Pontirhabdus pectinivorans gen. nov., sp. nov., isolated from seawater

International Journal of Systematic and Evolutionary Microbiology

Volumn 61, Issue 10, 2011, Pages 2475-2481

  Yi, Hana ^a   Cho, Jang Cheon ^b   Chun, Jongsik ^a  

^a Seoul National University   (South Korea)

^b Inha University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

QUINONE DERIVATIVE; RNA 16S; SEA WATER;

ARTICLE; BACTERIAL GENE; BACTERIAL GROWTH; BACTERIAL STRAIN; BACTERIUM ISOLATION; DNA BASE COMPOSITION; FLAVOBACTERIACEAE; GENE SEQUENCE; GRAM NEGATIVE AEROBIC RODS AND COCCI; KOREA; NEW GENUS; NEW SPECIES; NONHUMAN; NUCLEOTIDE SEQUENCE; PHENOTYPE; PHOTOTROPHIC, GLIDING, SHEATHED, BUDDING OR APPENDAGED BACTERIA; PHYLOGENY; PONTIRHABDUS PECTINIVORANS; PRIORITY JOURNAL; TRANSPORT MEDIUM; UNINDEXED SEQUENCE;

AEROBIOSIS; BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; CLUSTER ANALYSIS; DNA, BACTERIAL; DNA, RIBOSOMAL; FLAVOBACTERIACEAE; KOREA; LOCOMOTION; MOLECULAR SEQUENCE DATA; PHYLOGENY; PIGMENTS, BIOLOGICAL; QUINONES; RNA, RIBOSOMAL, 16S; SALTS; SEAWATER; SEQUENCE ANALYSIS, DNA;

BACTERIA (MICROORGANISMS); FLAVOBACTERIACEAE;

EID: 80053623785     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.027441-0     Document Type: Article

References (29)

