1887

Abstract

A novel spherical actinobacterium, designated RS-2-3, was isolated from the rhizosphere of a mangrove growing on Rambut Island, Indonesia, and its taxonomic position was investigated using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequence comparison revealed that strain RS-2-3 was related to the members of the genus . The highest 16S rRNA gene sequence similarity value was observed with KMM 3905 (97.0 %). The peptidoglycan type of strain RS-2-3 was found to be A3α with an interpeptide bridge comprising -Ala. The predominant menaquinone was MK-7(H) and the major fatty acids were anteiso-C and iso-C. The DNA G+C content was 71.8 mol%. These characteristics were consistent with those of members of the genus . Meanwhile, physiological and biochemical characteristics revealed that strain RS-2-3 differed from the species of the genus with validly published names. Therefore, strain RS-2-3 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is RS-2-3 (=NBRC 110990=InaCC A704).

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2016-09-01
2020-01-19
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References

  1. Bala M., Kaur C., Kaur I., Khan F., Mayilraj S.. 2012; Kocuria sediminis sp. nov., isolated from a marine sediment sample. Antonie Van Leeuwenhoek101:469–478 [CrossRef][PubMed]
    [Google Scholar]
  2. Felsenstein J.. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol17:368–376 [CrossRef][PubMed]
    [Google Scholar]
  3. Felsenstein J.. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution39:783–791 [CrossRef]
    [Google Scholar]
  4. Fitch W. M.. 1971; Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool20:406–416[CrossRef]
    [Google Scholar]
  5. Hamada M., Yamamura H., Komukai C., Tamura T., Suzuki K., Hayakawa M.. 2012; Luteimicrobium album sp. nov., a novel actinobacterium isolated from a lichen collected in Japan, and emended description of the genus Luteimicrobium. J Antibiot65:427–431 [CrossRef][PubMed]
    [Google Scholar]
  6. Hamada M., Shibata C., Nurkanto A., Ratnakomala S., Lisdiyanti P., Tamura T., Suzuki K.. 2015; Serinibacter tropicus sp. nov., an actinobacterium isolated from the rhizosphere of a mangrove, and emended description of the genus Serinibacter. Int J Syst Evol Microbiol65:1151–1154 [CrossRef][PubMed]
    [Google Scholar]
  7. Kaur C., Kaur I., Raichand R., Bora T. C., Mayilraj S.. 2011; Description of a novel actinobacterium Kocuria assamensis sp. nov., isolated from a water sample collected from the river Brahmaputra, Assam, India. Antonie Van Leeuwenhoek99:721–726 [CrossRef][PubMed]
    [Google Scholar]
  8. 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 Microbiol54:1617–1620 [CrossRef][PubMed]
    [Google Scholar]
  9. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. et al. 2012; Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol62:716–721 [CrossRef][PubMed]
    [Google Scholar]
  10. Kimura M.. 1980; A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol16:111–120 [CrossRef][PubMed]
    [Google Scholar]
  11. Minnikin D. E., Collins M. D., Goodfellow M.. 1975; Fatty acid and polar lipid composition in the classification ofCellulomonas,Oerskovia and related taxa. JAppl Bacteriol47:87–95 [CrossRef]
    [Google Scholar]
  12. Saitou N., Nei M.. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol4:406–425[PubMed]
    [Google Scholar]
  13. Sasser M.. 1990; Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc;
  14. Schleifer K. H., Kandler O.. 1972; Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev36:407–477[PubMed]
    [Google Scholar]
  15. 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 Bacteriol45:682–692 [CrossRef][PubMed]
    [Google Scholar]
  16. Stackebrandt E., Schumann P.. 2012; Genus V. Kocuria. In Bergey’s Manual of Systematic Bacteriology, 2nd edn.vol. 5 pp626–635 Edited by Goodfellow M., Kämpfer P., Busse H. J., Trujillo M. E., Suzuki K., Ludwig. W., Whitman W. B.. New York: Springer;
    [Google Scholar]
  17. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S.. 2013; mega6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol30:2725–2729 [CrossRef][PubMed]
    [Google Scholar]
  18. 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 Res25:4876–4882 [CrossRef][PubMed]
    [Google Scholar]
  19. Tvrzová L., Schumann P., Sedlácek I., Pácová 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 Microbiol55:139–142 [CrossRef][PubMed]
    [Google Scholar]
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