1887

Abstract

A novel Gram-stain-positive, aerobic, motile, non-spore-forming coccus-shaped actinomycete, designated strain YIM 121300, was isolated from alkaline sediment in Yuanjiang, Yunnan province, south-west China. Phylogenetic analyses based on the 16S rRNA gene sequence showed that strain YIM 121300 was affiliated to the genus , and was closely related to IFO 15268 (97.3 % similarity). 16S rRNA gene sequence similarity to other species of the genus was < 97 %. The cell wall contained -diaminopimelic acid as the diagnostic diamino acid. The whole-cell sugars contained arabinose, galactose, glucose, mannose and ribose. The predominant menaquinone was MK-9(H). Mycolic acids were not detected. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannoside and an unknown phospholipid. The predominant fatty acids were anteiso-C and anteiso-C A. The G+C content of the genomic DNA was 75.1 mol%. DNA–DNA relatedness (55 ± 4 % to IFO 15268) and differential phenotypic data demonstrated that strain YIM 121300 was distinguished from all related species of the genus . On the basis of data from the present polyphasic study, the organism should be assigned to a novel species of the genus , for which the name sp. nov. is proposed. The type strain is YIM 121300 ( = CCTCC AA 2013232 = DSM 27627).

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2015-10-01
2019-10-22
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References

