1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 65, Issue Pt_3

sp. nov., a methanogen isolated from deep marine sediment at the deformation front area near Taiwan Free

Abstract

A mesophilic, hydrogenotrophic methanogen, strain CYW4, was isolated from deep-sea sediment obtained by the Ocean Researcher I cruiser, ORI-961, in 2011. The sediment was from the deformation front area offshore of south-western Taiwan. Here, seismic reflections indicated that methane hydrates were abundant. The methanogenic substrates utilized by strain CYW4 were formate and H/CO, but not acetate, secondary alcohols, methylamines, methanol and ethanol. Cells of strain CYW4 were non-motile, irregular cocci and 0.6–1.5 µm in diameter. The S-layer protein had an of 112 000. The optimum growth conditions were at 37 °C, pH 8.1 and 0.08 M NaCl. Growth of the strain was stimulated by acetate. The G+C content of the chromosomal DNA of strain CYW4 was 61 mol%. Phylogenetic analysis revealed that strain CYW4 was most closely related to JR1 (96.82 % 16S rRNA gene sequence similarity). Based on the morphological, phenotypic and phylogenetic characteristics presented here, it is evident that strain CYW4 represents a novel species of the genus , and the name sp. nov. is proposed. The type strain is CYW4 ( = BCRC AR10043 = NBRC 110782). The optical density of cultures of strain CYW4 dropped abruptly upon entering the stationary growth phase. During this time numerous particles of approximately 50 nm in diameter were observed on and around the cells. This suggests that strain CYW4 harbours a lytic virus that is induced in the stationary phase, which is of interest because only a few lytic viruses have been reported in methanogens.

  • Published Online:
Funding
This study was supported by the:
  • Ministry of Education, Taiwan, R.O.C. under the ATU plan
  • Central Geological Survey, MOEA (Award 100-5226904000- 02-03)
  • National Science Council (Award NSC102-3113-P-005-002)
  • Ministry of Science and Technology Taiwan, R.O.C (Award MOST103-3113 M-005-001)
© 2015 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.000062
2015-03-01
2024-12-12
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/3/1044.html?itemId=/content/journal/ijsem/10.1099/ijs.0.000062&mimeType=html&fmt=ahah

