1887

Abstract

A coccoid, non-motile actinobacterium, designated strain YIM 70003, was isolated from a saline, alkaline, desert-soil sample from Egypt. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the organism formed a distinct phyletic line within the genus and was most closely related to DSM 14382 (98·6 % sequence similarity) and DSM 20447 (98·2 %). Chemotaxonomic data, including the Lys–Ala peptidoglycan type, the presence of phosphatidylglycerol and diphosphatidylglycerol as the predominant phospholipids, the presence of MK-8(H) and MK-9(H) as the major menaquinones, the predominance of fatty acids ai-C and i-C and the DNA G+C content, also supported the affiliation of the isolate to the genus . The low DNA–DNA relatedness with DSM 14382 (56·6 %) and DSM 20447 (15·5 %) in combination with phenotypic data show that strain YIM 70003 should be classified as a novel species of the genus . The name sp. nov. is proposed, with strain YIM 70003 (=CCTCC AA203006=CIP 107966=KCTC 19010=DSM 17006) as the type strain.

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2006-04-01
2024-03-29
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References

  1. Boháček J., Kocur M., Martinec T. 1969; Deoxyribonucleic acid base composition of Micrococcus roseus . Antonie van Leeuwenhoek 35:185–188 [CrossRef]
    [Google Scholar]
  2. Cerny G. 1978; Studies on aminopeptidase for the distinction of Gram-negative from Gram-positive bacteria. Eur J Appl Microbiol Biotechnol 5:113–122 [CrossRef]
    [Google Scholar]
  3. De Ley J., Cattoir H., Reynaerts A. 1970; The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12:133–142 [CrossRef]
    [Google Scholar]
  4. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–789 [CrossRef]
    [Google Scholar]
  5. Gonzalez C., Gutierrez C., Ramirez C. 1978; Halobacterium vallismortis sp. nov., an amylolytic and carbohydrate-metabolizing, extremely halophilic bacterium. Can J Microbiol 24:710–715 [CrossRef]
    [Google Scholar]
  6. Horikoshi K., Grant W. D. (editors) 1998 Extremophiles: Microbial Life in Extreme Environments New York: Wiley;
    [Google Scholar]
  7. 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]
  8. Jahnke K. D. 1992; basic computer program for evaluation of spectroscopic DNA renaturation data from Gilford System 2600 spectrophotometer on a PC/XT/AT type personal computer. J Microbiol Methods 15:61–73 [CrossRef]
    [Google Scholar]
  9. 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;
    [Google Scholar]
  10. Kim S. B., Nedashkovskaya O. I., Mikhailov V. V., Han S. K., Kim K. O., Rhee M. S., Bae K. S. 2004; Kocuria marina sp. nov., a novel actinobacterium isolated from marine sediment. Int J Syst Evol Microbiol 54:1617–1620 [CrossRef]
    [Google Scholar]
  11. Kimura M. 1980; A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequence. J Mol Evol 16:111–120 [CrossRef]
    [Google Scholar]
  12. Kimura M. 1983 The Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press;
    [Google Scholar]
  13. Kloos W. E., Tornabene T. G., Schleifer K. H. 1974; Isolation and characterization of micrococci from human skin, including two new species: Micrococcus lylae and Micrococcus kristinae . Int J Syst Bacteriol 24:79–101 [CrossRef]
    [Google Scholar]
  14. Kocur M., Bergan T., Mortensen N. 1971; DNA base composition of Gram-positive cocci. J Gen Microbiol 69:167–183 [CrossRef]
    [Google Scholar]
  15. Kovács G., Burghardt J., Pradella S., Schumann P., Stackebrandt E., Marialigeti K. 1999; Kocuria palustris sp. nov. and Kocuria rhizophila sp. nov., isolated from the rhizoplane of the narrow-leaved cattail ( Typha angustifolia . Int J Syst Bacteriol 49:167–173 [CrossRef]
    [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., Chen H.-H., Xu P., Zhang Y.-Q., Schumann P., Tang S.-K., Xu L.-H., Jiang C.-L. 2004; Yania halotolerans gen. nov., sp. nov. a novel member of the suborder Micrococcineae from saline soil in China. Int J Syst Evol Microbiol 54:525–531 [CrossRef]
    [Google Scholar]
  18. 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]
  19. Reddy G. S. N., Prakash J. S. S., Prabahar V., Matsumoto G. I., Stackebrandt E., Shivaji S. 2003; Kocuria polaris sp. nov., an orange-pigmented psychrophilic bacterium isolated from an Antarctic cyanobacterial mat sample. Int J Syst Evol Microbiol 53:183–187 [CrossRef]
    [Google Scholar]
  20. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
    [Google Scholar]
  21. Stackebrandt E., Koch C., Gvozdiak O., Schumann P. 1995; Taxonomic dissection of the genus Micrococcus : Kocuria gen.nov., Nesterenkonia gen. nov., Kytococcus gen. nov., Dermacoccus gen. nov., and Micrococcus Cohn 1872 gen. emend. Int J Syst Bacteriol 45:682–692 [CrossRef]
    [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. Tvrzová L., Schumann P., Sedláček I., Páčová Z., Spröer C., Verbarg S., Kroppenstedt R. M. 2005; Reclassification of strain CCM 132, previously classified as Kocuria varians , as Kocuria carniphila sp. nov. Int J Syst Evol Microbiol 55:139–142 [CrossRef]
    [Google Scholar]
  24. Wayne L. G., Brenner D. J., Colwell R. R. 9 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]
  25. Xu P., Li W. J., Xu L. H., Jiang C. L. 2003; A microwave-based method for genomic DNA extraction from actinomycetes. Microbiology 30:82–84 (in Chinese
    [Google Scholar]
  26. Xu P., Li W.-J., Tang S.-K., Zhang Y.-Q., Chen G.-Z., Chen H.-H., Xu L.-H., Jiang C.-L. 2005; Naxibacter alkalitolerans gen. nov., sp. nov. a novel member of the family ‘ Oxalobacteraceae ’ isolated from China. Int J Syst Evol Microbiol 55:1149–1153 [CrossRef]
    [Google Scholar]
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