  1. Bian G.K. , Feng Z.Z. , Qin S. , Xing K. , Wang Z. , Cao C.L. , Liu C.H. , Dai C.C. , Jiang J.H. . ( 2012;). Kineococcus endophytica sp. nov., a novel endophytic actinomycete isolated from a coastal halophyte in Jiangsu, China. Antonie van Leeuwenhoek 102: 621–628 [CrossRef] [PubMed].
    [Google Scholar]
  2. Christensen H. , Angen O. , Mutters R. , Olsen J.E. , Bisgaard M. . ( 2000;). DNA-DNA hybridization determined in micro-wells using covalent attachment of DNA. Int J Syst Evol Microbiol 50: 1095–1102 [CrossRef] [PubMed].
    [Google Scholar]
  3. Collins M.D. , Jones D. . ( 1980;). Lipids in the classification and identification of coryneform bacteria containing peptidoglycans based on 2, 4-diaminobutyric acid. J Appl Bacteriol 48: 459–470 [CrossRef].
    [Google Scholar]
  4. 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]
  5. Duangmal K. , Thamchaipenet A. , Ara I. , Matsumoto A. , Takahashi Y. . ( 2008;). Kineococcus gynurae sp. nov., isolated from a Thai medicinal plant. Int J Syst Evol Microbiol 58: 2439–2442 [CrossRef] [PubMed].
    [Google Scholar]
  6. Euzéby J. . ( 2012;). List of new names and new combinations previously effectively, but not validly, published. Int J Syst Evol Microbiol 62: 2549–2554 [CrossRef].
    [Google Scholar]
  7. 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]
  8. Felsenstein J. . ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17: 368–376 [CrossRef] [PubMed].
    [Google Scholar]
  9. Felsenstein J. . ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783–791 [CrossRef].
    [Google Scholar]
  10. Fitch W.M. . ( 1971;). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20: 406–416 [CrossRef].
    [Google Scholar]
  11. Garrity G.M. , Lilburn T.G. , Cole J.R. , Harrison S.H. , Euzeby J. , Tindall B.J. . ( 2007;). Part 10—The Bacteria: phylum Actinobacteria: class ‘Actinobacteria’. In: The taxonomic outline of the Bacteria and Archaea . Release 7.7. http://www.taxonomicoutline.org/index.php/toba/article/view/187/219 .
  12. Hasegawa T. , Takizawa M. , Tanida S. . ( 1983;). A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Microbiol 29: 319–322 [CrossRef].
    [Google Scholar]
  13. He L. , Li W. , Huang Y. , Wang L. , Liu Z. , Lanoot B. , Vancanneyt M. , Swings J. . ( 2005;). Streptomyces jietaisiensis sp. nov., isolated from soil in northern China. Int J Syst Evol Microbiol 55: 1939–1944 [CrossRef] [PubMed].
    [Google Scholar]
  14. Jiang Y. , Tang S.K. , Wiese J. , Xu L.H. , Imhoff J.F. , Jiang C.L. . ( 2007;). Streptomyces hainanensis sp. nov., a novel member of the genus Streptomyces . Int J Syst Evol Microbiol 57: 2694–2698 [CrossRef] [PubMed].
    [Google Scholar]
  15. Jurado V. , Laiz L. , Ortiz-Martinez A. , Groth I. , Saiz-Jimenez C. . ( 2011;). Pseudokineococcus lusitanus gen. nov., sp. nov., and reclassification of Kineococcus marinus Lee 2006 as Pseudokineococcus marinus comb. nov. Int J Syst Evol Microbiol 61: 2515–2519 [CrossRef] [PubMed].
    [Google Scholar]
  16. Kelly A.T. , Fulton M. . ( 1953;). Use of triphenyl tetrazolium in motility test medium. Am J Clin Pathol 23: 512 [PubMed].
    [Google Scholar]
  17. 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]
  18. Küster E. , Williams S.T. . ( 1964;). Selection of media for isolation of Streptomycetes. Nature 202: 928–929 [CrossRef] [PubMed].
    [Google Scholar]
  19. Lechevalier M.P. , Lechevalier H. . ( 1970;). Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20: 435–443 [CrossRef].
    [Google Scholar]
  20. Lee S.D. . ( 2006;). Kineococcus marinus sp. nov., isolated from marine sediment of the coast of Jeju, Korea. Int J Syst Evol Microbiol 56: 1279–1283 [CrossRef] [PubMed].
    [Google Scholar]
  21. Lee S.D. . ( 2009;). Kineococcus rhizosphaerae sp. nov., isolated from rhizosphere soil. Int J Syst Evol Microbiol 59: 2204–2207 [CrossRef] [PubMed].
    [Google Scholar]
  22. Leifson E. . ( 1960;). Atlas of Bacterial Flagellation London: Academic Press;.[CrossRef]
    [Google Scholar]
  23. 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 [CrossRef] [PubMed].
    [Google Scholar]
  24. Liu M. , Peng F. , Wang Y. , Zhang K. , Chen G. , Fang C. . ( 2009;). Kineococcus xinjiangensis sp. nov., isolated from desert sand. Int J Syst Evol Microbiol 59: 1090–1093 [CrossRef] [PubMed].
    [Google Scholar]
  25. Maszenan A.M. , Tay J.H. , Schumann P. , Jiang H.L. , Tay S.T.L. . ( 2005;). Quadrisphaera granulorum gen. nov., sp. nov., a Gram-positive polyphosphate-accumulating coccus in tetrads or aggregates isolated from aerobic granules. Int J Syst Evol Microbiol 55: 1771–1777 [CrossRef] [PubMed].
    [Google Scholar]
  26. Mesbah M. , Premachandran U. , Whitman W.B. . ( 1989;). Precise measurement of the G+C content of deoxyribonucleic acid by high performance liquid chromatography. Int J Syst Bacteriol 39: 159–167 [CrossRef].
    [Google Scholar]
  27. Minnikin D.E. , Collins M.D. , Goodfellow M. . ( 1979;). Fatty acid and polar lipid composition in the classification of Cellulomonas . Oerskovia and related taxa. J Appl Bacteriol 47: 87–95 [CrossRef].
    [Google Scholar]
  28. Nie G.X. , Ming H. , Zhang J. , Feng H.G. , Li S. , Yu T.T. , Zhou E.M. , Tang S.K. , Li W.J. . ( 2012;). Kineococcus glutineturens sp. nov., isolated from soil in Yunnan, south-west China. Antonie van Leeuwenhoek 102: 239–246 [CrossRef] [PubMed].
    [Google Scholar]
  29. Pagani H. , Parenti F. . ( 1978;). Kineosporia, a new genus of the order Actinomycetales . Int J Syst Bacteriol 28: 401–406 [CrossRef].
    [Google Scholar]
  30. Phillips R.W. , Wiegel J. , Berry C.J. , Fliermans C. , Peacock A.D. , White D.C. , Shimkets L.J. . ( 2002;). Kineococcus radiotolerans sp. nov., a radiation-resistant, gram-positive bacterium. Int J Syst Evol Microbiol 52: 933–938 [CrossRef] [PubMed].
    [Google Scholar]
  31. 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]
  32. Sasser M. . ( 1990;). Identification of bacteria by gas chromatography of cellular fatty acids MIDI Technical Note 101 Newark, DE: MIDI Inc;.
    [Google Scholar]
  33. 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]
  34. 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 Bacteriol 44: 846–849 [CrossRef].
    [Google Scholar]
  35. Tamaoka J. , Katayama-Fujimura Y. , Kuraishi H. . ( 1983;). Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. J Appl Bacteriol 54: 31–36 [CrossRef].
    [Google Scholar]
  36. Tamura T. , Hayakawa M. , Hatano K. . ( 1998;). A new genus of the order Actinomycetales . Cryptosporangium gen. nov., with descriptions of Cryptosporangium arvum sp. nov. and Cryptosporangium japonicum sp. nov. Int J Syst Bacteriol 48: 995–1005 [CrossRef] [PubMed].
    [Google Scholar]
  37. Tamura T. , Ishida Y. , Otoguro M. , Yamamura H. , Hayakawa M. , Suzuki K. . ( 2010;). Angustibacter luteus gen. nov., sp. nov., isolated from subarctic forest soil. Int J Syst Evol Microbiol 60: 2441–2445 [CrossRef] [PubMed].
    [Google Scholar]
  38. Tamura K. , Stecher G. , Peterson D. , Filipski A. , Kumar S. . ( 2013;). mega6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30: 2725–2729 [CrossRef] [PubMed].
    [Google Scholar]
  39. Tang S.K. , Wang Y. , Chen Y. , Lou K. , Cao L.L. , Xu L.H. , Li W.J. . ( 2009;). Zhihengliuella alba sp. nov., and emended description of the genus Zhihengliuella . Int J Syst Evol Microbiol 59: 2025–2032 [CrossRef] [PubMed].
    [Google Scholar]
  40. 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 Res 25: 4876–4882 [CrossRef] [PubMed].
    [Google Scholar]
  41. 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 [CrossRef] [PubMed].
    [Google Scholar]
  42. Yokota A. , Tamura T. , Nishii T. , Hasegawa T. . ( 1993;). Kineococcus aurantiacus gen. nov., sp. nov., a new aerobic, Gram-positive, motile coccus with meso-diaminopimelic acid and arabinogalactan in the cell wall. Int J Syst Bacteriol 43: 52–57 [CrossRef].
    [Google Scholar]
  43. Zhi X.Y. , Li W.J. , Stackebrandt E. . ( 2009;). An update of the structure and 16S rRNA gene sequence-based definition of higher ranks of the class Actinobacteria, with the proposal of two new suborders and four new families and emended descriptions of the existing higher taxa. Int J Syst Evol Microbiol 59: 589–608 [CrossRef] [PubMed].
    [Google Scholar]
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