sp. nov., a slightly halophilic, methylotrophic methanogen isolated from natural gas-bearing deep aquifers, and emended description of the genus Free

Abstract

A mesophilic, slightly halophilic, obligately methylotrophic, methanogenic archaeon, designated strain GTA13, was isolated from natural gas-bearing confined aquifers in the Minami-Kanto gas field, Japan. The cells were non-motile, slightly irregular cocci, 0.7–1.0 µm in diameter and occurred singly, in pairs or as small aggregates. The cells grew with tri- or dimethylamine but not with H/CO, formate, acetate, methanol or dimethyl sulphide. Vitamins, sodium and magnesium were required for growth. Optimal growth occurred at pH 7.0–7.5, 35 °C, 0.35–0.40 M NaCl and 15–50 mM MgCl. The NaCl range for growth was 0.2–1.3 M. The DNA G+C content was 43.7 mol%. Strain GTA13 showed highest levels of 16S rRNA gene sequence similarity with FDF-1 (96.4 % sequence similarity) and DSM 3094 (96.0 %). On the basis of physiological and phylogenetic features, strain GTA13 is considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is GTA13 ( = NBRC 110099 = DSM 28452). An emended description of the genus is also proposed.

Funding
This study was supported by the:
  • Japan Oil, Gas and Metals National Corporation (JOGMEC)
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2014-06-01
2024-03-29
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References

