1887

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).

Funding
This study was supported by the:
  • Ministry of Environment of the Republic of Korea (Award 071-081-133)
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.026435-0
2011-09-01
2024-04-19
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/61/9/2123.html?itemId=/content/journal/ijsem/10.1099/ijs.0.026435-0&mimeType=html&fmt=ahah

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 [View Article][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 [View Article][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 [View Article]
    [Google Scholar]
  7. Felsenstein J. 1985; Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [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 [View Article]
    [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 [View Article]
    [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 [View Article][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 [View Article][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 [View Article][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 [View Article][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 [View Article]
    [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 [View Article][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 [View Article]
    [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 [View Article][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 [View Article][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 [View Article][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 [View Article][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 [View Article]
    [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]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.026435-0
Loading
/content/journal/ijsem/10.1099/ijs.0.026435-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF
This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error