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).

Funding
This study was supported by the:
  • , National Outstanding Youth Foundation , (Award 31225024)
  • , National Key Project for Basic Research , (Award 2010CB126102)
  • , National Natural Science Foundation of China , (Award 30771427 and 30971937)
  • , Special Foundation for Scientific and Technological Innovation Research of Harbin , (Award 2011RFXXN038)
  • , Natural Science Foundation of Heilongjiang Province , (Award C201029)
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2014-04-01
2020-08-04
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References

  1. Asano K., Kawamoto I. ( 1986 ). Catellatospora, a new genus of the Actinomycetales . . Int J Syst Bacteriol 36, 512517. [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, 16231630. [CrossRef] [PubMed]
    [Google Scholar]
  3. Collins M. D. ( 1985 ). Isoprenoid quinone analyses in bacterial classification and identification. . In Chemical Methods in Bacterial Systematics , pp. 267284. 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, 133142. [CrossRef] [PubMed]
    [Google Scholar]
  5. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368376. [CrossRef] [PubMed]
    [Google Scholar]
  6. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783791. [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, 1936. [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, 5463. [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, 501509. [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, 184192. [CrossRef] [PubMed]
    [Google Scholar]
  11. Kämpfer P., Kroppenstedt R. M., Grün-Wollny I. ( 2005 ). Nonomuraea kuesteri sp. nov.. Int J Syst Evol Microbiol 55, 847851. [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, 716721. [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, 111120. [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, 435443. [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. 227291. 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, 245250. [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, 8191. [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, 195206.
    [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, 178182. [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, 221233. [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, 233241. [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, 904912.
    [Google Scholar]
  24. Quintana E., Maldonado L., Goodfellow M. ( 2003 ). Nonomuraea terrinata sp. nov., a novel soil actinomycete. . Antonie van Leeuwenhoek 84, 16. [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, 406425.[PubMed]
    [Google Scholar]
  26. Shirling E. B., Gottlieb D. ( 1966 ). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol 16, 313340. [CrossRef]
    [Google Scholar]
  27. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607654. 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, 479491. [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, 27312739. [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, 13041308. [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, 463464. [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, 17431813.[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, 176178. [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, 11651169. [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, 805812. [CrossRef]
    [Google Scholar]
  38. Zhang Z., Wang Y., Ruan J. ( 1998 ). Reclassification of Thermomonospora and Microtetraspora . . Int J Syst Bacteriol 48, 411422. [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, 5764.[PubMed] [CrossRef]
    [Google Scholar]
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