol Microbiol 2001; 51:1789–1796 [View Article][PubMed]
    [Google Scholar]
  14. Alain K, Pignet P, Zbinden M, Quillevere M, Duchiron F et al. Caminicella sporogenes gen. nov., sp. nov., a novel thermophilic spore-forming bacterium isolated from an East-Pacific Rise hydrothermal vent. Int J Syst Evol Microbiol 2002; 52:1621–1628 [View Article][PubMed]
    [Google Scholar]
  15. Li G, Zeng X, Liu X, Zhang X, Shao Z. Wukongibacter baidiensis gen. nov., sp. nov., an anaerobic bacterium isolated from hydrothermal sulfides, and proposal for the reclassification of the closely related Clostridium halophilum and Clostridium caminithermale within Maledivibacter gen. nov. and Paramaledivibacter gen. nov., respectively. Int J Syst Evol Microbiol 2016; 66:4355–4361 [View Article][PubMed]
    [Google Scholar]
  16. Baross JA. Isolation, growth and maintenance of hyperthermophiles. In Robb FT, Place AR. (editors) Archaea: A Laboratory Manual. Thermophiles Cold Spring Harbor, New York: Cold Spring Harbor Laboratory; 1995 pp. 15–23
    [Google Scholar]
  17. Ryu E. On the gram-differentiation of bacteria by the simplest method. J Jpn Soc Vet Sci 1938; 17:205–207 [View Article]
    [Google Scholar]
  18. Halebian S, Harris B, Finegold SM, Rolfe RD. Rapid method that aids in distinguishing Gram-positive from gram-negative anaerobic bacteria. J Clin Microbiol 1981; 13:444–448[PubMed]
    [Google Scholar]
  19. Nisman B. The stickland reaction. Bacteriol Rev 1954; 18:16[PubMed]
    [Google Scholar]
  20. Lovley DR, Phillips EJ. Organic matter mineralization with reduction of ferric iron in anaerobic sediments. Appl Environ Microbiol 1986; 51:683–689[PubMed]
    [Google Scholar]
  21. Trueper HG, Schlegel HG. Sulphur metabolism in Thiorhodaceae. I. Quantitative measurements on growing cells of Chromatium okenii. Antonie van Leeuwenhoek 1964; 30:225–238 [View Article][PubMed]
    [Google Scholar]
  22. Benson HJ. Microbiological applications. A Laboratory Manual in General Microbiology Boston: McGraw-Hill Higher Education; 2002
    [Google Scholar]
  23. Bader J, Günther H, Schleicher E, Simon H, Pohl S et al. Utilization of (E)-2-butenoate (crotonate) by Clostridium kluyveri and some other Clostridium species. Arch Microbiol 1980; 125:159–165 [View Article][PubMed]
    [Google Scholar]
  24. Newman DK, Kolter R. A role for excreted quinones in extracellular electron transfer. Nature 2000; 405:94–97 [View Article][PubMed]
    [Google Scholar]
  25. Widdel F, Kohring G-W, Mayer F. Studies on dissimilatory sulfate-reducing bacteria that decompose fatty acids. Arch Microbiol 1983; 134:286–294 [View Article]
    [Google Scholar]
  26. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
    [Google Scholar]
  27. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2:233–241 [View Article]
    [Google Scholar]
  28. Mesbah M, Premachandranp U, Whitman WB. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 1989; 39:159–167 [View Article]
    [Google Scholar]
  29. Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997; 25:3389–3402 [View Article][PubMed]
    [Google Scholar]
  30. Zhang Z, Schwartz S, Wagner L, Miller W. A greedy algorithm for aligning DNA sequences. J Comput Biol 2000; 7:203–214 [View Article][PubMed]
    [Google Scholar]
  31. Parte AC. LPSN-list of prokaryotic names with standing in nomenclature. Nucleic Acids Res 2014; 42:D613–D616 [View Article][PubMed]
    [Google Scholar]
  32. Chun J, Lee JH, Jung Y, Kim M, Kim S et al. EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 2007; 57:2259–2261 [View Article][PubMed]
    [Google Scholar]
  33. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012; 62:716–721 [View Article][PubMed]
    [Google Scholar]
  34. Larkin MA, Blackshields G, Brown NP, Chenna R, Mcgettigan PA et al. CLUSTAL W and CLUSTAL X version 2.0. Bioinformatics 2007; 23:2947–2948 [View Article][PubMed]
    [Google Scholar]
  35. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011; 28:2731–2739 [View Article][PubMed]
    [Google Scholar]
  36. Yarza P, Yilmaz P, Pruesse E, Glöckner FO, Ludwig W et al. Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences. Nat Rev Microbiol 2014; 12:635–645 [View Article][PubMed]
    [Google Scholar]
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