References

  1. Balch W. E., Fox G. E., Magrum L. J., Woese C. R., Wolfe R. S. ( 1979 ). Methanogens: reevaluation of a unique biological group. . Microbiol Rev 43, 260–296.[PubMed]
    [Google Scholar]
  2. Bize A., Karlsson E. A., Ekefjärd K., Quax T. E. F., Pina M., Prevost M. C., Forterre P., Tenaillon O., Bernander R., Prangishvili D. ( 2009 ). A unique virus release mechanism in the Archaea. . Proc Natl Acad Sci U S A 106, 11306–11311. [View Article] [PubMed]
    [Google Scholar]
  3. Cheng L., Qiu T. L., Li X., Wang W. D., Deng Y., Yin X. B., Zhang H. ( 2008 ). Isolation and characterization of Methanoculleus receptaculi sp. nov. from Shengli oil field, China. . FEMS Microbiol Lett 285, 65–71. [View Article] [PubMed]
    [Google Scholar]
  4. Chuang P.-C., Yang T. F., Hong W.-L., Lin S., Sun C.-H., Lin A. T.-S., Chen J.-C., Wang Y., Chung S.-H. ( 2010 ). Estimation of methane flux offshore SW Taiwan and the influence of tectonics on gas hydrate accumulation. . Geofluids 10, 497–510. [View Article]
    [Google Scholar]
  5. Dianou D., Miyaki T., Asakawa S., Morii H., Nagaoka K., Oyaizu H., Matsumoto S. ( 2001 ). Methanoculleus chikugoensis sp. nov., a novel methanogenic archaeon isolated from paddy field soil in Japan, and DNA-DNA hybridization among Methanoculleus species. . Int J Syst Evol Microbiol 51, 1663–1669. [View Article] [PubMed]
    [Google Scholar]
  6. Ferguson T. J., Mah R. A. ( 1983 ). Isolation and characterization of an H2-oxidizing thermophilic methanogen. . Appl Environ Microbiol 45, 265–274.
    [Google Scholar]
  7. Jarrell K. F., Faguy D., Hebert A. M., Kalmokoff M. L. ( 1992 ). A general method of isolating high molecular weight DNA from methanogenic archaea (archaebacteria). . Can J Microbiol 38, 65–68. [View Article] [PubMed]
    [Google Scholar]
  8. König H. ( 1995 ). Isolation and analysis of cell walls from methanogenic archaea. . In Archaea: A Laboratory Manual , vol. 2, Methanogens, pp. 315–328. Edited by Sowers K. R., Schreier H. T. . Cold Spring Habor, NY:: Cold Spring Harbor Laboratory;.
     [Google Scholar]
  9. Laemmli U. K. ( 1970 ). Cleavage of structural proteins during the assembly of the head of bacteriophage T4. . Nature 227, 680–685. [View Article] [PubMed]
    [Google Scholar]
  10. Lai M. C., Chen S. C. ( 2001 ). Methanofollis aquaemaris sp. nov., a methanogen isolated from an aquaculture fish pond. . Int J Syst Evol Microbiol 51, 1873–1880. [View Article] [PubMed]
    [Google Scholar]
  11. Lai M. C., Shih C. J. ( 2001 ). Characterization of Methanococcus voltaei strain P2F9701a: a new methanogen isolated from estuarine environment. . Curr Microbiol 42, 432–437. [View Article] [PubMed]
    [Google Scholar]
  12. Lai M. C., Yang D. R., Chuang M. J. ( 1999 ). Regulatory factors associated with synthesis of the osmolyte glycine betaine in the halophilic methanoarchaeon Methanohalophilus portucalensis . . Appl Environ Microbiol 65, 828–833.[PubMed]
    [Google Scholar]
  13. Lai M. C., Chen S. C., Shu C. M., Chiou M. S., Wang C. C., Chuang M. J., Hong T. Y., Liu C. C., Lai L. J., Hua J. J. ( 2002 ). Methanocalculus taiwanensis sp. nov., isolated from an estuarine environment. . Int J Syst Evol Microbiol 52, 1799–1806. [View Article] [PubMed]
    [Google Scholar]
  14. Lai M. C., Lin C. C., Yu P. H., Huang Y. F., Chen S. C. ( 2004 ). Methanocalculus chunghsingensis sp. nov., isolated from an estuary and a marine fishpond in Taiwan. . Int J Syst Evol Microbiol 54, 183–189. [View Article] [PubMed]
    [Google Scholar]
  15. Lin C. C., Lin A. T. S., Liu C. S., Horng C. S., Chen G. Y., Wang Y. ( 2013 ). Canyon-infilling and gas hydrate occurrences in the frontal fold of the offshore accretionary wedge off southern Taiwan. . Mar Geophys Res 35, 21–35. [View Article]
    [Google Scholar]
  16. Liu C. S., Huang I. L., Teng L. S. ( 1997 ). Structural features off southwestern Taiwan. . Mar Geol 137, 305–319. [View Article]
    [Google Scholar]
  17. Liu C. S., Schnürle P., Wang Y., Chung S. H., Chen S. C., Hsiuan T. H. ( 2006 ). Distribution and characters of gas hydrate offshore of Southwestern Taiwan. . Terr Atmos Ocean Sci 17, 615–644.
