Idiomarina gen. nov., comprising novel indigenous deep-sea bacteria from the Pacific Ocean, including descriptions of two species, Idiomarina abyssalis sp. nov. and Idiomarina zobellii sp. nov.

International Journal of Systematic and Evolutionary Microbiology

Volumn 50, Issue 2, 2000, Pages 901-907

  Ivanova, Elena P ^a,b   Romanenko, Ludmila A ^b   Chun, Jongsik ^a,d   Matte, Maria H ^a   Matte, Glavur R ^a   Mikhailov, Valery V ^b   Svetashev, Vasilii I ^b   Huq, Anwarul ^a,c   Maugel, Tim ^c   Colwell, Rita R ^a,c  

^a UNIVERSITY OF MARYLAND   (United States)

^b PACIFIC INSTITUTE OF BIOORGANIC CHEMISTRY   (Russian Federation)

^c UNIVERSITY OF MARYLAND   (United States)

^d Korea Research Institute of Bioscience and Biotechnology (KRIBB)   (South Korea)

Author keywords

Deep sea bacteria; Idiomarina abyssalis; Idiomarina zobellii; New genus; New species

Indexed keywords

ARTICLE; BACTERIAL GROWTH; BACTERIUM IDENTIFICATION; DNA SEQUENCE; DOT HYBRIDIZATION; GRAM NEGATIVE BACTERIUM; IDIOMARINA ABYSSALIS; IDIOMARINA ZOBELLII; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; SEQUENCE ANALYSIS; TAXONOMY;

ALTEROMONAS; BACTERIA (MICROORGANISMS); COLWELLIA; GAMMAPROTEOBACTERIA; IDIOMARINA; IDIOMARINA ABYSSALIS; IDIOMARINA ZOBELLII; NEGIBACTERIA; PSEUDOALTEROMONAS;

EID: 0034033434     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/00207713-50-2-901     Document Type: Article

References (33)

