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Abstract

A Gram-negative-staining, motile, rod-shaped, aerobic bacterial strain, designated MJ02, was isolated from sludge of a leachate treatment plant in Daejeon (South Korea) and was characterized to determine its taxonomic position by using a polyphasic approach. Comparative 16S rRNA gene sequence analysis showed that strain MJ02 belonged to the family , class , and was most closely related to MS4 (97.6 % sequence similarity) and DC-196 (97.5 %). The G+C content of the genomic DNA of strain MJ02 was 64.3 mol%. The detection of a quinone system with ubiquinone Q-10 as the predominant respiratory lipoquinone and a fatty acid profile with Cω7 (45.8 %) and C (21.8 %) as the major components supported the affiliation of strain MJ02 to the genus . However, strain MJ02 exhibited relatively low levels of DNA–DNA relatedness with respect to DSM 21319 (17±7 %) and KACC 14483 (12±6 %), showing clearly that the isolate constituted a new genospecies. Strain MJ02 could be clearly differentiated from its phylogenetic neighbours on the basis of several phenotypic, genotypic and chemotaxonomic features. Therefore, strain MJ02 is considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is MJ02 ( = KCTC 22450 = JCM 16236).

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2011-09-01
2019-10-24
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References

  1. An D. S. , Im W. T. , Yang H. C. , Lee S. T. . ( 2006; ). Shinella granuli gen. nov., sp. nov., and proposal of the reclassification of Zoogloea ramigera ATCC 19623 as Shinella zoogloeoides sp. nov.. Int J Syst Evol Microbiol 56:, 443–448. [CrossRef] [PubMed]
    [Google Scholar]
  2. Cappuccino J. G. , Sherman N. . ( 2002; ). Microbiology: a Laboratory Manual, , 6th edn.. Menlo Park, CA:: Benjamin/Cummings;.
    [Google Scholar]
  3. Chun J. , Lee J.-H. , Jung Y. , Kim M. , Kim S. , Kim B. K. , Lim Y. W. . ( 2007; ). EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. . Int J Syst Evol Microbiol 57:, 2259–2261. [CrossRef] [PubMed]
    [Google Scholar]
  4. Collins M. D. , Jones D. . ( 1981; ). Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implication. . Microbiol Rev 45:, 316–354.[PubMed]
    [Google Scholar]
  5. Collins C. H. , Lyne P. M. . ( 1984; ). Microbiological Methods, , 5th edn.. London:: Butterworth;.
    [Google Scholar]
  6. 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]
  7. Felsenstein J. . ( 1985; ). Confidence limit on phylogenies: an approach using the bootstrap. . Evolution 39:, 783–791. [CrossRef]
    [Google Scholar]
  8. 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]
  9. Hall T. A. . ( 1999; ). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. . Nucleic Acids Symp Ser 41:, 95–98.
    [Google Scholar]
  10. Hiraishi A. , Ueda Y. , Ishihara J. , Mori T. . ( 1996; ). Comparative lipoquinone analysis of influent sewage and activated sludge by high-performance liquid chromatography and photodiode array detection. . J Gen Appl Microbiol 42:, 457–469. [CrossRef]
    [Google Scholar]
  11. Im W.-T. , Bae H.-S. , Yokota A. , Lee S. T. . ( 2004; ). Herbaspirillum chlorophenolicum sp. nov., a 4-chlorophenol-degrading bacterium. . Int J Syst Evol Microbiol 54:, 851–855. [CrossRef] [PubMed]
    [Google Scholar]
  12. Im W.-T. , Kim S.-H. , Kim M. K. , Ten L. N. , Lee S. T. . ( 2006; ). Pleomorphomonas koreensis sp. nov., a nitrogen-fixing species in the order Rhizobiales . . Int J Syst Evol Microbiol 56:, 1663–1666. [CrossRef] [PubMed]
    [Google Scholar]
