1887

Abstract

The taxonomic status of a rhizospheric soil actinomycete, designated R8-39, was established using a polyphasic approach. The organism had phenotypic and morphological characteristics consistent with its classification in the genus . Phylogenetic analysis based on an almost complete 16S rRNA gene sequence showed that the strain formed a monophyletic clade with the type strains of members of the genus . Strain R8-39 displayed the highest levels of 16S rRNA gene sequence similarity to DSM 44149 (98.8 %) and YIM 120521 (98.3 %). However, the DNA–DNA hybridization values between strain R8-39 and and were clearly below the 70 % threshold. The organism was found to have chemical characteristics consistent with its classification in the genus . Whole-cell hydrolysates contained -diaminopimelic acid, arabinose, galactose, glucose, mannose, rhamnose and ribose. The main menaquinone was MK-9(H). No mycolic acid was detected. The G+C content of the genomic DNA was 71.8 mol%. In addition, strain R8-39 had a phenotypic profile that readily distinguished it from recognized representatives of the genus . It is evident from the combined genotypic and phenotypic properties that strain R8-39 represents a novel species of the genus . The proposed name for this species is sp. nov.; the type strain is R8-39 ( = BCC 60399 = NBRC 109649).

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2014-10-01
2019-11-19
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References

  1. Becker B. , Lechevalier M. P. , Lechevalier H. A. . ( 1965; ). Chemical composition of cell-wall preparations from strains of various form-genera of aerobic actinomycetes. . Appl Microbiol 13:, 236–243.[PubMed]
    [Google Scholar]
  2. Cao Y. R. , Chen X. , Jiang Y. , Wang L. S. , Jiang C. L. . ( 2013; ). Allokutzneria multivorans sp. nov., an actinomycete isolated from soil. . Int J Syst Evol Microbiol 63:, 4254–4258. [CrossRef] [PubMed]
    [Google Scholar]
  3. Collins M. D. , Pirouz T. , Goodfellow M. , Minnikin D. E. . ( 1977; ). Distribution of menaquinones in actinomycetes and corynebacteria. . J Gen Microbiol 100:, 221–230. [CrossRef] [PubMed]
    [Google Scholar]
  4. Ezaki T. , Hashimoto Y. , Yabuuchi E. . ( 1989; ). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. . Int J Syst Bacteriol 39:, 224–229. [CrossRef]
    [Google Scholar]
  5. Felsenstein J. . ( 1993; ). phylip (phylogenetic inference package) version 3.5c. Distributed by the author. . Department of Genome Sciences, University of Washington, Seattle, USA.
  6. Fitch W. M. . ( 1971; ). Toward defining the course of evolution: minimal change for a specific tree topology. . Syst Zool 20:, 406–416.[CrossRef]
    [Google Scholar]
  7. Gordon R. E. , Mihm J. M. . ( 1957; ). A comparative study of some strains received as nocardiae. . J Bacteriol 73:, 15–27.[PubMed]
    [Google Scholar]
  8. 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. [CrossRef]
    [Google Scholar]
  9. Hasegawa T. , Takizawa M. , Tanida S. . ( 1983; ). A rapid analysis for chemical grouping of aerobic actinomycetes. . J Gen Appl Microbiol 29:, 319–322. [CrossRef]
    [Google Scholar]
  10. Jacobson E. , Grauville W. C. , Fogs C. E. . ( 1958; ). Color Harmony Manual, , 4th edn.. Chicago:: Container Corporation of America;.
    [Google Scholar]
  11. Kieser T. , Bibb M. J. , Buttner M. J. , Chater K. F. , Hopwood D. A. . ( 2000; ). Practical Streptomyces Genetics. Norwich:: John Innes Foundation;.
    [Google Scholar]
  12. 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 Microbiol 62:, 716–721. [CrossRef] [PubMed]
    [Google Scholar]
  13. Küster E. , Williams S. T. . ( 1964; ). Selection of media for isolation of Streptomycetes . . Nature 202:, 928–929. [CrossRef] [PubMed]
    [Google Scholar]
  14. Labeda D. P. , Kroppenstedt R. M. . ( 2008; ). Proposal for the new genus Allokutzneria gen. nov. within the suborder Pseudonocardineae and transfer of Kibdelosporangium albatum Tomita et al. 1993 as Allokutzneria albata comb. nov.. Int J Syst Evol Microbiol 58:, 1472–1475. [CrossRef] [PubMed]
    [Google Scholar]
  15. Lane D. J. . ( 1991; ). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115–148. Edited by Stackebrandt E. , Goodfellow M. . . Chichester:: Wiley;.
    [Google Scholar]
  16. Mingma R. , Pathom-aree W. , Trakulnaleamsai S. , Thamchaipenet A. , Duangmal K. . ( 2014; ). Isolation of rhizospheric and roots endophytic actinomycetes from Leguminosae plant and their activities to inhibit soybean pathogen, Xanthomonas campestris pv. glycine . . World J Microbiol Biotechnol 30:, 271–280. [CrossRef] [PubMed]
    [Google Scholar]
  17. 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]
  18. 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]
  19. Sasser M. . ( 1990; ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. . Newark, DE:: MIDI Inc;.
  20. Shirling E. B. , Gottlieb D. . ( 1966; ). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol 16:, 313–340. [CrossRef]
    [Google Scholar]
  21. Stackebrandt E. , Ebers J. . ( 2006; ). Taxonomic parameters revisited: tarnished gold standards. . Microbiol Today 33:, 152–155.
    [Google Scholar]
  22. Tamaoka J. , Komagata K. . ( 1984; ). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. . FEMS Microbiol Lett 25:, 125–128. [CrossRef]
    [Google Scholar]
  23. Tamura K. , Peterson D. , Peterson N. , Stecher G. , Nei M. , Kumar S. . ( 2011; ). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. . Mol Biol Evol 28:, 2731–2739. [CrossRef] [PubMed]
    [Google Scholar]
  24. Tomita K. , Hoshino Y. , Miyaki T. . ( 1993; ). Kibdelosporangium albatum sp. nov., producer of the antiviral antibiotics cycloviracins. . Int J Syst Bacteriol 43:, 297–301. [CrossRef] [PubMed]
    [Google Scholar]
  25. Tomiyasu I. . ( 1982; ). Mycolic acid composition and thermally adaptative changes in Nocardia asteroides . . J Bacteriol 151:, 828–837.[PubMed]
    [Google Scholar]
  26. Uchida K. , Aida K. . ( 1984; ). An improved method for the glycolate test for simple identification of the acyl type of bacterial cell walls. . J Gen Appl Microbiol 30:, 131–134. [CrossRef]
    [Google Scholar]
  27. 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. et al. ( 1987; ). International Committee on Systematic Bacteriology. Report of the ad hoc committee on the reconciliation of approaches to bacterial systematics. . Int J Syst Bacteriol 37:, 463–464. [CrossRef]
    [Google Scholar]
  28. Williams S. T. , Goodfellow M. , Alderson G. , Wellington E. M. H. , Sneath P. H. A. , Sackin M. J. . ( 1983; ). Numerical classification of Streptomyces and related genera. . J Gen Microbiol 129:, 1743–1813.[PubMed]
    [Google Scholar]
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