1. Bernardet, J. F. & Nakagawa, Y. (2006). An introduction to the family Flavobacteriaceae. In The Prokaryotes, pp. 455-480. Edited by M. Dworkin, S. Falkow, E. Rosenberg, K.-H. Schleifer & E. Stackebrandt. New York: Springer.
2. Bernardet, J. F., Nakagawa, Y., Holmes, B. & Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes (2002). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 52, 1049-1070.
3. Bowman, J. P. (2000). Description of Cellulophaga algicola sp. nov., isolated from the surfaces of Antarctic algae, and reclassification of Cytophaga uliginosa (ZoBell and Upham 1944) Reichenbach 1989 as Cellulophaga uliginosa comb. nov. Int J Syst Evol Microbiol 50, 1861-1868.
4. Bowman, J. P. & Nichols, D. S. (2005). Novel members of the family Flavobacteriaceae from Antarctic maritime habitats including Subsaximicrobium wynnwilliamsii gen. nov., sp. nov., Subsaximicrobium saxinquilinus sp. nov., Subsaxibacter broadyi gen. nov., sp. nov., Lacinutrix copepodicola gen. nov., sp. nov., and novel species of the genera Bizionia, Gelidibacter and Gillisia. Int J Syst Evol Microbiol 55, 1471-1486.
5. Chun, J. & Goodfellow, M. (1995). A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences. Int J Syst Bacteriol 45, 240-245.
6. Chun, J., Lee, J.-H., Jung, Y., Kim, M., Kim, S., Kim, B. K. & Lim, Y. W. (2007). EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 57, 2259-2261.
7. Collins, M. D. (1985). Analysis of isoprenoid quinones. Methods Microbiol 18, 329-366.
8. Einen, J. & Ovreås, L. (2006). Flaviramulus basaltis gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from seafloor basalt. Int J Syst Evol Microbiol 56, 2455-2461.
9. Felsenstein, J. (1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
10. Felsenstein, J. (1993). PHYLIP (phylogenetic inference package) version 3.5.1. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
11. Gordon, R. E., Barnett, D. A., Handerhan, J. E. & Pang, C. H.-N. (1974). Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. Int J Syst Bacteriol 24, 54-63.
12. Jeon, Y. S., Chung, H., Park, S., Hur, I., Lee, J. H. & Chun, J. (2005). jPHYDIT: a JAVA-based integrated environment for molecular phylogeny of ribosomal RNA sequences. Bioinformatics 21, 3171-3173.
13. Jukes, T. H. & Cantor, C. R. (1969). Evolution of protein molecules. In Mammalian Protein Metabolism, vol. 3, pp. 21-132. Edited by H. N. Munro. New York: Academic Press.
14. Lee, D. H., Kahng, H. Y., Lee, Y. S., Jung, J. S., Kim, J. M., Chung, B. S., Park, S. K. & Jeon, C. O. (2009). Jejuia pallidilutea gen. nov., sp. nov., a new member of the family Flavobacteriaceae isolated from seawater. Int J Syst Evol Microbiol 59, 2148-2152.
15. Lee, S. Y., Park, S., Oh, T. K. & Yoon, J. H. (2010). Description of Olleya aquimaris sp. nov., isolated from seawater, and emended description of the genus Olleya Mancuso Nichols et al. 2005. Int J Syst Evol Microbiol 60, 887-891.
16. Marmur, J. & Doty, P. (1962). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 5, 109-118.
17. Minnikin, D. E., O'Donnell, A. G., Goodfellow, M., Alderson, G., Athalye, M., Schaal, A. & Parlett, J. H. (1984). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2, 233-241.
18. Nedashkovskaya, O. I., Kim, S. B., Han, S. K., Rhee, M. S., Lysenko, A. M., Rohde, M., Zhukova, N. V., Frolova, G. M., Mikhailov, V. V. & Bae, K. S. (2004). Algibacter lectus gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from green algae. Int J Syst Evol Microbiol 54, 1257-1261.
19. Nedashkovskaya, O. I., Vancanneyt, M., Kim, S. B., Hoste, B. & Bae, K. S. (2007). Algibacter mikhailovii sp. nov., a novel marine bacterium of the family Flavobacteriaceae, and emended description of the genus Algibacter. Int J Syst Evol Microbiol 57, 2147-2150.
20. Nedashkovskaya, O. I., Kwon, K. K., Yang, S. H., Lee, H. S., Chung, K. H. & Kim, S. J. (2008). Lacinutrix algicola sp. nov. and Lacinutrix mariniflava sp. nov., two novel marine alga-associated bacteria and emended description of the genus Lacinutrix. Int J Syst Evol Microbiol 58, 2694-2698.
21. Nichols, C. M., Bowman, J. P. & Guezennec, J. (2005). Olleya marilimosa gen. nov., sp. nov., an exopolysaccharide-producing marine bacterium from the family Flavobacteriaceae, isolated from the Southern Ocean. Int J Syst Evol Microbiol 55, 1557-1561.
22. Ronquist, F. & Huelsenbeck, J. P. (2003). MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19, 1572-1574.
23. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
24. Smibert, R. M. & Krieg, N. R. (1994). Phenotypic characterization. In Methods for General and Molecular Bacteriology, pp. 607-654. Edited by P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, DC: American Society for Microbiology.
25. Swofford, D. L. (1998). Phylogenetic analysis using parsimony (paup). Version 4. Sunderland, MA: Sinauer Associates.
26. Weeks, O. B. (1981). Preliminary studies of the pigments of Flavobacterium breve NCTC 11099 and Flavobacterium odoratum NCTC 11036. In The Flavobacterium-Cytophaga Group, pp. 108-114. Edited by H. Reichenbach & O. B. Weeks. Weinheim: Gesellschaft fur Biotechnologische Forschung.
27. Woese, C. R., Magrum, L. J., Gupta, R., Siegel, R. B., Stahl, D. A., Kop, J., Crawford, N., Brosius, J., Gutell, R. & other authors (1980). Secondary structure model for bacterial 16S ribosomal RNA: phylogenetic, enzymatic and chemical evidence. Nucleic Acids Res 8, 2275-2293.
28. Yoon, B. J., Lee, D. H., Kang, B. J., Kahng, H. Y., Oh, Y. S., Sohn, J. H., Choi, E. S. & Oh, D. C. (2010). Hyunsoonleella jejuensis gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from seawater. Int J Syst Evol Microbiol 60, 382-386.
29. ZoBell, C. E. (1941). Studies on marine bacteria. I. The cultural requirements of heterotrophic aerobes. J Mar Res 4, 42-75.