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Abstract

An actinobacterium, designated strain CPCC 203993, was isolated from a rhizosphere soil sample collected from Heilongjiang Province, northeast China, and was characterized using a polyphasic taxonomy approach. Cells of the strain were Gram-stain-positive, non-motile and non-endospore-forming cocci. The 16S rRNA gene sequence comparison of strain CPCC 203993 with members of the genus yielded 93.9 % to 97.8 % similarities. In the phylogenetic tree based on 16S rRNA gene sequences, strain CPCC 203993 was affiliated to the clade of the genus next to DSM 22083, while the DNA–DNA hybridization value of 31.5 % (±1.8 %) between strain CPCC 203993 and DSM 22083 was far below 70 %. This result indicated that strain CPCC 203993 represented a different genomic species from Chemotaxonomically, the strain contained -2,6-diaminopimelic acid as the diagnostic diamino acid, MK-9(H) as the only menaquinone, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, three unidentified glycolipids and one unidentified phospholipid in the polar lipids extracts, and anteiso-C iso-C and iso-C as the major cellular fatty acids, without mycolic acids. The genomic DNA G+C content was 64.04 mol%. The above evidence from the polyphasic study merit the recognition of strain CPCC 203993 as a representative of a novel species of the genus , for which sp. nov. is proposed. The type strain is CPCC 203993 (=DSM 29529=NBRC 110715=KCTC 29689).

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2016-09-01
2024-12-12
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References

  1. An D. S., Im W. T., Yoon M. H. 2008; Microlunatus panaciterrae sp. nov. A Β-glucosidase-producing bacterium, isolated from soil in a ginseng field.. Int J Syst Evol Microbiol 58:2734–2738 [CrossRef]
    [Google Scholar]
  2. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230 [View Article][PubMed]
    [Google Scholar]
  3. Cui Y. S., Im W. T., Yin C. R., Yang D. C., Lee S. T. 2007; Microlunatus ginsengisoli sp. nov., isolated from soil of a ginseng field. Int J Syst Evol Microbiol 57:713–716 [View Article][PubMed]
    [Google Scholar]
  4. De Ley J., Cattoir H., Reynaerts A. 1970; The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12:133–142 [View Article][PubMed]
    [Google Scholar]
  5. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [View Article][PubMed]
    [Google Scholar]
  6. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [Google Scholar]
  7. Groth I., Schumann P., Rainey F. A., Martin K., Schuetze B., Augsten K. 1997; Demetria terragena gen. nov., sp. nov., a new genus of actinomycetes isolated from compost soil. Int J Syst Bacteriol 47:1129–1133 [View Article][PubMed]
    [Google Scholar]
  8. Kellogg J. A., Bankert D. A., Withers G. S., Sweimler W., Kiehn T. E., Pfyffer G. E. 2001; Application of the sherlock mycobacteria identification system using high-performance liquid chromatography in a clinical laboratory. J Clin Microbiol 39:964–970 [View Article][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 Microbiol 62:716–721 [View Article][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 Evol 16:111–120 [View Article][PubMed]
    [Google Scholar]
  11. Kimura M. 1983 The Neutral Theory of Molecular Evolution Cambridge: 263 Cambridge University Press; [CrossRef]
    [Google Scholar]
  12. Kluge A. G., Farris J. S. 1969; Quantitative phyletics and the evolution of Anurans. Syst Zool 18:1–32 [View Article]
    [Google Scholar]
  13. Kämpfer P., Young C. C., Busse H. J., Chu J. N., Schumann P., Arun A. B., Shen F. T., Rekha P. D. 2010a; Microlunatus soli sp. nov., isolated from soil. Int J Syst Evol Microbiol 60:824–827 [CrossRef]
    [Google Scholar]
  14. Kämpfer P., Schäfer J., Lodders N., Martin K. 2010b; Microlunatus parietis sp. nov., isolated from an indoor wall. Int J Syst Evol Microbiol 60:2420–2423 [View Article][PubMed]
    [Google Scholar]
  15. Lechevalier M. P., Lechevalier H. A. 1970; Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20:435–443 [View Article]
    [Google Scholar]
  16. Lechevalier M. P., Lechevalier H. A. 1980; The chemotaxonomy of actinomycetes. In Actinomycete Taxonomy (SIM Special Publication no. 6) pp 227–291 Edited by Society for Industrial Microbiology Dietz A., Thayer D. W. Fairfax: VA;
    [Google Scholar]
  17. 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 [View Article][PubMed]
    [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 [View Article][PubMed]
    [Google Scholar]
  19. 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 [View Article]
    [Google Scholar]
  20. Nakamura K., Hiraishi A., Yoshimi Y., Kawaharasaki M., Masuda K., Kamagata Y. 1995; Microlunatus phosphovorus gen. nov., sp. nov., a new gram-positive polyphosphate-accumulating bacterium isolated from activated sludge. Int J Syst Bacteriol 45:17–22 [View Article][PubMed]
    [Google Scholar]
  21. 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]
  22. Sasser M. 1990 Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids Technical Note, 101 Newark, DE: Microbial Inc;
    [Google Scholar]
  23. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [View Article]
    [Google Scholar]
  24. Stackebrandt E., Goebel B. M. 1994; Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Evol Microbiol 44:846–849 [View Article]
    [Google Scholar]
  25. 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 [View Article][PubMed]
    [Google Scholar]
  26. Tuo L., Li J., Liu S. W., Liu Y., Hu L., Chen L., Jiang M. G., Sun C. H. 2016; Microlunatus endophyticus sp. nov., an endophytic actinobacterium isolated from bark of Bruguiera sexangula . Int J Syst Evol Microbiol 66:481–486 [View Article][PubMed]
    [Google Scholar]
  27. Waksman S. A. 1961 The Actinomycetes, Classification, Identification and Description of Genera and Species vol. 2 Baltimore: Williams & Wilkins;
    [Google Scholar]
  28. Wang Y. X., Cai M., Zhi X. Y., Zhang Y. Q., Tang S. K., Xu L. H., Cui X. L., Li W. J. 2008; Microlunatus aurantiacus sp. nov., a novel actinobacterium isolated from a rhizosphere soil sample. Int J Syst Evol Microbiol 58:1873–1877 [View Article][PubMed]
    [Google Scholar]
  29. 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 reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464 [CrossRef]
    [Google Scholar]
  30. Williams S. T., Goodfellow M., Alderson G., Wellington E. M., Sneath P. H., Sackin M. J. 1983; Numerical classification of Streptomyces and related genera. J Gen Microbiol 129:1743–1813 [View Article][PubMed]
    [Google Scholar]
  31. 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 [View Article][PubMed]
    [Google Scholar]
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