1887

Abstract

A Gram-negative, non-spore-forming, rod-shaped bacterium, designated strain DCY01, was isolated from soil from a ginseng field in South Korea and was characterized in order to determine its taxonomic position. 16S rRNA gene sequence analysis revealed that strain DCY01 belonged to the and was most closely related to KCTC 12211 (98.4 % similarity), R-32729 (97.2 %), R-32768 (97.1 %), DSM 50170 (96.9 %) and DSM 12575 (96.8 %). Chemotaxonomic analyses revealed that strain DCY01 possessed a quinone system with Q-8 as the predominant compound, and iso-C (28.2 %), C 10methyl (13.2 %), iso-C F (10.8 %) and C (7.5 %) as major fatty acids, corroborating assignment of strain DCY01 to the genus . The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The results of DNA–DNA hybridization and physiological and biochemical tests clearly demonstrated that strain DCY01 represents a species distinct from recognized species. Based on these data, DCY01 (=KCTC 12539=NBRC 101154) should be classified as the type strain of a novel species of the genus , for which the name sp. nov. is proposed.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.014662-0
2010-07-01
2024-03-28
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/60/7/1522.html?itemId=/content/journal/ijsem/10.1099/ijs.0.014662-0&mimeType=html&fmt=ahah

References

  1. Atlas R. M. 1993 Handbook of Microbiological Media Edited by Parks L. C. Boca Raton, FL: CRC Press;
    [Google Scholar]
  2. Buck J. D. 1982; Nonstaining (KOH) method for determination of Gram reactions of marine bacteria. Appl Environ Microbiol 44:992–993
    [Google Scholar]
  3. Cappuccino J. G., Sherman N. 2002 Microbiology: a Laboratory Manual , 6th edn. Menlo Park, CA: Benjamin/Cummings;
    [Google Scholar]
  4. Collins M. D., Jones D. 1981; Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implications. Microbiol Rev 45:316–354
    [Google Scholar]
  5. 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]
  6. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [CrossRef]
    [Google Scholar]
  7. 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]
  8. Heylen K., Vanparys B., Peirsegaele F., Lebbe L., De Vos P. 2007; Stenotrophomonas terrae sp. nov. and Stenotrophomonas humi sp. nov., two nitrate-reducing bacteria isolated from soil. Int J Syst Evol Microbiol 57:2056–2061 [CrossRef]
    [Google Scholar]
  9. 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
    [Google Scholar]
  10. Kimura M. 1983 The Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press;
    [Google Scholar]
  11. Kouker G., Jaeger K.-E. 1987; Specific and sensitive plate assay for bacterial lipase. Appl Environ Microbiol 53:211–213
    [Google Scholar]
  12. Kumar S., Tamura K., Jakobsen I. B., Nei M. 2001; mega2: molecular evolutionary genetics analysis software. Bioinformatics 17:1244–1245 [CrossRef]
    [Google Scholar]
  13. 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]
  14. Minnikin D. E., Patel P. V., Alshamaony L., Goodfellow M. 1977; Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 27:104–117 [CrossRef]
    [Google Scholar]
  15. Moore E. R., Krüger A. S., Hauben L., Seal S. E., De Baere R., De Wachter R., Timmis K. N., Swings J. 1997; 16S rRNA gene sequence analyses and inter- and intrageneric relationship of Xanthomonas species and Stenotrophomonas maltophilia . FEMS Microbiol Lett 151:145–153 [CrossRef]
    [Google Scholar]
  16. Palleroni N. J., Bradbury J. F. 1993; Stenotrophomonas , a new bacterial genus for Xanthomonas maltophilia ; (Hugh 1980; Swings et al. 1983. Int J Syst Bacteriol 43:606–609 [CrossRef]
    [Google Scholar]
  17. Roumagnac P., Gagnevin L., Gardan L., Sutra L., Manceau C., Dickstein E. R., Jones J. B., Rott P., Pruvost O. 2004; Polyphasic characterization of Xanthomonas isolated from onion, garlic and Welsh onion ( Allium spp.) and their relatedness to different Xanthomonas species. Int J Syst Evol Microbiol 54:15–24 [CrossRef]
    [Google Scholar]
  18. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
    [Google Scholar]
  19. Sasser M. 1990 Identification of bacteria by gas chromatography of cellular fatty acids , MIDI Technical Note 101 Newark, DE: MIDI Inc;
    [Google Scholar]
  20. Shin Y. K., Lee J.-S., Chun C. O., Kim H.-J., Park Y.-H. 1996; Isoprenoid quinone profiles of the Leclercia adecarboxylata KCTC 1036T . J Microbiol Biotechnol 6:68–69
    [Google Scholar]
  21. 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]
  22. Tamaoka J., Komagata K. 1984; Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128 [CrossRef]
    [Google Scholar]
  23. 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]
    [Google Scholar]
  24. 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]
    [Google Scholar]
  25. 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]
  26. Weisburg W. G., Barns S. M., Pelletier D. A., Lane D. J. 1991; 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173:697–703
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.014662-0
Loading
/content/journal/ijsem/10.1099/ijs.0.014662-0
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