1887

Abstract

A rod-shaped marine bacterium, CL-TA03, isolated from a biofilm in a coastal fish farm in Tongyeong, Korea, was characterized for physiological and biochemical features, fatty acid profile and phylogenetic position based on 16S rRNA gene sequences. Analysis of the 16S rRNA gene sequence revealed a clear affiliation with the family . Phylogenetic analysis of the 16S rRNA gene sequence showed that the closest relatives of CL-TA03 were and (95.6 % similarity). The sequence similarities between CL-TA03 and other type species of the lineage ranged from 92.4 to 95.4 %. Strain CL-TA03 is motile and grows on marine agar as colourless or beige colonies. The strain is able to grow optimally in the range of 3–5 % sea salts. It grows within a temperature range of 15–35 °C and at pH 6–10. The fatty acids are dominated by 18 : 17 (64.1 %) and 11-methyl 18 : 17 (10.6 %). The DNA G+C content is 57.2 mol%. According to physiological data, fatty acid composition and phylogenetic analysis of the 16S rRNA gene sequence, CL-TA03 is considered to represent a new genus in the family and the name gen. nov., sp. nov. is proposed. The type strain of is CL-TA03 (=KCCM 42117=JCM 13038).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.64235-0
2006-08-01
2019-12-06
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/56/8/1869.html?itemId=/content/journal/ijsem/10.1099/ijs.0.64235-0&mimeType=html&fmt=ahah

References

  1. Altschul, S. F., Gish, W., Miller, W., Myers, E. W. & Lipman, D. J. ( 1990; ). Basic local alignment search tool. J Mol Biol 215, 403–410.[CrossRef]
    [Google Scholar]
  2. Arahal, D. R., Macián, M. C., Garay, E. & Pujalte, M. J. ( 2005; ). Thalassobius mediterraneus gen. nov., sp. nov., and reclassification of Ruegeria gelatinovorans as Thalassobius gelatinovorus comb. nov. Int J Syst Evol Microbiol 55, 2371–2376.[CrossRef]
    [Google Scholar]
  3. Buchan, A., González, J. M. & Moran, M. A. ( 2005; ). Overview of the marine Roseobacter lineage. Appl Environ Microbiol 71, 5665–5677.[CrossRef]
    [Google Scholar]
  4. Choi, D. H., Kim, Y.-G., Hwang, C. Y., Yi, H., Chun, J. & Cho, B. C. ( 2006; ). Tenacibaculum litoreum sp. nov., isolated from tidal flat sediment. Int J Syst Evol Microbiol 56, 635–640.[CrossRef]
    [Google Scholar]
  5. Cole, J. R., Chai, B., Marsh, T. L. & 8 other authors ( 2003; ). The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy. Nucleic Acids Res 31, 442–443.[CrossRef]
    [Google Scholar]
  6. Collins, M. D. ( 1985; ). Analysis of isoprenoid quinones. Methods Microbiol 18, 329–366.
    [Google Scholar]
  7. Dang, H. & Lovell, C. R. ( 2000; ). Bacterial primary colonization and early succession on surfaces in marine waters as determined by amplified rRNA gene restriction analysis and sequence analysis of 16S rRNA genes. Appl Environ Microbiol 66, 467–475.[CrossRef]
    [Google Scholar]
  8. Fitch, W. M. ( 1971; ). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20, 406–416.[CrossRef]
    [Google Scholar]
  9. Giovannoni, S. J. & Rappé, M. S. ( 2000; ). Evolution, diversity and molecular ecology of marine prokaryotes. In Microbial Ecology of the Oceans, pp. 47–84. Edited by D. L. Kirchman. New York: Wiley.
  10. Hansen, G. H. & Sørheim, R. ( 1991; ). Improved method for phenotypical characterization of marine bacteria. J Microbiol Methods 13, 231–241.[CrossRef]
    [Google Scholar]
  11. 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.[CrossRef]
    [Google Scholar]
  12. 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.
  13. Kumar, S., Tamura, K. & Nei, M. ( 2004; ). mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150–163.[CrossRef]
    [Google Scholar]
  14. Lane, D. J. ( 1991; ). 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics, pp. 115–175. Edited by E. Stackebrandt & M. Goodfellow. Chichester: Wiley.
  15. Lyman, J. & Fleming, R. H. ( 1940; ). Composition of sea water. J Mar Res 3, 134–146.
    [Google Scholar]
  16. Marmur, J. ( 1961; ). A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3, 208–218.[CrossRef]
    [Google Scholar]
  17. Mesbah, M., Premachandran, U. & Whitman, W. B. ( 1989; ). Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39, 159–167.[CrossRef]
    [Google Scholar]
  18. Minnikin, D. E., O'Donnell, A. G., Goodfellow, M., Alderson, G., Athalye, M., Schaal, K. & Parlett, J. H. ( 1984; ). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2, 233–241.[CrossRef]
    [Google Scholar]
  19. Ostle, A. G. & Holt, J. G. ( 1982; ). Nile blue A as a fluorescent stain for poly-β-hydroxybutyrate. Appl Environ Microbiol 44, 238–241.
    [Google Scholar]
  20. Rüger, H.-J. & Höfle, M. G. ( 1992; ). Marine star-shaped-aggregate-forming bacteria: Agrobacterium atlanticum sp. nov.; Agrobacterium meteori sp. nov.; Agrobacterium ferrugineum sp. nov., nom. rev.; Agrobacterium gelatinovorum sp. nov., nom. rev.; and Agrobacterium stellulatum sp. nov., nom. rev. Int J Syst Bacteriol 42, 133–143.[CrossRef]
    [Google Scholar]
  21. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  22. Selje, N., Simon, M. & Brinkhoff, T. ( 2004; ). A newly discovered Roseobacter cluster in temperate and polar oceans. Nature 427, 445–448.[CrossRef]
    [Google Scholar]
  23. 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.
  24. Uchino, Y., Hirata, A., Yokota, A. & Sugiyama, J. ( 1998; ). Reclassification of marine Agrobacterium species: proposals of Stappia stellulata gen. nov., comb. nov., Stappia aggregata sp. nov., nom. rev., Ruegeria atlantica gen. nov., comb. nov., Ruegeria gelatinovora comb. nov., Ruegeria algicola comb. nov., and Ahrensia kieliense gen. nov., sp. nov., nom. rev. J Gen Appl Microbiol 44, 201–210.[CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.64235-0
Loading
/content/journal/ijsem/10.1099/ijs.0.64235-0
Loading

Data & Media loading...

Most Cited This Month

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error