1. Baumann, P. & Baumann, L. (1981). The marine Gram-negative eubacteria; genera Photobacterium, Beneckea, Alteromonas, Pseudomonas, and Alcaligenes. In The Prokaryotes. A Handbook on Habitats, Isolation, and Identification of Bacteria, pp. 1302-1330. Edited by M. P. Starr, H. Stolp, H. G. Trüper, A. Balows & H. G. Schlegel. Berlin: Springer.
2. Baumann, L., Baumann, P., Mandel, M. & Allen, R. D. (1972). Taxonomy of aerobic marine eubacteria. J Bacteriol 110, 402-429.
3. Baumann, P., Gauthier, M. J. & Baumann, L. (1984). Genus Alteromonas. Baumann, Baumann, Mandel and Allen 1972. In Bergey's Manual of Systematic Bacteriology, pp. 243-354. Edited by N. R. Krieg & J. G. Holt. Baltimore: Williams & Wilkins.
4. Bertone, S., Glacomini, M., Ruggiero, C., Piccarolo, C. & Calegari, L. (1996). Automated systems for identification of heterotrophic marine bacteria on the basis of their fatty acid composition. Appl Environ Microbiol 62, 2122-2132.
5. Bowman, J. P., McCammon, S. A., Brown, J., Nichols, P. D. & McMeekin, T. A. (1997a). Psychroserpens burtonensis gen. nov., sp. nov. and Gelidibacter algens gen. nov., sp. nov.: psychrophilic bacteria from Antarctic lacustrine and sea ice habitats, Int J Syst Bacteriol 47, 670-677.
6. Bowman, J. P., McCammon, S. A., Brown, M. V., Nichols, P. D. & McMeekin, T. A. (1997b). Diversity and association of psychrophilic bacteria in Antarctic sea ice. Appl Environ Microbiol 63, 3068-3078.
7. Bowman, J. P., Gosink, J. J., McCammon, S. A., Lewis, T. E., Nichols, D. S., Nichols, P. D., Skerratt, J. H., Staley, J. T. & McMeekin, T. A. (1998). Colwellia demingiae sp. nov., Colwellia hornerae sp. nov., Colwellia rossensis sp. nov., and Colwellia psychrotropica sp. nov.: a psychrophilic Antarctic species with the ability to synthesize docosahexaenoic acid (22:6ω3). Int J Syst Bacteriol 48, 1171-1180.
8. Bozal, N., Tudela, E., Rossello-Mora, R., Lalucat, J. & Guinea, J. (1997). Pseudoalteromonas antarctica sp. nov., isolated from an Antarctic coastal environment. Int J Syst Bacteriol 47, 345-351.
9. Chun, J. & Goodfellow, M. (1995). A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences. Int J Syst Bacteriol 45, 240-245.
10. D'Aoust, J. Y. & Kushner, D. J. (1972). Vibrio psychroerythrus sp. n.: classification of the psychrophilic marine bacterium, NRC 1004. J Bacteriol 111, 340-342.
11. Deming, J. W., Somers, L. K., Straube, W. L., Swartz, D. G. & MacDonnel, M. T. (1988). Isolation of an obligatory barophilic bacterium and description of a new genus, Colwellia gen. nov. Syst Appl Microbiol 10, 152-160.
12. Dobson, S. J. & Franzmann, P. D. (1996). Unification of the genera Deleya (Baumann et al. 1983), Halomonas (Vreeland et al. 1980), and Halovibrio (Fendrich 1988) and the species Paracoccus halodenitrificans (Robinson and Gibbons 1952) into a single genus Halomonas, and placement of the genus Zymobacter into a family Halomanadaceae. Int J Syst Bacteriol 46, 550-558.
13. Felsenstein, J. (1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
14. Felsenstein, J. (1993). PHYLIP (Phylogenetic Inference Package) version 3.5c. Seattle: University of Washington.
15. Fitch, W. M. (1972). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20, 406-416.
16. Fitch, W. M. & Margoliash, E. (1967). Construction of phylogenetic trees: a method based on mutation distances as estimated from cytochrome c sequences is of general applicability. Science 155, 279-284.
17. Gauthier, M. J. & Breittmayer, V. A. (1992). The genera Alteromonas and Marinomonas. In The Prokaryotes, pp. 3046-3070. Edited by A. Balows, H. G. Trüper, M. Dworkin, W. Harder & K.-H. Schleifer, New York: Springer.
18. Gauthier, G., Gauthier, M., Christen, R., Fernandez, L., Acquaviva, M., Bonin, P. & Bertrand, J.-C. (1992). Marinobacter hydrocarbonoclasticus gen. nov., sp. nov., a new, extremely halotolerant, hydrocarbon-degrading marine bacterium. Int J Syst Bacteriol 42, 568-576.
19. Gauthier, G., Gauthier, M. & Christen, R. (1995). Phylogenetic analysis of the genera Alteromonas, Shewanella, and Moritella using genes coding for small-subunit rRNA sequences and division of the genus Alteromonas into two genera. Alteromonas (emended) and Pseudoalteromonas gen. nov., and twelve new species combinations. Int J Syst Bacteriol 45, 755-761.
20. Irgens, R. L., Gosink, J. J. & Staley, J. T. (1996). Polaramonas vacuolata gen. nov., sp. nov., a psychrophilic, marine, gas vacuolate bacterium from antarctica. Int J Syst Bacteriol 46, 822-826.
21. Ivanova, E. P., Kiprianova, E. A., Mikhailov, V. V., Levanova, F. G., Garagulya, A. G., Gorshkova, N. M., Yumoto, N. & Yoshikawa, S. (1996). Characterization and identification of marine Alteromonas nigrifaciens strains and emendation of the description. Int J Syst Bacteriol 46, 223-228.
22. Ivanova, E. P., Kiprianova, E. A., Mikhailov, V. V. & 8 other authors (1998). Phenotypic diversity of Pseudoalteromonas citrea from different marine habitats and emendation of the description. Int J Syst Bacteriol 48, 247-256.
23. Jukes, T. H. & Cantor, C. R. (1969). Evolution of protein molecules. In Mammalian Protein Metabolism, pp. 21-132. Edited by H. N. Munro. New York: Academic Press.
24. Krieg, N. R. (1984). Genus Oceanospirillum Hylemon, Wells, Krieg and Jannasch 1973. In Bergey's Manual of Systematic Bacteriology, pp. 104-110. Edited by N. R. Krieg & J. G. Holt. Baltimore: Williams & Wilkins.
25. Marmur, J. (1961). A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3, 208-218.
26. Marmur, J. & Doty, P. (1962). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 5, 109-118.
27. Ràguénes, G. H. C., Peres, A., Ruimy, R., Pignet, P., Christen, R., Loaec, M., Rougeaux, H., Barber, G. & Guezennec, L. G. (1997). Alteromonas infernus sp. nov., a new polysaccharide-producing bacterium isolated from deep-sea hydrothermal vent. J Appl Microbiol 82, 422-430.
28. Rüger, H.-J. & Krambeck, H.-J. (1994). Evaluation of the BIOLOG substrate metabolism system for classification of marine bacteria. Syst Appl Microbiol 17, 281-288.
29. Saitou, N. & Nei, M. (1987). The neighbor joining method: a new method for constructing phylogenetic trees. Mol Biol Evol 4, 406-425.
30. Smibert, R. M. & Krieg, N. R. (1994). Phenotypic characterization. In Methods for General and Molecular Bacteriology. pp. 607-654. Washington, DC: American Society for Microbiology.
31. Svetashev, V. I., Vysotskii, M. V., Ivanova, E. P. & Mikhailov, V. V. (1995). Cellular fatty acid of Alteromonas species. Syst Appl Microbiol 18, 37-43.
32. Vreeland, R. H. (1984). Genus Halomonas Vreeland, Litchfield, Martin and Elliot 1980. In Bergey's Manual of Systematic Bacteriology, pp. 340-343. Edited by N. R. Krieg & J. G. Holt. Baltimore: Williams & Wilkins.
33. 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.