  1. Boone D. R. ( 2001 ). Genus IV. Methanohalophilus Paterek and Smith 1988, 122VP . . In Bergey’s Manual of Systematic Bacteriology, , 2nd edn., vol. 1, The Archaea and the Deeply Branching and Phototrophic Bacteria, pp. 281283. Boone D. R., Castenholz R. W., Garrity G. M. New York:: Springer;. [View Article]
    [Google Scholar]
  2. Boone D. R., Whitman W. B. ( 1988 ). Proposal of minimal standards for describing new taxa of methanogenic bacteria. . Int J Syst Bacteriol 38, 212219. [View Article]
    [Google Scholar]
  3. Boone D. R., Mathrani I. M., Liu Y. T., Menaia J. A. G. F., Mah R. A., Boone J. E. ( 1993 ) . Isolation and characterization of methanohalophilus portucalensis sp. nov. and DNA reassociation study of the genus methanohalophilus. . Int J Syst Bacteriol 43, 430437. [View Article]
    [Google Scholar]
  4. Cheng L., Qiu T. L., Yin X. B., Wu X. L., Hu G. Q., Deng Y., Zhang H. ( 2007 ). Methermicoccus shengliensis gen. nov., sp. nov., a thermophilic, methylotrophic methanogen isolated from oil-production water, and proposal of Methermicoccaceae fam. nov.. Int J Syst Evol Microbiol 57, 29642969. [View Article] [PubMed]
    [Google Scholar]
  5. Dawson K. S., Strąpoć D., Huizinga B., Lidstrom U., Ashby M., Macalady J. L. ( 2012 ). Quantitative fluorescence in situ hybridization analysis of microbial consortia from a biogenic gas field in Alaska’s Cook Inlet basin. . Appl Environ Microbiol 78, 35993605. [View Article] [PubMed]
    [Google Scholar]
  6. Doerfert S. N., Reichlen M., Iyer P., Wang M., Ferry J. G. ( 2009 ). Methanolobus zinderi sp. nov., a methylotrophic methanogen isolated from a deep subsurface coal seam. . Int J Syst Evol Microbiol 59, 10641069. [View Article] [PubMed]
    [Google Scholar]
  7. Guo H., Yu Z., Liu R., Zhang H., Zhong Q., Xiong Z. ( 2012 ). Methylotrophic methanogenesis governs the biogenic coal bed methane formation in Eastern Ordos Basin, China. . Appl Microbiol Biotechnol 96, 15871597. [View Article] [PubMed]
    [Google Scholar]
  8. Kanno M., Katayama T., Tamaki H., Mitani Y., Meng X. Y., Hori T., Narihiro T., Morita N., Hoshino T. & other authors ( 2013 ). Isolation of butanol- and isobutanol-tolerant bacteria and physiological characterization of their butanol tolerance. . Appl Environ Microbiol 79, 69987005. [View Article] [PubMed]
    [Google Scholar]
  9. L’Haridon S., Chalopin M., Colombo D., Toffin L. ( 2014 ). Methanococcoides vulcani sp. nov., a novel marine methylotrophic methanogen; using betaine, choline and N,N-dimethylethanolamine for methanogenesis, isoalted from the Napoli Mud Volcano in the Eastern Mediterranean Sea; and emendation of the genus Methanococcoides . . Int J Syst Evol Microbiol (in press). [View Article]
    [Google Scholar]
  10. Lyimo T. J., Pol A., Op den Camp H. J., Harhangi H. R., Vogels G. D. ( 2000 ). Methanosarcina semesiae sp. nov., a dimethylsulfide-utilizing methanogen from mangrove sediment. . Int J Syst Evol Microbiol 50, 171178. [View Article] [PubMed]
    [Google Scholar]
  11. Mochimaru H., Uchiyama H., Yoshioka H., Imachi H., Hoaki T., Tamaki H., Nakamura K., Sekiguchi Y., Kamagata Y. ( 2007 ). Methanogen diversity in deep subsurface gas-associated water at the Minami-kanto gas field in Japan. . Geomicrobiol J 24, 93100. [View Article]
    [Google Scholar]
  12. Mochimaru H., Tamaki H., Hanada S., Imachi H., Nakamura K., Sakata S., Kamagata Y. ( 2009 ). Methanolobus profundi sp. nov., a methylotrophic methanogen isolated from deep subsurface sediments in a natural gas field. . Int J Syst Evol Microbiol 59, 714718. [View Article] [PubMed]
    [Google Scholar]
  13. Ollivier B., Caumette P., Garcia J. L., Mah R. A. ( 1994 ). Anaerobic bacteria from hypersaline environments. . Microbiol Rev 58, 2738.[PubMed]
    [Google Scholar]
  14. Paterek J. R., Smith P. H. ( 1988 ). Methanohalophilus mahii gen. nov., sp. nov., a methylotrophic halophilic methanogen. . Int J Syst Bacteriol 38, 122123. [View Article]
    [Google Scholar]
  15. Sekiguchi Y., Kamagata Y., Nakamura K., Ohashi A., Harada H. ( 2000 ). Syntrophothermus lipocalidus gen. nov., sp. nov., a novel thermophilic, syntrophic, fatty-acid-oxidizing anaerobe which utilizes isobutyrate. . Int J Syst Evol Microbiol 50, 771779. [View Article] [PubMed]
    [Google Scholar]
  16. Shimizu S., Akiyama M., Naganuma T., Fujioka M., Nako M., Ishijima Y. ( 2007 ). Molecular characterization of microbial communities in deep coal seam groundwater of northern Japan. . Geobiology 5, 423433. [View Article]
    [Google Scholar]
  17. Shimizu S., Upadhye R., Ishijima Y., Naganuma T. ( 2011 ). Methanosarcina horonobensis sp. nov., a methanogenic archaeon isolated from a deep subsurface Miocene formation. . Int J Syst Evol Microbiol 61, 25032507. [View Article] [PubMed]
    [Google Scholar]
  18. Singh N., Kendall M. M., Liu Y., Boone D. R. ( 2005 ). Isolation and characterization of methylotrophic methanogens from anoxic marine sediments in Skan Bay, Alaska: description of Methanococcoides alaskense sp. nov., and emended description of Methanosarcina baltica . . Int J Syst Evol Microbiol 55, 25312538. [View Article] [PubMed]
    [Google Scholar]
  19. Strąpoć D., Ashby M., Wood L., Levinson R., Huizinga B. ( 2010 ). How specific microbial communities benefit the oil industry: significant contribution of methyl/methanol-utilising methanogenic pathway in a subsurface biogas environment. . In Applied Microbiology and Molecular Biology in Oilfield Systems, pp. 211216. Edited by Whitby C., Skovhus T. L. . Dordrecht:: Springer;. [View Article]
    [Google Scholar]
  20. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. ( 2011 ). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. . Mol Biol Evol 28, 27312739. [View Article] [PubMed]
    [Google Scholar]
  21. von Klein D., Arab H., Völker H., Thomm M. ( 2002 ). Methanosarcina baltica, sp. nov., a novel methanogen isolated from the Gotland Deep of the Baltic Sea. . Extremophiles 6, 103110. [View Article] [PubMed]
    [Google Scholar]
  22. Wawrik B., Mendivelso M., Parisi V. A., Suflita J. M., Davidova I. A., Marks C. R., Van Nostrand J. D., Liang Y., Zhou J. & other authors ( 2012 ). Field and laboratory studies on the bioconversion of coal to methane in the San Juan Basin. . FEMS Microbiol Ecol 81, 2642. [View Article] [PubMed]
    [Google Scholar]
  23. Wilharm T., Zhilina T. N., Hummel P. ( 1991 ). DNA-DNA Hybridization of methylotrophic halophilic methanogenic bacteria and transfer of Methanococcus halophilus vp to the genus Methanohalophilus as Methanohalophilus halophilus comb. nov.. Int J Syst Bacteriol 41, 558562. [View Article]
    [Google Scholar]
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