1887

Abstract

A novel actinomycete, designated strain NEAU-dht8, was isolated from the rhizosphere soil of rehmannia ( Libosch) and characterized using a polyphasic approach. The organism was found to have morphological and chemotaxonomic characteristics typical of the genus . The G+C content of the DNA was 68.47 mol%. On the basis of 16S rRNA gene sequence similarity studies, strain NEAU-dht8 was most closely related to 16-5-14 (99.31 %), GW 14-1925 (98.77 %), JCM 13931 (98.71 %), 210417 (98.44 %), 5-10-10 (98.36 %) and DSM 43678 (98.0 %); similarities to other species of the genus were lower than 98 %. Two tree-making algorithms based on 16S rRNA gene sequences showed that the isolate formed a phyletic line with its closest neighbour 16-5-14. However, the low level of DNA–DNA relatedness allowed the novel isolate to be differentiated from 16-5-14. Strain NEAU-dht8 could also be differentiated from other species of the genus showing high 16S rRNA gene sequence similarity (98–98.77 %) by morphological and physiological characteristics. Thus, strain NEAU-dht8 is considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is NEAU-dht8 ( = CGMCC 4.7104 = DSM 45880).

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2014-04-01
2019-10-21
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References

  1. Asano K. , Kawamoto I. . ( 1986; ). Catellatospora, a new genus of the Actinomycetales . . Int J Syst Bacteriol 36:, 512–517. [CrossRef]
    [Google Scholar]
  2. Chiba S. , Suzuki M. , Ando K. . ( 1999; ). Taxonomic re-evaluation of ‘Nocardiopsis’ sp. K-252T ( = NRRL 15532T): a proposal to transfer this strain to the genus Nonomuraea as Nonomuraea longicatena sp. nov.. Int J Syst Bacteriol 49:, 1623–1630. [CrossRef] [PubMed]
    [Google Scholar]
  3. Collins M. D. . ( 1985; ). Isoprenoid quinone analyses in bacterial classification and identification. . In Chemical Methods in Bacterial Systematics , pp. 267–284. Edited by Goodfellow M. , Minnikin D. E. . . London:: Academic Press;.
    [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. [CrossRef] [PubMed]
    [Google Scholar]
  5. Felsenstein J. . ( 1981; ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17:, 368–376. [CrossRef] [PubMed]
    [Google Scholar]
  6. Felsenstein J. . ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39:, 783–791. [CrossRef]
    [Google Scholar]
  7. Goodfellow M. , Stanton L. J. , Simpson K. E. , Minnikin D. E. . ( 1990; ). Numerical and chemical classification of Actinoplanes and related actinomycetes. . J Gen Microbiol 136:, 19–36. [CrossRef]
    [Google Scholar]
  8. Gordon R. E. , Barnett D. A. , Handerhan J. E. , Pang C. . ( 1974; ). Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. . Int J Syst Bacteriol 24:, 54–63. [CrossRef]
    [Google Scholar]
  9. Hayakawa M. , Nonomura H. . ( 1987; ). Humic acid-vitamin agar, a new medium for the selective isolation of soil actinomycetes. . J Ferment Technol 65:, 501–509. [CrossRef]
    [Google Scholar]
  10. 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] [PubMed]
    [Google Scholar]
  11. Kämpfer P. , Kroppenstedt R. M. , Grün-Wollny I. . ( 2005; ). Nonomuraea kuesteri sp. nov.. Int J Syst Evol Microbiol 55:, 847–851. [CrossRef] [PubMed]
    [Google Scholar]
  12. Kelly K. L. . ( 1964; ). Inter-Society Color Council – National Bureau of Standards Color Name Charts Illustrated with Centroid Colors. Washington, DC:: US Government Printing;.
    [Google Scholar]
  13. Kim O. S. , Cho Y. J. , Lee K. , Yoon S. H. , Kim M. , Na H. , Park S. C. , Jeon Y. S. , Lee J. H. . & other authors ( 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]
  14. 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] [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. [CrossRef]
    [Google Scholar]
  16. Lechevalier M. P. , Lechevalier H. A. . ( 1980; ). The chemotaxonomy of actinomycetes. . In Actinomycete Taxonomy (Society for Industrial Microbiology Special Publication no. 6), pp. 227–291. Edited by Dietz A. , Thayer D. W. . . Arlington, VA:: Society of Industrial Microbiology;.
    [Google Scholar]
  17. Lee Y. K. , Kim H. W. , Liu C. L. , Lee H. K. . ( 2003; ). A simple method for DNA extraction from marine bacteria that produce extracellular materials. . J Microbiol Methods 52:, 245–250. [CrossRef] [PubMed]
