1887

Abstract

Two bacterial strains, BBH6 and BBH9, were isolated from a deep-sea sediment sample collected from the Chagos Trench, Indian Ocean, at a depth of 5904 m. The two strains were closely related in their 16S rRNA gene sequences (99.7 %), belonged to one genomic species and were virtually identical at the phenotypic level. DSM 20145 was the nearest phylogenetic neighbour to the new isolates, with 16S rRNA gene sequence similarity levels of 97.2–97.4 %. The new isolates exhibited levels of DNA–DNA relatedness of 32–34 % to and differed from it in a number of phenotypic characteristics. Therefore, it is suggested that strains BBH6 and BBH9 represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is BBH6 (=LMG 23459=IAM 15355).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.64782-0
2007-08-01
2020-01-22
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/57/8/1819.html?itemId=/content/journal/ijsem/10.1099/ijs.0.64782-0&mimeType=html&fmt=ahah

References

  1. Bhadra, B., Roy, P. & Chakraborty, R. ( 2005; ). Serratia ureilytica sp. nov., a novel urea-utilizing species. Int J Syst Evol Microbiol 55, 2155–2158.[CrossRef]
    [Google Scholar]
  2. Brennan, N. M., Brown, R., Goodfellow, M., Ward, A. C., Beresford, T. P., Vancanneyt, M., Cogan, M. C. & Fox, P. F. ( 2001; ). Microbacterium gubbeenense sp. nov. from the surface of a smear-ripened cheese. Int J Syst Evol Microbiol 51, 1969–1976.[CrossRef]
    [Google Scholar]
  3. Collins, M. D. ( 1994; ). Isoprenoid quinones. In Chemical Methods in Prokaryotic Systematics, pp. 265–309. Edited by M. Goodfellow & A. G. O'Donnell. Chichester: Wiley.
  4. Felsenstein, J. ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef]
    [Google Scholar]
  5. Gupta, S. M. ( 1999; ). Radiolarian monsoonal index Pyloniid group responds to astronomical forcing in the last ∼500,000 years: evidence from the Central Indian Ocean. Man and Environ 24, 99–107.
    [Google Scholar]
  6. Gupta, S. M. ( 2002; ). Pyloniid stratigraphy – a new tool to date tropical radiolarian ooze from the central tropical Indian Ocean. Mar Geol 184, 85–93.[CrossRef]
    [Google Scholar]
  7. Holding, A. J. & Collee, J. G. ( 1971; ). Routine biochemical tests. Methods Microbiol 6A, 2–32.
    [Google Scholar]
  8. Kageyama, A., Takahashi, Y. & Omura, S. ( 2006; ). Microbacterium deminutum sp. nov., Microbacterium pumilum sp. nov. and Microbacterium aoyamense sp. nov. Int J Syst Evol Microbiol 56, 2113–2117.[CrossRef]
    [Google Scholar]
  9. Kimura, M. ( 1980; ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16, 111–120.[CrossRef]
    [Google Scholar]
  10. Komagata, K. & Suzuki, K. ( 1987; ). Lipid and cell wall analysis in bacterial systematics. Methods Microbiol 19, 161–207.
    [Google Scholar]
  11. Kumar, S., Tamura, K. & Nei, M. ( 2004; ). mega3.1: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150–163.[CrossRef]
    [Google Scholar]
  12. Laemmli, U. K. ( 1970; ). Cleavage of structural proteins during the assembly of head of bacteriophage T4. Nature 227, 680–685.[CrossRef]
    [Google Scholar]
  13. Luna, G. M., Dell'Anno, A., Giuliano, L. & Danovaro, R. ( 2004; ). Bacterial diversity in deep Mediterranean sediments: relationship with the active bacterial fraction and substrate availability. Environ Microbiol 6, 745–753.[CrossRef]
    [Google Scholar]
  14. Marmur, J. ( 1961; ). A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3, 208–218.[CrossRef]
    [Google Scholar]
  15. Minnikin, D. E., Alshamaony, L. & Goodfellow, M. ( 1975; ). Differentiation of Mycobacterium, Nocardia and related taxa by thin-layer chromatographic analysis of whole-organism methanolysates. J Gen Microbiol 88, 200–204.[CrossRef]
    [Google Scholar]
  16. Raghukumar, C., Raghukumar, S., Sheelu, G., Gupta, S. M., Bagender, B. & Rao, B. R. ( 2004; ). Buried in time: culturable fungi in a deep-sea sediment core from the Chagos Trench, Indian Ocean. Deep Sea Res 51, 1759–1768.[CrossRef]
    [Google Scholar]
  17. Reddy, G. S. N., Aggarwal, R. K., Matsumoto, G. I. & Shivaji, S. ( 2000; ). Arthobacter flavus sp. nov., a psychrophilic bacterium isolated from a pond in McMurdo Dry Valley, Antarctica. Int J Syst Evol Microbiol 50, 1553–1561.[CrossRef]
    [Google Scholar]
  18. Reddy, G. S. N., Prakash, J. S. S., Vairamani, M., Prabhakar, S., Matsumoto, G. I. & Shivaji, S. ( 2002; ). Planococcus antarcticus and Planococcus psychrophilus spp. nov. isolated from cyanobacterial mat samples collected from ponds in Antarctica. Extremophiles 6, 253–262.[CrossRef]
    [Google Scholar]
  19. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  20. Sambrook, J., Fritsch, E. F. & Maniatis, T. ( 1989; ). Molecular Cloning: a Laboratory Manual, 2nd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
  21. Schleifer, K. H. & Kandler, O. ( 1972; ). Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacterial Rev 36, 407–477.
    [Google Scholar]
  22. Sly, L. I., Blackall, L. L., Kraat, P. C., Tian-Shen, T. & Sangkhobol, V. ( 1986; ). The use of second derivative plots for the determination of mol% guanine plus cytosine of DNA by the thermal denaturation method. J Microbiol Methods 5, 139–156.[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. Staneck, J. L. & Roberts, G. D. ( 1974; ). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28, 226–231.
    [Google Scholar]
  25. Takami, H., Inoue, A., Fuji, F. & Horikoshi, K. ( 1997; ). Microbial flora in the deepest sea mud of the Mariana Trench. FEMS Microbiol Rev 152, 279–285.[CrossRef]
    [Google Scholar]
  26. Takami, H., Kobata, K., Nagahama, T., Kobayashi, H., Inoue, A. & Horikoshi, K. ( 1999; ). Biodiversity in deep-sea sites located near the south part of Japan. Extremophiles 3, 97–102.[CrossRef]
    [Google Scholar]
  27. Takeuchi, M. & Hatano, K. ( 1998; ). Union of the genera Microbacterium Orla-Jensen and Aureobacterium Collins et al. in a redefined genus Microbacterium. Int J Syst Bacteriol 48, 739–747.[CrossRef]
    [Google Scholar]
  28. 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.[CrossRef]
    [Google Scholar]
  29. 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.[CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.64782-0
Loading
/content/journal/ijsem/10.1099/ijs.0.64782-0
Loading

Data & Media loading...

Supplements

vol. , part 8, pp. 1819 - 1822

Comparison of the cellular fatty acid composition (%) of sp. nov. BBH6 , JCM 1343 and JCM 12075

DNA–DNA relatedness of sp. nov. (BBH6 and BBH9) with JCM 1343 and JCM 12075 [Single PDF file](26 KB)



PDF

Most cited articles

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