Rubritalea spongiae sp. nov. and Rubritalea tangerina sp. nov., two carotenoid- and squalene-producing marine bacteria of the family' Verrucomicrobiaceae within the phylum Verrucomicrobia', isolated from marine animals

International Journal of Systematic and Evolutionary Microbiology

Volumn 57, Issue 10, 2007, Pages 2337-2343

  Yoon, Jaewoo ^a   Matsuo, Yoshihide ^b   Matsuda, Satoru ^b   Adachi, Kyoto ^b   Kasai, Hiroaki ^b   Yokota, Akira ^a  

^a UNIVERSITY OF TOKYO   (Japan)

^b MARINE BIOTECHNOLOGY INSTITUTE   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

CAROTENOID; CYTOSINE; DIAMINOPIMELIC ACID; FATTY ACID; GENOMIC DNA; GUANINE; ISOPRENOID; MURAMIC ACID; PEPTIDOGLYCAN; RNA 16S; SQUALENE;

ARTICLE; BACTERIAL CELL WALL; BACTERIAL STRAIN; BACTERIUM ISOLATE; CHEMOHETEROTROPH; CONTROLLED STUDY; DNA DNA HYBRIDIZATION; GRAM NEGATIVE BACTERIUM; MARINE BACTERIUM; NEW GENUS; NEW SPECIES; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PHYLUM; PRIORITY JOURNAL; RNA SEQUENCE; RUBRITALEA; RUBRITALEA SPONGIAE; RUBRITALEA TANGERINA; SEQUENCE HOMOLOGY; TAXONOMY; VERRUCOMICROBIACEAE;

ANIMALS; BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; CELL WALL; DIAMINOPIMELIC ACID; DNA, BACTERIAL; DNA, RIBOSOMAL; FATTY ACIDS; GENES, RRNA; GRAM-NEGATIVE BACTERIA; MOLECULAR SEQUENCE DATA; MURAMIC ACIDS; NUCLEIC ACID HYBRIDIZATION; PHYLOGENY; QUINONES; RNA, BACTERIAL; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, NUCLEIC ACID;

ANIMALIA; COCCOIDEA; NEGIBACTERIA; VERRUCOMICROBIA; VERRUCOMICROBIACEAE;

EID: 35648977550     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.65243-0     Document Type: Article

References (34)

