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

International Journal of Systematic and Evolutionary Microbiology

Volumn 55, Issue 6, 2005, Pages 2531-2538

  Singh, Neha ^a   Kendall, Melissa M ^a   Liu, Yitai ^a   Boone, David R ^a  

^a PORTLAND STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; METHANOL; PEPTONE; RNA 16S; SEA WATER; SULFATE; TRIMETHYLAMINE;

ARTICLE; BACTERIAL GROWTH; BACTERIAL STRAIN; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATION; CATABOLISM; CELL GROWTH; CONTROLLED STUDY; CULTURE MEDIUM; DNA DNA HYBRIDIZATION; GENE SEQUENCE; GENUS; HALOPHILIC BACTERIUM; MARINE ENVIRONMENT; METHANOBACTERIUM; METHANOCOCCOIDES ALASKENSE; METHANOCOCCUS; METHANOSARCINA; METHANOSARCINA BALTICA; METHYLOTROPHIC BACTERIUM; NEW SPECIES; NOMENCLATURE; NONHUMAN; NUCLEOTIDE SEQUENCE; PH MEASUREMENT; PRIORITY JOURNAL; REDUCTION; SEDIMENT; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; SPECIES CULTIVATION; TEMPERATURE MEASUREMENT; UNITED STATES; WATER SAMPLING; YEAST;

ALASKA; COLD; CULTURE MEDIA; DNA, RIBOSOMAL; GEOLOGIC SEDIMENTS; HYDROGEN; KINETICS; METHANE; METHANOMICROBIACEAE; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; RNA, RIBOSOMAL, 16S; SEAWATER;

BACTERIA (MICROORGANISMS); METHANOBACTERIUM; METHANOCOCCOIDES; METHANOCOCCOIDES BURTONII; METHANOCOCCUS; METHANOSARCINA; METHANOSARCINA BALTICA;

EID: 27844477243     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.63886-0     Document Type: Article

References (37)

