1887

Abstract

An orange-coloured actinomycete, designated strain RP-B16, was isolated from a rhizosphere soil. Cells of strain RP-B16 were strictly aerobic, Gram-positive-staining, oxidase-negative, catalase-positive, motile cocci. A phylogenetic tree, based on 16S rRNA gene sequences, showed that members of the genus were divided into two independent clusters and that strain RP-B16 formed a coherent clade with the type strains of (99.5 % sequence similarity) and (99.1 %). Levels of 16S rRNA gene sequence similarity between strain RP-B16 and KST3-3 and ‘’ T2A-S27 were lower than 97.0 %. Chemotaxonomic characteristics were typical of the genus in having -diaminopimelic acid as the diagnostic diamino acid, MK-9(H) as the predominant menaquinone, a polar lipid profile comprising diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and two unknown phospholipids, anteiso-C as the predominant fatty acid and a DNA G+C content of 73.8 mol%. Strain RP-B16 showed levels of DNA–DNA relatedness of 34.6–37.3 % to DSM 7487 and 31.2–32.7 % to DSM 14245. On the basis of phenotypic features and DNA–DNA hybridization data, strain RP-B16 is considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is RP-B16 (=KCTC 19366 =DSM 19711).

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2009-09-01
2024-03-28
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References

  1. Cashion, P., Holder-Franklin, M. A., McCully, J. & Franklin, M.(1977). A rapid method for the base ratio determination of bacterial DNA. Anal Biochem 81, 461–466.[CrossRef] [Google Scholar]
  2. De Ley, J., Cattoir, H. & Reynaerts, A.(1970). The quantitative measurement of DNA hybridisation from renaturation rates. Eur J Biochem 12, 133–142.[CrossRef] [Google Scholar]
  3. Duangmal, K., Thamchaipenet, A., Ara, I., Matsumoto, A. & Takahashi, Y.(2008).Kineococcus gynurae sp. nov., isolated from a Thai medicinal plant. Int J Syst Evol Microbiol 58, 2439–2442.[CrossRef] [Google Scholar]
  4. Felsenstein, J.(1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef] [Google Scholar]
  5. 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]
  6. Huß, V. A. R., Festl, H. & Schleifer, K. H.(1983). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4, 184–192.[CrossRef] [Google Scholar]
  7. 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.
  8. Kroppenstedt, R. M.(1985). Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Chemical Methods in Bacterial Systematics (Society for Applied Bacteriology Technical Series vol. 20), pp. 173–199. Edited by M. Goodfellow & D. E. Minnikin. New York: Academic Press.
  9. Lee, S. D.(2006).Kineococcus marinus sp. nov., isolated from marine sediment of the coast of Jeju, Korea. Int J Syst Evol Microbiol 56, 1279–1283.[CrossRef] [Google Scholar]
  10. Lee, S. D. & Lee, D. W.(2007).Lapillicoccus jejuensis gen. nov., sp. nov., a novel actinobacterium of the family Intrasporangiaceae, isolated from stone. Int J Syst Evol Microbiol 57, 2794–2798.[CrossRef] [Google Scholar]
  11. MacFaddin, J. F.(1980).Biochemical Tests for Identification of Medical Bacteria, 2nd edn. Baltimore: Williams & Wilkins.
  12. 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]
  13. Minnikin, D. E., Patel, P. V., Alshamaony, L. & Goodfellow, M.(1977). Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 27, 104–117.[CrossRef] [Google Scholar]
  14. Minnikin, D. E., Hutchinson, I. G., Caldicott, A. B. & Goodfellow, M.(1980). Thin layer chromatography of methanolysates of mycolic acid-containing bacteria. J Chromatogr 188, 221–233.[CrossRef] [Google Scholar]
  15. 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.[CrossRef] [Google Scholar]
  16. Phillips, R. W., Wiegel, J., Berry, C. J., Fliermans, C., Peacock, A. D., White, D. C. & Shimkets, L. J.(2002).Kineococcus radiotolerans sp. nov., a radiation-resistant, Gram-positive bacterium. Int J Syst Evol Microbiol 52, 933–938.[CrossRef] [Google Scholar]
  17. Saddler, G. S., Tavecchia, P., Lociuro, S., Zanol, M., Colombo, E. & Selva, E.(1991). Analysis of madurose and other actinomycete whole cell sugars by gas chromatography. J Microbiol Methods 14, 185–191.[CrossRef] [Google Scholar]
  18. Saitou, N. & Nei, M.(1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425. [Google Scholar]
  19. Seo, J. P. & Lee, S. D.(2006).Nocardia harenae sp. nov., an actinomycete isolated from beach sand. Int J Syst Evol Microbiol 56, 2203–2207.[CrossRef] [Google Scholar]
  20. Shirling, E. B. & Gottlieb, D.(1966). Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16, 313–340.[CrossRef] [Google Scholar]
  21. 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]
  22. 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]
  23. 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]
  24. Yokota, A., Tamura, T., Nishii, T. & Hasegawa, T.(1993).Kineococcus aurantiacus gen. nov., a new aerobic, gram-positive, motile coccus with meso-diaminopimelic acid and arabinogalactan in the cell wall. Int J Syst Bacteriol 43, 52–57.[CrossRef] [Google Scholar]
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