     [Google Scholar]
  18. Matsumoto R., Tomaru H., Lu H. ( 2004 ). Detection and evaluation of gas hydrates in the eastern Nankai Trough by geochemical and geophysical methods. . Resour Geol 54, 53–67. [View Article]
    [Google Scholar]
  19. Mesbah M., Premachandran U., Whitman W. B. ( 1989 ). Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. . Int J Syst Bacteriol 39, 159–167. [View Article]
    [Google Scholar]
  20. Mikucki J. A., Liu Y., Delwiche M., Colwell F. S., Boone D. R. ( 2003 ). Isolation of a methanogen from deep marine sediments that contain methane hydrates, and description of Methanoculleus submarinus sp. nov.. Appl Environ Microbiol 69, 3311–3316. [View Article] [PubMed]
    [Google Scholar]
  21. Ollivier B. M., Mah R. A., Garcia J. L., Boone D. R. ( 1986 ). Isolation and characterization of Methanogenium bourgense sp. nov.. Int J Syst Bacteriol 36, 297–301. [View Article]
    [Google Scholar]
  22. Rivard C. J., Smith P. H. ( 1982 ). Isolation and characterization of a thermophilic marine methanogenic bacterium, Methanogenium thermophilicum sp. nov.. Int J Syst Bacteriol 32, 430–436. [View Article]
    [Google Scholar]
  23. Romesser J. A., Wolfe R. S., Mayer F., Spiess E., Walther-Mauruschat A. ( 1979 ). Methanogenium, a new genus of marine methanogenic bacteria, and characterization of Methanogenium cariaci sp. nov. and Methanogenium marisnigri sp. nov.. Arch Microbiol 121, 147–153. [View Article]
    [Google Scholar]
  24. Shimizu S., Ueno A., Tamamura S., Naganuma T., Kaneko K. ( 2013 ). Methanoculleus horonobensis sp. nov., a methanogenic archaeon isolated from a deep diatomaceous shale formation. . Int J Syst Evol Microbiol 63, 4320–4323. [View Article] [PubMed]
    [Google Scholar]
  25. Sowers K. R., Noll K. M. ( 1995 ). Techniques for anaerobic growth. . In Archaea: A Laboratory Manual, vol. 2, Methanogens, pp. 15–48. Edited by Sower K. R. s & Schreier H. T. . Cold Spring Harbor, NY:: Cold Spring Harbor Laboratory;.
     [Google Scholar]
  26. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. ( 2013 ). mega6: molecular evolutionary genetics analysis version 6.0. . Mol Biol Evol 30, 2725–2729. [View Article] [PubMed]
    [Google Scholar]
  27. Tian J., Wang Y., Dong X. ( 2010 ). Methanoculleus hydrogenitrophicus sp. nov., a methanogenic archaeon isolated from wetland soil. . Int J Syst Evol Microbiol 60, 2165–2169. [View Article] [PubMed]
    [Google Scholar]
  28. Utsumi M., Belova S. E., King G. M., Uchiyama H. ( 2003 ). Phylogenetic comparison of methanogen diversity in different wetland soils. . J Gen Appl Microbiol 49, 75–83. [View Article] [PubMed]
    [Google Scholar]
  29. Wolin E. A., Wolin M. J., Wolfe R. S. ( 1963 ). Formation of methane by bacterial extracts. . J Biol Chem 238, 2882–2886.[PubMed]
    [Google Scholar]
  30. Wu S. Y., Lai M. C. ( 2011 ). Methanogenic archaea isolated from Taiwan’s Chelungpu fault. . Appl Environ Microbiol 77, 830–838. [View Article] [PubMed]
    [Google Scholar]
  31. Wu S. Y., Chen S. C., Lai M. C. ( 2005 ). Methanofollis formosanus sp. nov., isolated from a fish pond. . Int J Syst Evol Microbiol 55, 837–842. [View Article] [PubMed]
    [Google Scholar]
  32. Zellner G., Messner P., Winter J., Stackebrandt E. ( 1998 ). Methanoculleus palmolei sp. nov., an irregularly coccoid methanogen from an anaerobic digester treating wastewater of a palm oil plant in North-Sumatra, Indonesia. . Int J Syst Bacteriol 48, 1111–1117. [View Article] [PubMed]
    [Google Scholar]
/content/journal/ijsem/10.1099/ijs.0.000062
Loading
Methanoculleus taiwanensis sp. nov., a methanogen isolated from deep marine sediment at the deformation front area near Taiwan
Int J Syst Evol Microbiol 65, 1044 (2015); https://doi.org/10.1099/ijs.0.000062
/content/journal/ijsem/10.1099/ijs.0.000062
/content/journal/ijsem/10.1099/ijs.0.000062
Loading

Data & Media loading...

Supplements

Supplementary Data

PDF

Most cited Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error