1887

Abstract

The taxonomic position of an actinomycete isolated from deep-sea sediment from the Indian Ocean was determined by using a polyphasic approach. The presence of iso-C, anteiso-C, iso-C, iso-C and anteiso-C as the major cellular fatty acids, -diaminopimelic acid as the characteristic diamino acid, and MK-9(H, H and H) as the major menaquinones supported the affiliation of strain IH32-1 to the genus . Comparison of 16S rRNA gene sequences showed that strain IH32-1 exhibited highest similarities to the type strains of (97.6 %) and (97.6 %). However, DNA–DNA relatedness values between strain IH32-1 and the type strains of . and . were determined as 55.2±4.7 and 38.3±2.5 %, respectively. Based on its chemotaxonomic, phenotypic and genotypic characteristics, strain IH32-1 is considered to represent a novel species in the genus , for which the name sp. nov. is proposed. The type strain is IH32-1 ( = DSM 42001 = CGMCC 4.5727).

Funding
This study was supported by the:
  • China Ocean Mineral Resources Research and Development Association (Award DYXM-115-02-2-8)
  • State Key Laboratory of Ocean Engineering (Award GKZD010045)
  • National High Technology R&D Program of China (Award 2007AA091904)
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2011-11-01
2024-03-28
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References

  1. Altschul S. F., Madden T. L., Schäffer A. A., Zhang J., Zhang Z., Miller W., Lipman D. J. 1997; Gapped blast and psi-blast: a new generation of protein database search programs. Nucleic Acids Res 25:3389–3402 [View Article][PubMed]
    [Google Scholar]
  2. Atlas R. M. 1993 Handbook of Microbiological Media Edited by Parks L. C. Boca Raton, FL: CRC Press;
    [Google Scholar]
  3. 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 [View Article][PubMed]
    [Google Scholar]
  4. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230[PubMed] [CrossRef]
    [Google Scholar]
  5. Cui X. L., Mao P. H., Zeng M., Li W. J., Zhang L. P., Xu L. H., Jiang C. L. 2001; Streptimonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae . Int J Syst Evol Microbiol 51:357–363[PubMed]
    [Google Scholar]
  6. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [Google Scholar]
  7. Gontang E. A., Fenical W., Jensen P. R. 2007; Phylogenetic diversity of gram-positive bacteria cultured from marine sediments. Appl Environ Microbiol 73:3272–3282 [View Article][PubMed]
    [Google Scholar]
  8. Goodfellow M. 1971; Numerical taxonomy of some nocardioform bacteria. J Gen Microbiol 69:33–80[PubMed] [CrossRef]
    [Google Scholar]
  9. 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 [View Article]
    [Google Scholar]
  10. Hasegawa T., Takizawa M., Tanida S. 1983; A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 29:319–322 [View Article]
    [Google Scholar]
  11. Jensen P. R., Gontang E., Mafnas C., Mincer T. J., Fenical W. 2005; Culturable marine actinomycete diversity from tropical Pacific Ocean sediments. Environ Microbiol 7:1039–1048 [View Article][PubMed]
    [Google Scholar]
  12. Kämpfer P., Labeda D. P. 2006; International Committee on Systematics of Prokaryotes; Subcommittee on the taxonomy of the Streptomycetaceae: Minutes of the meeting, 25 July 2005, San Francisco, CA, USA. Int J Syst Evol Microbiol 56:495 [View Article]
    [Google Scholar]
  13. Kämpfer P., Kroppenstedt R. M., Dott W. 1991; A numerical classification of the genera Streptomyces and Streptoverticillium using miniaturized physiological tests. J Gen Microbiol 137:1831–1891 [CrossRef]
    [Google Scholar]
  14. Kämpfer P., Huber B., Buczolits S., Thummes K., Grün-Wollny I., Busse H.-J. 2008; Streptomyces specialis sp. nov.. Int J Syst Evol Microbiol 58:2602–2606 [View Article][PubMed]
    [Google Scholar]
  15. Kelly K. L. 1964 Color-name Charts Illustrated with Centroid Colors Chicago: Inter-Society Color Council-National Bureau of Standards;
    [Google Scholar]
  16. Kim S. B., Lonsdale J., Seong C. N., Goodfellow M. 2003; Streptacidiphilus gen. nov., acidophilic actinomycetes with wall chemotype I and emendation of the family Streptomycetaceae (Waksman and Henrici (1943)AL) emend. Rainey et al. 1997. Antonie van Leeuwenhoek 83:107–116 [View Article][PubMed]
    [Google Scholar]
  17. Komagata K., Suzuki K. I. 1987; Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19:161–207 [View Article]
    [Google Scholar]
  18. Kroppenstedt R. M. 1985; Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Chemical Methods in Bacterial Systematics pp. 173–199 Edited by Goodfellow M., Minnikin D. E. London: Academic Press;
    [Google Scholar]
  19. Kumar S., Tamura K., Nei M. 2004; mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5:150–163 [View Article][PubMed]
    [Google Scholar]
  20. Labeda D. P. 1992; DNA–DNA hybridization in the systematics of Streptomyces . Gene 115:249–253 [View Article][PubMed]
    [Google Scholar]
  21. Lechevalier M. P., Lechevalier H. A. 1980; The chemotaxonomy of actinomycetes. In Actinomycete Taxonomy (Special Publication no. 6) pp. 227–291 Edited by Dietz A., Thayer J. Arlington, VA: Society for Industrial Microbiology;
    [Google Scholar]
  22. Maldonado L. A., Stach J. E., Pathom-aree W., Ward A. C., Bull A. T., Goodfellow M. 2005; Diversity of cultivable actinobacteria in geographically widespread marine sediments. Antonie van Leeuwenhoek 87:11–18 [View Article][PubMed]
    [Google Scholar]
  23. 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 [View Article]
    [Google Scholar]
  24. Mincer T. J., Jensen P. R., Kauffman C. A., Fenical W. 2002; Widespread and persistent populations of a major new marine actinomycete taxon in ocean sediments. Appl Environ Microbiol 68:5005–5011 [View Article][PubMed]
    [Google Scholar]
  25. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425[PubMed]
    [Google Scholar]
  26. Sasser M. 1990; Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 20:16
    [Google Scholar]
  27. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [View Article]
    [Google Scholar]
  28. Stach J. E., Maldonado L. A., Masson D. G., Ward A. C., Goodfellow M., Bull A. T. 2003; Statistical approaches for estimating actinobacterial diversity in marine sediments. Appl Environ Microbiol 69:6189–6200 [View Article][PubMed]
    [Google Scholar]
  29. Tamaoka J., Komagata K. 1984; Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128 [View Article]
    [Google Scholar]
  30. 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 [View Article][PubMed]
    [Google Scholar]
  31. Waksman S. A., Henrici A. T. 1943; The nomenclature and classification of the actinomycetes. J Bacteriol 46:337–341[PubMed]
    [Google Scholar]
  32. Watve M. G., Tickoo R., Jog M. M., Bhole B. D. 2001; How many antibiotics are produced by the genus Streptomyces?. Arch Microbiol 176:386–390 [View Article][PubMed]
    [Google Scholar]
  33. 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[PubMed]
    [Google Scholar]
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