Methylovulum miyakonense gen. nov., sp. nov., a type i methanotroph isolated from forest soil

International Journal of Systematic and Evolutionary Microbiology

Volumn 61, Issue 4, 2011, Pages 810-815

  Iguchi, Hiroyuki ^a   Yurimoto, Hiroya ^a   Sakai, Yasuyoshi ^a  

^a KYOTO UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; BACTERIAL PROTEIN; BACTERIAL PROTEIN PMOA; CARBON; CYSTEINE; DNA; FATTY ACID; FORMALDEHYDE; GLYCINE; METHANE; METHANE MONOOXYGENASE; METHANOL; RIBULOSE PHOSPHATE; RNA 16S; UNCLASSIFIED DRUG; UNSATURATED FATTY ACID;

AMINO ACID SEQUENCE; ANIMAL CELL; ARTICLE; BACTERIAL GENE; BACTERIAL GROWTH; BACTERIAL STRAIN; BACTERIUM COLONY; BACTERIUM ISOLATE; CARBON SOURCE; CELL STRAIN; CONTROLLED STUDY; ENERGY RESOURCE; FOREST SOIL; GENE SEQUENCE; GRAM NEGATIVE AEROBIC RODS AND COCCI; JAPAN; METHANOTROPH; METHYLOBACTER TUNDRIPALUDUM; METHYLOBACTERIACEAE; METHYLOCOCCACEAE; METHYLOSOMA DIFFICILE; METHYLOVULUM MIYAKONENSE; NONHUMAN; NUCLEOTIDE SEQUENCE; PARTICULATE MATTER; PHYLOGENY; PRIORITY JOURNAL; SIGNAL TRANSDUCTION; SPECIES DIVERSITY;

AEROBIOSIS; BASE COMPOSITION; CLUSTER ANALYSIS; DNA, BACTERIAL; DNA, RIBOSOMAL; FATTY ACIDS; FORMALDEHYDE; JAPAN; METHANE; METHANOL; METHYLOCOCCACEAE; MOLECULAR SEQUENCE DATA; OXYGENASES; PHYLOGENY; PIGMENTS, BIOLOGICAL; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; TEMPERATURE; TREES;

COCCOIDEA; METHYLOBACTER TUNDRIPALUDUM; METHYLOCOCCACEAE;

EID: 79955375288     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.019604-0     Document Type: Article

References (28)