  13. Kim M. K. , Im W.-T. , Ohta H. , Lee M. , Lee S.-T. . ( 2005; ). Sphingopyxis granuli sp. nov., a β-glucosidase-producing bacterium in the family Sphingomonadaceae in α-4 subclass of the Proteobacteria . . J Microbiol 43:, 152–157.[PubMed]
    [Google Scholar]
  14. Kimura M. . ( 1983; ). The Neutral Theory of Molecular Evolution. Cambridge:: Cambridge University Press;.[CrossRef]
    [Google Scholar]
  15. Lin D. X. , Wang E. T. , Tang H. , Han T. X. , He Y. R. , Guan S. H. , Chen W. X. . ( 2008; ). Shinella kummerowiae sp. nov., a symbiotic bacterium isolated from root nodules of the herbal legume Kummerowia stipulacea . . Int J Syst Evol Microbiol 58:, 1409–1413. [CrossRef] [PubMed]
    [Google Scholar]
  16. Matsui T. , Shinzato N. , Tamaki H. , Muramatsu M. , Hanada S. . ( 2009; ). Shinella yambaruensis sp. nov., a 3-methyl-sulfolane-assimilating bacterium isolated from soil. . Int J Syst Evol Microbiol 59:, 536–539. [CrossRef] [PubMed]
    [Google Scholar]
  17. 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]
  18. Moore D. D. , Dowhan D. . ( 1995; ). Preparation and analysis of DNA. . In Current Protocols in Molecular Biology, pp. 2–11. Edited by Ausubel F. M. , Brent R. , Kingston R. E. , Moore D. D. , Seidman J. G. , Smith J. A. , Struhl K. . . New York:: Wiley;.
    [Google Scholar]
  19. Poly F. , Monrozier L. J. , Bally R. . ( 2001; ). Improvement in the RFLP procedure for studying the diversity of nifH genes in communities of nitrogen fixers in soil. . Res Microbiol 152:, 95–103. [CrossRef] [PubMed]
    [Google Scholar]
  20. 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]
  21. Sasser M. . ( 1990; ). Identification of bacteria through fatty acid analysis. . In Methods in Phytobacteriology, pp. 199–204. Edited by Klement Z. , Rudolph K. , Sands D. C. . . Budapest:: Akademiai Kaido;.
    [Google Scholar]
  22. 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]
  23. Tamura K. , Dudley J. , Nei M. , Kumar S. . ( 2007; ). mega4: molecular evolutionary genetic analysis (mega) software version 4.0. . Mol Biol Evol 24:, 1596–1599. [CrossRef] [PubMed]
    [Google Scholar]
  24. Ten L. N. , Im W.-T. , Kim M.-K. , Kang M.-S. , Lee S.-T. . ( 2004; ). Development of a plate technique for screening of polysaccharide-degrading microorganisms by using a mixture of insoluble chromogenic substrates. . J Microbiol Methods 56:, 375–382. [CrossRef] [PubMed]
    [Google Scholar]
  25. 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]
  26. Tindall J. B. , Sikorski J. , Simbert A. R. , Krieg R. N. . ( 2007; ). Phenotypic characterization and the principles of comparative systematics. . In Methods for General and Molecular Microbiology, , 3rd edn., pp. 330–393. Edited by Reddy C. A. , Beveridge T. J. , Breznak J. A. , Marzluf G. A. , Schmidt T. M. , Snyder L. R. . . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  27. Vaz-Moreira I. , Faria C. , Lopes A. R. , Svensson L. A. , Moore E. R. B. , Nunes O. C. , Manaia C. M. . ( 2010; ). Shinella fusca sp. nov., isolated from domestic waste compost. . Int J Syst Evol Microbiol 60:, 144–148. [CrossRef] [PubMed]
    [Google Scholar]
  28. 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]
  29. Yokota A. , Akagawa-Matsushita M. , Hiraishi A. , Katayama Y. , Urakami T. , Yamasato K. . ( 1992; ). Distribution of quinone systems in microorganisms: gram-negative eubacteria. . Bull Jpn Fed Cult Coll 8:, 136–171.
    [Google Scholar]
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vol. , part 9, pp. 2123 - 2128

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