1. Dedysh, S. N., Pankratov, T. A., Belova, S. E., Kulichevskeya, I. S. & Liesack, W. (2006). Phylogenetic analysis and in situ identification of Bacteria community composition in an acidic Sphagnum peat bog. Appl Environ Microbiol 72, 2110-2117.
2. Derrien, M., Vaughan, E. E., Plugge, C. M. & de Vos, W. M. (2004). Akkermansia muciniphila gen nov., sp. nov., a human intestinal mucin-degrading bacterium. Int J Syst Evol Microbiol 54, 1469-1476.
3. Ezaki, T., Hashimoto, Y. & Yabuuchi, E. (1989). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in micro-dilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39, 224-229.
4. Felsenstein, J. (1985). Confidence limits on phylogenies: An approach using the bootstrap. Evolution 39, 783-791.
5. Fitch, W. M. (1971). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20, 406-416.
6. Harper, J. J. & Davis, G. H. G. (1979). Two-dimensional thin-layer chromatography for amino acid analysis of bacterial cell walls. Int J Syst Bacteriol 29, 56-58.
7. Haukka, K., Heikkinen, E., Kairesalo, T., Karjalainen, H. & Sivonen, K. (2005). Effect of humic material on the bacterioplankton community composition in boreal lakes and mesocosms. Environ Microbiol 7, 620-630.
8. Haukka, K., Kolmonen, E., Hyder, R., Hietala, J., Vakkilainen, K., Kairesalo, T., Haario, H. & Sivonen, K. (2006). Effect of nutrient loading on bacterioplankton community composition in lake mesocosms. Microb Ecol 51, 137-146.
9. Hedlund, B. P., Gosink, J. J. & Staley, J. T. (1996). Phylogeny of Prosthecobacter, the fusiform caulobacters: Members of a recently discovered division of the Bacteria. Int J Syst Bacteriol 46, 960-966.
10. Hedlund, B. P., Gosink, J. J. & Staley, J. T. (1997). Verrucomicrobia div. nov., a new division of the bacteria containing three new species of Prosthecobacter. Antonie van Leeuwenhoek 72, 29-38.
11. Hugenholtz, P., Goebel, B. M. & Pace, N. R. (1998). Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J Bacteriol 180, 4765-4774.
12. Joseph, S. J., Hugenholtz, P., Sangwan, P., Osborne, C. A. & Janssen, P. H. (2003). Laboratory cultivation of widespread and previously uncultured soil bacteria. Appl Environ Microbiol 69, 7210-7215.
13. Kanokratana, P., Chanapan, S., Pootanakit K. & Eurwilaichitr, L. (2004). Diversity and abundance of Bacteria and Archaea in the Bor Khlueng hot spring in Thailand. J Basic Microbiol 44, 430-444.
14. Kasai, H., Katsuta, A., Sekiguchi, H., Matsuda, S., Adachi, K., Shindo, K., Yoon, J., Yokota, A. & Shizuri, Y. (2007). Rubritalea squalenifaciens sp. nov., a squalene-producing marine bacterium belonging to subdivision 1 of the phylum 'Verrucomicrobia. Int J Syst Evol Microbiol 57, 1630-1634.
15. Katsuta, A., Adachi, K., Matsuda, S., Shizuri, Y. & Kasai, H. (2005). Ferrimonas marina sp. nov. Int J Syst Evol Microbiol 55, 1851-1855.
16. Kimura, M. (1983). The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
17. Kumar, S., Tamura, K. & Nei, M. (2004). MEGA3: integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment. Brief Bioinform 5, 150-163.
18. Lyman, J. & Fleming, R. H. (1940). Composition of sea water. J Mar Res 3, 134-146.
19. Marmur, J. (1961). A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3, 208-218.
20. Mesbah, M., Premachandran, U. & Whitman, W. B. (1989). Precise measurement of the G + C content of deoxyribormcleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39, 159-167.
21. Murray, R. G. E., Doetsch, R. N. & Robinow, C. F. (1994). Determinative and cytological light microscopy. In Methods for General and Molecular Bacteriology, pp. 21-41. Edited by P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, DC: American Society for Microbiology.
22. Rappé, M. S. & Giovannoni, S. J. (2003). The uncultured microbial majority. Annu Rev Microbiol 57, 369-394.
23. Saitou, N. & Nei, M. (1987). The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
24. Scheuermayer, M., Guider, T. A., Bringmann, G. & Hentschel, U. (2006). Rubritalea marina gen. nov., sp. nov., a marine representative of the phylum 'Verrucomicrobia', isolated from a sponge (Porifera). Int J Syst Evol Microbiol 56, 2119-2124.
25. Schleifer, K. H. & Kandler, O. (1972). Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36, 407-477.
26. Schlesner, H. (1987). Verrucomicrobium spinosum gen. nov., sp. nov.; a fimbriated prosthecate bacterium. Syst Appl Microbiol 10, 54-56.
27. 30-carotenoic acid produced by a new marine bacterium Rubritalea squalenifaciens. Tetrahedron Lett 48, 2725-2727.
28. Staley, J. T., DeBont, J. A. M. & DeJonge, K. (1976). Prosthecobacter fusiformis nov. gen. et sp., the fusiform caulobacter. Antonie van Leeuwenhoek 42, 333-342.
29. Thompson, J. D., Gibson, T. J., Plewniak F., Jeanmougin, F. & Higgins, D. G. (1997). The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25, 4876-4882.
30. Vandekerckhove, T. T. M., Willems, A., Gillis, M. & Coomans, A. (2000). Occurrence of novel verrucomicrobial species, endosymbiotic and associated with parthenogenesis in Xiphinema americanum-group species (Nematoda, Longidoridae). Int J Syst Evol Microbiol 50, 2197-2205.
31. 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.
32. 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.
33. Yokota, A., Tamura, T., Nishii, T. & Hasegawa, T. (1993). Kineococcus aurantiacus gen. nov., sp. nov., a new aerobic, gram-positive, motile coccus with meso-diaminopimelic acid and arabinogalactan in the cell wall. Int J Syst Bacteriol 43, 52-57.
34. Yoon, J., Yasumoto-Hirose, M., Matsuo, Y., Nozawa, M., Matsuda, S., Kasai, H. & Yokota, A. (2007). Pelagicoccus mobilis gen. nov., sp. nov., Pelagicoccus albus sp. nov. and Pelagicoccus litoralis sp. nov., three novel members of subdivision 4 within the phylum 'Verrucomicrobia' isolated from seawater by in situ cultivation. Int J Syst Evol Microbiol 57, 1377-1385.