1887

Abstract

A novel, strictly anaerobic, methylotrophic marine methanogen, strain SLH33, was isolated from deep sediment samples covered by an orange microbial mat collected from the Napoli Mud Volcano. Cells of strain SLH33 were Gram-stain-negative, motile, irregular cocci that occurred singly. Cells utilized trimethylamine, dimethylamine, monomethylamine, methanol, betaine, ,-dimethylethanolamine and choline (,,-trimethylethanolamine) as substrates for growth and methanogenesis. The optimal growth temperature was 30 °C; maximum growth rate was obtained at pH 7.0 in the presence of 0.5 M Na. The DNA G+C content of strain SLH33 was 43.4 mol%. Phylogenetic analyses based on 16S rRNA gene sequences placed strain SLH33 within the genus . The novel isolate was related most closely to TMA-10 (98.8 % 16S rRNA gene sequence similarity) but distantly related to DSM 6242 (97.6 %) and AK-5 (97.6 %). DNA–DNA hybridization studies indicated that strain SLH33 represents a novel species, given that it shared less than 16 % DNA–DNA relatedness with TMA-10. The name sp. nov. is proposed for this novel species, with strain SLH33 ( = DSM 26966 = JCM 19278) as the type strain. An emended description of the genus is also proposed.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.058289-0
2014-06-01
2020-01-28
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/6/1978.html?itemId=/content/journal/ijsem/10.1099/ijs.0.058289-0&mimeType=html&fmt=ahah

