A Gram-positive, moderately halophilic actinomycete strain, designated YIM 90502, was isolated from a sample of muddy soil collected from Gulbarga, Karnataka Province, India, and subjected to a polyphasic taxonomical analysis. The isolate grew optimally at 28 °C and in the presence of 10 % (w/v) NaCl. The isolate was characterized chemotaxonomically as having -diaminopimelic acid in the cell-wall peptidoglycan and galactose and arabinose as whole-cell sugars. The predominant menaquinone was MK-9(H), while MK-8(H) was found in smaller amounts. The phospholipids were phosphatidylinositol, phosphatidylglycerol, diphosphatidylglycerol and phosphatidylethanolamine. The major fatty acids were iso-C (49.2 %) and C 6 (9.1 %). The DNA G+C content of the isolate was 71.8 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that the isolate fell within the evolutionary radiation encompassed by the genus . 16S rRNA gene sequence similarity between strain YIM 90502 and the type strains of species ranged from 92.42 % (with CCTCC AA 97021) to 97.45 % (with KCTC 9693). Levels of DNA–DNA relatedness between strain YIM 90502 and KCTC 9693, DSM 44411 and DSM 44619 were 46.0, 41.0 and 42.5 %, respectively. On the basis of phenotypic, phylogenetic and genotypic data, strain YIM 90502 was classified in the genus as a member of a novel species, for which the name sp. nov. is proposed, with YIM 90502 (=KCTC 19234 =DSM 45087) as the type strain.


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  1. Al-Zarban, S. S., Al-Musallam, A. A., Abbas, I., Stackebrandt, E. & Kroppenstedt, R. M.(2002).Saccharomonospora halophila sp. nov., a novel halophilic actinomycete isolated from marsh soil in Kuwait. Int J Syst Evol Microbiol 52, 555–558. [Google Scholar]
  2. Felsenstein, J.(1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef] [Google Scholar]
  3. Felsenstein, J.(1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef] [Google Scholar]
  4. Felsenstein, J.(1993).phylip (phylogeny inference package), version 3.5. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  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. Greiner-Mai, E., Korn-Wendisch, F. & Kutzner, H. J.(1988). Taxonomic revision of the genus Saccharomonospora and description of Saccharomonospora glauca sp. nov. Int J Syst Bacteriol 38, 398–405.[CrossRef] [Google Scholar]
  7. He, L., Li, W., Huang, Y., Wang, L., Liu, Z., Lanoot, B., Vancanneyt, M. & Swings, J.(2005).Streptomyces jietaisiensis sp. nov., isolated from soil in northern China. Int J Syst Evol Microbiol 55, 1939–1944.[CrossRef] [Google Scholar]
  8. Hu, R.(1987).Saccharomonospora azurea sp. nov., a new species from soil. Int J Syst Bacteriol 37, 60–61.[CrossRef] [Google Scholar]
  9. Hu, R., Lin, C. & Wei, G.(1988).Saccharomonospora cyanea sp. nov. Int J Syst Bacteriol 38, 444–446.[CrossRef] [Google Scholar]
  10. Jin, X., Xu, L.-H., Mao, P.-H., Hseu, T.-H. & Jiang, C. L.(1998). Description of Saccharomonospora xinjiangensis sp. nov. based on chemical and molecular classification. Int J Syst Bacteriol 48, 1095–1099.[CrossRef] [Google Scholar]
  11. Kelly, K. L.(1964).Inter-Society Color Council–National Bureau of Standards Color Name Charts Illustrated with Centroid Colors. Washington, DC: US Government Printing Office.
  12. 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]
  13. Kimura, M.(1983).The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
  14. Kroppenstedt, R. M.(1982). Separation of bacterial menaquinones by HPLC using reverse phase (RP18) and a silver loaded ion exchanger as stationary phases. J Liq Chromatogr 5, 2359–2367.[CrossRef] [Google Scholar]
  15. Kroppenstedt, R. M., Korn-Wendisch, F., Fowler, V. J. & Stackebrandt, E.(1981). Biochemical and molecular genetic evidence for transfer of Actinoplanes armeniacus into the family Streptomycetaceae. Zentralbl Bakteriol Mikrobiol Hyg 1 Abt Orig C 2, 254–262. [Google Scholar]
  16. Kumar, S., Tamura, K., Jakobsen, I.-B. & Nei, M.(2001).mega2: molecular evolutionary genetics analysis software. Bioinformatics 17, 1244–1245.[CrossRef] [Google Scholar]
  17. Li, W.-J., Tang, S.-K., Stackebrandt, E., Kroppenstedt, R. M., Schumann, P., Xu, L.-H. & Jiang, C.-L.(2003).Saccharomonospora paurometabolica sp. nov., a moderately halophilic actinomycete isolated from soil in China. Int J Syst Evol Microbiol 53, 1591–1594.[CrossRef] [Google Scholar]
  18. Li, W.-J., Xu, P., Schumann, P., Zhang, Y.-Q., Pukall, R., Xu, L.-H., Stackebrandt, E. & Jiang, C.-L.(2007).Georgenia ruanii sp. nov., a novel actinobacterium isolated from forest soil in Yunnan (China), and emended description of the genus Georgenia. Int J Syst Evol Microbiol 57, 1424–1428.[CrossRef] [Google Scholar]
  19. Marmur, J.(1961). A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3, 208–218.[CrossRef] [Google Scholar]
  20. Marmur, J. & Doty, P.(1962). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 5, 109–118.[CrossRef] [Google Scholar]
  21. 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 isoprenoid quinones and polar lipids. J Microbiol Methods 2, 233–241.[CrossRef] [Google Scholar]
  22. Nonomura, H. & Ohara, Y.(1971). Distribution of actinomycetes in soil. X. New genus and species of monosporic actinomycetes in soil. J Ferment Technol 49, 895–903. [Google Scholar]
  23. Saitou, N. & Nei, M.(1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425. [Google Scholar]
  24. Sasser, M.(1990). Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 20, 16 [Google Scholar]
  25. Shirling, E. B. & Gottlieb, D.(1966). Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16, 313–340.[CrossRef] [Google Scholar]
  26. 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]
  27. Thompson, J. D., Gibson, T. J., Plewniak, F., Jeanmougin, F. & Higgins, D. G.(1997). The clustal_x windows interface: flexible strategies for sequence alignment aided by quality analysis tools. Nucleic Acids Res 25, 4876–4882.[CrossRef] [Google Scholar]
  28. Williams, S. T., Goodfellow, M. & Alderson, G.(1989). Genus Streptomyces Waksman and Henrici 1943, 339AL. In Bergey's Manual of Systematic Bacteriology, vol. 4, pp. 2452–2492. Edited by S. T. Williams, M. E. Sharpe & J. G. Holt. Baltimore: Williams & Wilkins.

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vol. , part 3, pp. 570 - 573

Scanning electron micrograph of spores of sp. nov. YIM 90502 .

Neighbour-joining tree showing the phylogenetic relationships of strain sp. nov. YIM 90502 within the radiation of the family .

[PDF file of Supplementary Figs S1 and S2](130 KB)


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