1. Arfman, N., Bystrykh, L., Govorukhina, N. I. & Dijkhuizen, L. (1990). 3-Hexulose-6-phosphate synthase from thermotolerant methylotroph Bacillus C1. Methods Enzymol 188, 391-397.
2. Auman, A. J., Stolyar, S., Costello, A. M. & Lidstrom, M. E. (2000). Molecular characterization of methanotrophic isolates from freshwater lake sediment. Appl Environ Microbiol 66, 5259-5266.
3. Bowman, J. P., Sly, L. I., Nichols, P. D. & Hayward, A. C. (1993). Revised taxonomy of the methanotrophs: description of Methylobacter gen. nov., emendation of Methylococcus, validation of Methylosinus and Methylocystis species, and a proposal that the family Methylococcaceae includes only the group I methanotrophs. Int J Syst Bacteriol 43, 735-753.
4. Costello, A. M. & Lidstrom, M. E. (1999). Molecular characterization of functional and phylogenetic genes from natural populations of methanotrophs in lake sediments. Appl Environ Microbiol 65, 5066-5074.
5. Dunfield, P. F., Yuryev, A., Senin, P., Smirnova, A. V., Stott, M. B., Hou, S., Ly, B., Saw, J. H., Zhou, Z. & other authors (2007). Methane oxidation by an extremely acidophilic bacterium of the phylum Verrucomicrobia. Nature 450, 879-882.
6. Ezaki, T., Saidi, S. M., Liu, S. L., Hashimoto, Y., Yamamoto, H. & Yabuuchi, E. (1990). Rapid procedure to determine the DNA base composition from small amounts of Gram-positive bacteria. FEMS Microbiol Lett 67, 127-130.
7. Green, P. N. (1992). Taxonomy of methylotrophic bacteria. In Methane and Methanol Utilizers, pp. 23-84. Edited by J. C. Murrell & H. Dalton. New York: Plenum Press.
8. Hanson, R. S. & Hanson, T. E. (1996). Methanotrophic bacteria. Microbiol Rev 60, 439-471.
9. Holmes, A. J., Costello, A., Lidstrom, M. E. & Murrell, J. C. (1995). Evidence that particulate methane monooxygenase and ammonia monooxygenase may be evolutionarily related. FEMS Microbiol Lett 132, 203-208.
10. Horz, H. P., Rich, V., Avrahami, S. & Bohannan, B. J. (2005). Methane-oxidizing bacteria in a California upland grassland soil: diversity and response to simulated global change. Appl Environ Microbiol 71, 2642-2652.
11. Iguchi, H., Yurimoto, H. & Sakai, Y. (2010). Soluble and particulate methane monooxygenase gene clusters of the type 1 methanotroph Methylovulum miyakonense HT12. FEMS Microbiol Lett 312, 71-76.
12. Islam, T., Jensen, S., Reigstad, L. J., Larsen, O. & Birkeland, N. K. (2008). Methane oxidation at 55 °C and pH 2 by a thermoacidophilic bacterium belonging to the Verrucomicrobia phylum. Proc Natl Acad Sci U S A 105, 300-304.
13. Katayama-Fujimura, Y., Komatsu, Y., Kuraishi, H. & Kaneko, T. (1984). Estimation of DNA base composition by high performance liquid chromatography of its nuclease P1 hydrolysate. Agric Biol Chem 48, 3169-3172.
14. Kato, N. (1990). 3-Hexulose-6-phosphate synthase from Mycobacterium gastri MB19. Methods Enzymol 188, 397-401.
15. Knief, C., Lipski, A. & Dunfield, P. F. (2003). Diversity and activity of methanotrophic bacteria in different upland soils. Appl Environ Microbiol 69, 6703-6714.
16. Kolb, S., Knief, C., Dunfield, P. F. & Conrad, R. (2005). Abundance and activity of uncultured methanotrophic bacteria involved in the consumption of atmospheric methane in two forest soils. Environ Microbiol 7, 1150-1161.
17. Mohanty, S. R., Bodelier, P. L., Floris, V. & Conrad, R. (2006). Differential effects of nitrogenous fertilizers on methane-consuming microbes in rice field and forest soils. Appl Environ Microbiol 72, 1346-1354.
18. Mohanty, S. R., Bodelier, P. L. & Conrad, R. (2007). Effect of temperature on composition of the methanotrophic community in rice field and forest soil. FEMS Microbiol Ecol 62, 24-31.
19. Pol, A., Heijmans, K., Harhangi, H. R., Tedesco, D., Jetten, M. S. & Op den Camp, H. J. M. (2007). Methanotrophy below pH 1 by a new Verrucomicrobia species. Nature 450, 874-878.
20. Poly, F., Monrozier, L. J. & Bally, R. (2001). Improvement in the RFLP procedure for studying the diversity of nifH genes in communities of nitrogen fixers in soil. Res Microbiol 152, 95-103.
21. Rahalkar, M., Bussmann, I. & Schink, B. (2007). Methylosoma difficile gen. nov., sp. nov., a novel methanotroph enriched by gradient cultivation from littoral sediment of Lake Constance. Int J Syst Evol Microbiol 57, 1073-1080.
22. Singh, J. S. & Kashyap, A. K. (2007). Contrasting pattern of methanotrophs in dry tropical forest soils: effect of soil nitrogen, carbon and moisture. Microbiol Res 162, 276-283.
23. Stoecker, K., Bendinger, B., Schöning, B., Nielsen, P. H., Nielsen, J. L., Baranyi, C., Toenshoff, E. R., Daims, H. & Wagner, M. (2006). Cohn's Crenothrix is a filamentous methane oxidizer with an unusual methane monooxygenase. Proc Natl Acad Sci U S A 103, 2363-2367.
24. Vela, G. R. & Wyss, O. (1964). Improved stain for visualization of Azotobacter encystment. J Bacteriol 87, 476-477.
25. Vigliotta, G., Nutricati, E., Carata, E., Tredici, S. M., De Stefano, M., Pontieri, P., Massardo, D. R., Prati, M. V., De Bellis, L. & Alifano, P. (2007). Clonothrix fusca Roze 1896, a filamentous, sheathed, methanotrophic γ-proteobacterium. Appl Environ Microbiol 73, 3556-3565.
26. Wartiainen, I., Hestnes, A. G., McDonald, I. R. & Svenning, M.M. (2006). Methylobacter tundripaludum sp. nov., a methane-oxidizing bacterium from Arctic wetland soil on the Svalbard islands, Norway (78u N). Int J Syst EvolMicrobiol 56, 109-113.
27. Weisburg, W. G., Barns, S. M., Pelletier, D. A. & Lane, D. J. (1991). 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173, 697-703.
28. Whittenbury, R., Phillips, K. C. & Wilkinson, J. F. (1970). Enrichment, isolation and some properties of methane-utilizing bacteria. J Gen Microbiol 61, 205-218.