References

  1. De Ley J., Cattoir H., Reynaerts A.. ( 1970;). The quantitative measurement of DNA hybridization from renaturation rates. . Eur J Biochem 12:, 133–142. [CrossRef][PubMed]
    [Google Scholar]
  2. Franzmann P. D., Springer N., Ludwig W., Demacario E. C., Rohde M.. ( 1992;). A methanogenic archaeon from Ace lake Antartica: Methanococcoides burtonii sp. nov.. Syst Appl Microbiol 15:, 573–581. [CrossRef]
    [Google Scholar]
  3. Garcia J. L., Patel B. K. C., Ollivier B.. ( 2000;). Taxonomic, phylogenetic, and ecological diversity of methanogenic Archaea. . Anaerobe 6:, 205–226. [CrossRef][PubMed]
    [Google Scholar]
  4. Hales B. A., Edwards C., Ritchie D. A., Hall G., Pickup R. W., Saunders J. R.. ( 1996;). Isolation and identification of methanogen-specific DNA from blanket bog peat by PCR amplification and sequence analysis. . Appl Environ Microbiol 62:, 668–675.[PubMed]
    [Google Scholar]
  5. Huß V. A., Festl H., Schleifer K. H.. ( 1983;). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. . Syst Appl Microbiol 4:, 184–192. [CrossRef][PubMed]
    [Google Scholar]
  6. Iino T., Tamaki H., Tamazawa S., Ueno Y., Ohkuma M., Suzuki K., Igarashi Y., Haruta S.. ( 2013;). Candidatus Methanogranum caenicola: a novel methanogen from the anaerobic digested sludge, and proposal of Methanomassiliicoccaceae fam. nov. and Methanomassiliicoccales ord. nov., for a methanogenic lineage of the class Thermoplasmata. . Microbes Environ 28:, 244–250. [CrossRef][PubMed]
    [Google Scholar]
  7. Kendall M., Boone D.. ( 2006;). The order Methanosarcinales. . In The Prokaryotes, pp. 244–256. Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K.-H., Stackebrandt E... New York:: Springer;. [CrossRef]
    [Google Scholar]
  8. Larkin M. A., Blackshields G., Brown N. P., Chenna R., McGettigan P. A., McWilliam H., Valentin F., Wallace I. M., Wilm A.. & other authors ( 2007;). clustal w and clustal_x version 2.0. . Bioinformatics 23:, 2947–2948. [CrossRef][PubMed]
    [Google Scholar]
  9. Lazar C. S., L’Haridon S., Pignet P., Toffin L.. ( 2011a;). Archaeal populations in hypersaline sediments underlying orange microbial mats in the Napoli mud volcano. . Appl Environ Microbiol 77:, 3120–3131. [CrossRef][PubMed]
    [Google Scholar]
  10. Lazar C. S., Parkes R. J., Cragg B. A., L’Haridon S., Toffin L.. ( 2011b;). Methanogenic diversity and activity in hypersaline sediments of the centre of the Napoli mud volcano, Eastern Mediterranean Sea. . Environ Microbiol 13:, 2078–2091. [CrossRef][PubMed]
    [Google Scholar]
  11. Lomans B. P., Maas R., Luderer R., Op den Camp H. J., Pol A., van der Drift C., Vogels G. D.. ( 1999;). Isolation and characterization of Methanomethylovorans hollandica gen. nov., sp. nov., isolated from freshwater sediment, a methylotrophic methanogen able to grow on dimethyl sulfide and methanethiol. . Appl Environ Microbiol 65:, 3641–3650.[PubMed]
    [Google Scholar]
  12. Ludwig W., Strunk O., Westram R., Richter L., Meier H., Yadhukumar, Buchner A., Lai T., Steppi S.. & other authors ( 2004;). arb: a software environment for sequence data. . Nucleic Acids Res 32:, 1363–1371. [CrossRef][PubMed]
    [Google Scholar]
  13. 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. [CrossRef]
    [Google Scholar]
  14. Oremland R. S., Taylor B. F.. ( 1978;). Sulfate reduction and methanogenesis in marine sediments. . Geochim Cosmochim Acta 42:, 209–214. [CrossRef]
    [Google Scholar]
  15. Pruesse E., Quast C., Knittel K., Fuchs B. M., Ludwig W., Peplies J., Glöckner F. O.. ( 2007;). silva: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with arb. . Nucleic Acids Res 35:, 7188–7196. [CrossRef][PubMed]
    [Google Scholar]
  16. 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]
  17. 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:, 2531–2538. [CrossRef][PubMed]
    [Google Scholar]
  18. Sowers K. R.. ( 2000;). Genus II. Methanococcoides. . In the Bergey's Manual of Systematic Bacteriology, , 2nd edn., vol. 1, pp 276–278. Edited by Boone D. R., Castenholz R. W., Garrity G. M... New York:: Springer;.
  19. Sowers K. R., Ferry J. G.. ( 1983;). Isolation and characterization of a methylotrophic marine methanogen, Methanococcoides methylutens gen. nov., sp. nov.. Appl Environ Microbiol 45:, 684–690.[PubMed]
    [Google Scholar]
  20. Sprenger W. W., van Belzen M. C., Rosenberg J., Hackstein J. H. P., Keltjens J. T.. ( 2000;). Methanomicrococcus blatticola gen. nov., sp. nov., a methanol- and methylamine-reducing methanogen from the hindgut of the cockroach Periplaneta americana. . Int J Syst Evol Microbiol 50:, 1989–1999. [CrossRef][PubMed]
    [Google Scholar]
  21. Stackebrandt E., Ebers J.. ( 2006;). Taxonomic parameters revisited: tarnished gold standards. . Microbiol Today 33:, 152–155.
    [Google Scholar]
  22. Stamatakis A.. ( 2006;). RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. . Bioinformatics 22:, 2688–2690. [CrossRef][PubMed]
    [Google Scholar]
  23. 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]
  24. Teske A., Hinrichs K.-U., Edgcomb V., de Vera Gomez A., Kysela D., Sylva S. P., Sogin M. L., Jannasch H. W.. ( 2002;). Microbial diversity of hydrothermal sediments in the Guaymas Basin: evidence for anaerobic methanotrophic communities. . Appl Environ Microbiol 68:, 1994–2007. [CrossRef][PubMed]
    [Google Scholar]
  25. Watkins A. J., Roussel E. G., Webster G., Parkes R. J., Sass H.. ( 2012;). Choline and N,N-dimethylethanolamine as direct substrates for methanogens. . Appl Environ Microbiol 78:, 8298–8303. [CrossRef][PubMed]
    [Google Scholar]
  26. 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]
  27. Yu I. K., Kawamura F.. ( 1987;). Halomethanococcus doii gen. nov., sp. nov., an obligately halophilic methanogenium bacterium from solar salt ponds. . J Gen Appl Microbiol 33:, 303–310. [CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.058289-0
Loading
/content/journal/ijsem/10.1099/ijs.0.058289-0
Loading

Data & Media loading...

Supplements

Supplementary Material 

PDF

Most cited articles

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