1887

Abstract

A Gram-stain negative, facultatively anaerobic, non-motile, rod-shaped bacterium, designated strain THG-A13, was isolated from rhizosphere soil in Gyeonggi-do, Republic of Korea. Based on 16S rRNA gene sequence comparisons, strain THG-A13 had close similarity with GH34-4 (98.5 %), YC6269 (97.9 %) and GH19-3 (97.3 %). Chemotaxonomic data revealed that strain THG-A13 possesses ubiquinone-8 (Q8) as the predominant isoprenoid quinone and iso-C, iso-C and iso-Cω9 as the major fatty acids. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol) and diphosphatidylglycerol. The G+C content was 66.3 mol%. The DNA–DNA relatedness values between strain THG-A13 and its closest phylogenetic neighbours were below 18.0 %. These data corroborated the affiliation of strain THG-A13 to the genus . These data suggest that the isolate represents a novel species for which the name sp. nov. is proposed, with THG-A13 as the type strain ( = KACC 17646 = JCM 19613).

Funding
This study was supported by the:
  • Kyung Hee University (Award 20120115)
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.067397-0
2015-02-01
2024-03-29
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/2/587.html?itemId=/content/journal/ijsem/10.1099/ijs.0.067397-0&mimeType=html&fmt=ahah

References

  1. Aslam Z., Yasir M., Jeon C. O., Chung Y. R. ( 2009 ). Lysobacter oryzae sp. nov., isolated from the rhizosphere of rice (Oryza sativa L.). . Int J Syst Evol Microbiol 59, 675680. [View Article] [PubMed]
    [Google Scholar]
  2. Christensen P., Cook F. D. ( 1978 ). Lysobacter, a new genus of nonfruiting, gliding bacteria with a high base ratio. . Int J Syst Bacteriol 28, 367393. [View Article]
    [Google Scholar]
  3. Collins M. D., Jones D. ( 1981 ). Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implication. . Microbiol Rev 45, 316354.[PubMed]
    [Google Scholar]
  4. 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, 224229. [View Article]
    [Google Scholar]
  5. Fautz E., Reichenbach H. ( 1980 ). A simple test for flexirubin-type pigments. . FEMS Microbiol Ecol 8, 8791. [View Article]
    [Google Scholar]
  6. Felsenstein J. ( 1985 ). Confidence limit on phylogenies: an approach using the bootstrap. . Evolution 39, 783791. [View Article]
    [Google Scholar]
  7. Hall T. A. ( 1999 ). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. . Nucl Acids Symp Ser 41, 9598.
    [Google Scholar]
  8. Hashizume H., Hattori S., Igarashi M., Akamatsu Y. ( 2004 ). Tripropeptin E, a new tripropeptin group antibiotic produced by Lysobacter sp. BMK333-48F3. . J Antibiot (Tokyo) 57, 394399. [View Article] [PubMed]
    [Google Scholar]
  9. 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, 457469. [View Article]
    [Google Scholar]
  10. 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. [View Article] [PubMed]
    [Google Scholar]
  11. Kimura M. ( 1983 ). The Neutral Theory of Molecular Evolution. Cambridge:: Cambridge University Press;. [View Article]
    [Google Scholar]
  12. Kumar S., Nei M., Dudley J., Tamura K. ( 2008 ). mega: a biologist-centric software for evolutionary analysis of DNA and protein sequences. . Brief Bioinform 9, 299306. [View Article] [PubMed]
    [Google Scholar]
  13. Lee J. W., Im W. T., Kim M. K., Yang D. C. ( 2006 ). Lysobacter koreensis sp. nov., isolated from a ginseng field. . Int J Syst Evol Microbiol 56, 231235. [View Article] [PubMed]
    [Google Scholar]
  14. Luo G., Shi Z., Wang G. ( 2012 ). Lysobacter arseniciresistens sp. nov., an arsenite-resistant bacterium isolated from iron-mined soil. . Int J Syst Evol Microbiol 62, 16591665. [View Article] [PubMed]
    [Google Scholar]
  15. 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, 159167. [View Article]
    [Google Scholar]
  16. 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, 104117. [View Article]
    [Google Scholar]
  17. Minnikin D. E., O’Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal A., Parleet J. H. ( 1984 ). An intergrated procedure for the extraction of bacterial isoprenoid quinines and polar lipids. . J Microbiol Methods 2, 233241. [View Article]
    [Google Scholar]
  18. Moore D. D., Dowhan D. ( 1995 ). Preparation and analysis of DNA. . In Current Protocols in Molecular Biology, pp. 211. Edited by Ausubel F. W., Brent R., Kingston R. E., Moore D. D., Seidman J. G., Smith J. A., Struhl K. . New York:: Wiley;.
    [Google Scholar]
  19. Park J. H., Kim R., Aslam Z., Jeon C. O., Chung Y. R. ( 2008 ). Lysobacter capsici sp. nov., with antimicrobial activity, isolated from the rhizosphere of pepper, and emended description of the genus Lysobacter . . Int J Syst Evol Microbiol 58, 387392. [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, 406425.[PubMed]
    [Google Scholar]
  21. Sasser M. ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. . Newark, DE:: MIDI Inc;.
    [Google Scholar]
  22. Tamaoka J., Katayama-Fujiruma Y., Kuraishi H. ( 1983 ). Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. . J Appl Bacteriol 54, 3136. [View Article]
    [Google Scholar]
  23. 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, 48764882. [View Article] [PubMed]
    [Google Scholar]
  24. Tindall B. J. ( 1990 ). Lipid composition of Halobacterium lacusprofundi . . FEMS Microbiol Lett 66, 199202. [View Article]
    [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, 463464. [View Article]
    [Google Scholar]
  26. Wei D. Q., Yu T. T., Yao J. C., Zhou E. M., Song Z. Q., Yin Y.-R., Ming H., Tang S.-K., Li W.-J. ( 2012 ). Lysobacter thermophilus sp. nov., isolated from a geothermal soil sample in Tengchong, south-west China. . Antonie van Leeuwenhoek 102, 643651. [View Article] [PubMed]
    [Google Scholar]
  27. Weisburg W. G., Barns S. M., Pelletier D. A., Lane D. J. ( 1991 ). 16S ribosomal DNA amplification for phylogenetic study. . J Bacteriol 173, 697703.[PubMed]
    [Google Scholar]
  28. Weon H. Y., Kim B. Y., Baek Y. K., Yoo S. H., Kwon S. W., Stackebrandt E., Go S. J. ( 2006 ). Two novel species, Lysobacter daejeonensis sp. nov. and Lysobacter yangpyeongensis sp. nov., isolated from Korean greenhouse soils. . Int J Syst Evol Microbiol 56, 947951. [View Article] [PubMed]
    [Google Scholar]
  29. Weon H. Y., Kim B. Y., Kim M. K., Yoo S. H., Kwon S. W., Go S. J., Stackebrandt E. ( 2007 ). Lysobacter niabensis sp. nov. and Lysobacter niastensis sp. nov., isolated from greenhouse soils in Korea. . Int J Syst Evol Microbiol 57, 548551. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.067397-0
Loading
/content/journal/ijsem/10.1099/ijs.0.067397-0
Loading

Data & Media loading...

Supplements

Supplementary Data

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