1. Barker, H. A. (1936). Studies upon the methane-producing bacteria. Arch Microbiol 7, 420-438.
2. Boone, D. R., Whitman, W. B. & Rouvière, P. E. (1993). Diversity and taxonomy of methanogens. In Methanogenesis: Ecology, Physiology, Biochemistry and Genetics, pp. 35-80. Edited by J. G. Ferry. New York: Chapman & Hall.
3. T), the type strain of Methanosarcina barkeri. Int J Syst Bacteriol 37, 169-170.
4. De Ley, J., Cattoir, H. & Reynaerts, A. (1970). The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12, 133-142.
5. Elberson, M. A. & Sowers, K. R. (1997). Isolation of an aceticlastic strain of Methanosarcina siciliae from marine canyon sediments and emendation of the species description for Methanosarcina siciliae. Int J Syst Bacteriol 47, 1258-1261.
6. Fiala, G. & Stetter, K. O. (1986). Pyrococcus furiosus sp. nov. represents a novel genus of marine heterotrophic archaebacteria growing optimally at 100 °C. Arch Microbiol 145, 56-61.
7. Franzmann, P. D., Springer, N., Ludwig, W., Conway de Macario, E. C. & Rohde, M. (1992). A methanogenic Archaeon from Ace Lake, Antarctica: Methanococcoides burtonii sp. nov. Syst Appl Microbiol 15, 573-581.
8. Hungate, R. E. (1966). The Rumen and its Microbes. New York: Academic Press.
9. Huß, V. A. R., Festl, H. & Schleifer, K. H. (1983). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4, 184-192.
10. Jarvis, G. N., Strompl, C., Burgess, D. M., Skillman, L. C., Moore, E. R. B. & Joblin, K. N. (2000). Isolation of identification of ruminal methanogens from grazing cattle. Curr Microbiol 40, 327-332.
11. Kendall, M. M. & Boone, D. R. (2004). The Order Methanosarcinales. In The Prokaryotes: an Evolving Electronic Resource for the Microbiological Community. Release 3.17. Edited by M. Dworkin, S. Falkow, E. Rosenberg, K. -H. Schleifer & E. Stackebrandt. New York: Springer. http://link.springer-ny.com/link/service/books/10125/
12. King, G. M. (1984). Utilization of hydrogen, acetate, and "non-competitive" substrates by methanogenic bacteria in marine sediments. Geomicrobiol J 3, 275-306.
13. King, G. M., Klug, M. J. & Lovley, D. R. (1983). Metabolism of acetate, methanol, and methylated amines in intertidal sediments of Lowes Cove, Maine. Appl Environ Microbiol 45, 1848-1853.
14. Lyimo, T. J., Pol, A., Op den Camp, H. J. M., Harhangi, H. R. & Vogels, G. D. (2000). Methanosarcina semesiae sp. nov., a dimethylsulfide-utilizing methanogen from mangrove sediment. Int J Syst Evol Microbiol 50, 171-178.
15. T. Int J Syst Bacteriol 41, 267-274.
16. Mah, R. A. & Kuhn, D. A. (1984). Transfer of the type species of the genus Methanococcus to the genus Methanosarcina, naming it Methanosarcina mazei (Barker 1936) comb. nov. et emend. and conservation of the genus Methanococcus (Approved Lists 1980) with Methanococcus, vannielii (Approved Lists 1980) as the type species. Int J Syst Bacteriol 34, 263-265.
17. Marmur, J. (1961). A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3, 208-218.
18. Marmur, J. & Doty, P. A. (1962). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 5, 109-118.
19. T, and emendation of M. siciliae. Int J Syst Bacteriol 41, 410-416.
20. Oremland, R. S. & Polcin, S. (1982). Methanogenesis and sulfate reduction: competitive and noncompetitive substrates in estuarine sediments. Appl Environ Microbiol 44, 1270-1276.
21. Oremland, R. S. & Taylor, B. F. (1978). Sulfate reduction and methanogenesis in marine sediments. Geochim Cosmochim Acta 42, 209-214.
22. Powell, G. E. (1983). Interpreting gas kinetics of batch culture. Biotechnol Lett 5, 437-440.
23. Ratkowsky, D. A., Lowry, R. K., McMeekin, T. A., Stokes, A. N. & Chandler, R. E. (1983). Model for bacterial culture growth rate throughout the entire biokinetic temperature range. J Bacteriol 154, 1222-1226.
24. Reeburgh, W. S. (1980). Anaerobic methane oxidation: rate depth distributions in Skan Bay sediments. Earth Planet Sci Lett 47, 345-352.
25. Simankova, M. V., Parshina, S. N., Tourova, T. P., Kolganova, T. V., Zehnder, A. J. B. & Nozhevnikova, A. N. (2001). Methanosarcina lacustris sp. nov., a new psychrotolerant methanogenic archaeon from anoxic lake sediments. Syst Appl Microbiol 24, 362-367.
26. Sly, L. I., Blackall, L. L., Kraat, P. C., Tian-Shen, T. & Sangkhobol, V. (1986). The use of second derivative plots for the determination of mol% guanine plus cytosine of DNA by the thermal denaturation method. J Microbiol Methods 5, 139-156.
27. 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.
28. Sowers, K. R. & Noll, K. M. (1995). Techniques for anaerobic growth. In Archaea: a Laboratory Manual, pp. 15-47. Edited by K. R. Sowers & H. J. Schreier. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory.
29. Sowers, K. R., Baron, S. F. & Ferry, J. G. (1984). Methanosarcina acetivorans sp. nov., an acetotrophic methane-producing bacterium isolated from marine sediments. Appl Environ Microbiol 47, 971-978.
30. 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.
31. Starr, M. P. & Mandel, M. (1969). DNA base composition and taxonomy of phytopathogenic and other enterobacteria. J Gen Microbiol 56, 113-123.
32. Swofford, D. L. (2002). PAUP*: Phylogenetic analysis using parsimony (*and other methods). Sunderland, MA: Sinauer Associates.
33. von Klein, D., Arab, H., Volker, H. & Thomm, M. (2002). Methanosarcina baltica, sp. nov., a novel methanogen isolated from the Gotland Deep of the Baltic Sea. Extremophiles 6, 103-110.
34. Wayne, L. G., Brenner, D. J., Colwell, R. R. & 9 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.
35. Zhilina, T. N. & Zavarzin, G. A. (1987). Methanosarcina vacuolata sp. nov., a vacuolated methanosarcina. Int J Syst Bacteriol 37, 281-283.
36. Zinder, S. H., Sowers, K. R. & Ferry, J. G. (1985). Methanosarcina thermophila sp. nov., a thermophilic, acetotrophic, methane-producing bacterium. Int J Syst Bacteriol 35, 522-523.
37. Zwietering, M. H., Jongenburger, I., Rombouts, F. M. & van't Riet, K. (1990). Modeling of the bacterial growth curve. Appl Environ Microbiol 56, 1875-1881.