    [Google Scholar]
  18. Loqman S. , Barka E. A. , Clément C. , Ouhdouch Y. . ( 2009; ). Antagonistic actinomycetes from Moroccan soil to control the grapevine gray mold. . World J Microbiol Biotechnol 25:, 81–91. [CrossRef]
    [Google Scholar]
  19. Mandel M. , Marmur J. . ( 1968; ). Use of ultraviolet absorbance temperature profile for determining the guanine plus cytosine content of DNA. . Methods Enzymol 12B:, 195–206.
    [Google Scholar]
  20. McKerrow J. , Vagg S. , McKinney T. , Seviour E. M. , Maszenan A. M. , Brooks P. , Seviour R. J. . ( 2000; ). A simple HPLC method for analysing diaminopimelic acid diastereomers in cell walls of Gram-positive bacteria. . Lett Appl Microbiol 30:, 178–182. [CrossRef] [PubMed]
    [Google Scholar]
  21. Minnikin D. E. , Hutchinson I. G. , Caldicott A. B. , Goodfellow M. . ( 1980; ). Thin-layer chromatography of methanolysates of mycolic acid-containing bacteria. . J Chromatogr A 188:, 221–233. [CrossRef]
    [Google Scholar]
  22. 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. [CrossRef]
    [Google Scholar]
  23. Nonomura H. , Ohara Y. . ( 1971; ). Distribution of actinomycetes in soil. XI. Some new species of the genus Actinomadura Lechevalier et al. . J Ferment Technol 49:, 904–912.
    [Google Scholar]
  24. Quintana E. , Maldonado L. , Goodfellow M. . ( 2003; ). Nonomuraea terrinata sp. nov., a novel soil actinomycete. . Antonie van Leeuwenhoek 84:, 1–6. [CrossRef] [PubMed]
    [Google Scholar]
  25. 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]
  26. Shirling E. B. , Gottlieb D. . ( 1966; ). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol 16:, 313–340. [CrossRef]
    [Google Scholar]
  27. Smibert R. M. , Krieg N. R. . ( 1994; ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607–654. Edited by Gerhardt P. , Murray R. G. E. , Wood W. A. , Krieg N. R. . . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  28. Stackebrandt E. , Rainey F. A. , Ward-Rainey N. L. . ( 1997; ). Proposal for a new hierarchic classification system, Actinobacteria classis nov.. Int J Syst Bacteriol 47:, 479–491. [CrossRef]
    [Google Scholar]
  29. 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]
  30. Waksman S. A. . ( 1950; ). The Actinomycetes. Their Nature, Occurrence, Activities and Importance. Waltham, MA:: Chronica Botanica;.
    [Google Scholar]
  31. Waksman S. A. . ( 1961; ). The Actinomycetes. Classification, Identification and Description of Genera and Species, vol. 2. Baltimore:: Williams & Wilkins;.
    [Google Scholar]
  32. Wang F. , Xu X. X. , Qu Z. , Wang C. , Lin H. P. , Xie Q. Y. , Ruan J. S. , Sun M. , Hong K. . ( 2011; ). Nonomuraea wenchangensis sp. nov., isolated from mangrove rhizosphere soil. . Int J Syst Evol Microbiol 61:, 1304–1308. [CrossRef] [PubMed]
    [Google Scholar]
  33. 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. . & 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]
  34. 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]
  35. Wu C. , Lu X. , Qin M. , Wang Y. , Ruan J. . ( 1989; ). Analysis of menaquinone compound in microbial cells by HPLC. . Microbiology [English translation of Microbiology (Beijing)] 16:, 176–178. [CrossRef]
    [Google Scholar]
  36. Xiang W. S. , Liu C. X. , Wang X. J. , Du J. , Xi L. J. , Huang Y. . ( 2011; ). Actinoalloteichus nanshanensis sp. nov., isolated from the rhizosphere of a fig tree (Ficus religiosa). . Int J Syst Evol Microbiol 61:, 1165–1169. [CrossRef] [PubMed]
    [Google Scholar]
  37. Yokota A. , Tamura T. , Hasegawa T. , Huang L. H. . ( 1993; ). Catenuloplanes japonicas gen. nov., sp. nov., nom. rev., a new genus of the order Actinomycetales . . Int J Syst Bacteriol 43:, 805–812. [CrossRef]
    [Google Scholar]
  38. Zhang Z. , Wang Y. , Ruan J. . ( 1998; ). Reclassification of Thermomonospora and Microtetraspora . . Int J Syst Bacteriol 48:, 411–422. [CrossRef] [PubMed]
    [Google Scholar]
  39. Zhang Y. , Zhao J. , Liu C. , Shen Y. , Jia F. , Wang X. , Xiang W. . ( 2014; ). Nonomuraea shaanxiensis sp. nov., a novel actinomycete isolated from a soil sample. . Antonie van Leeuwenhoek 105:, 57–64.[PubMed] [CrossRef]
    [Google Scholar]
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