1887

Abstract

A Gram-negative, aerobic, rod-shaped, non-motile, non-spore-forming bacterial strain, designated Gsoil 191, was isolated from a soil sample from a ginseng field in Pocheon Province, South Korea, and was characterized taxonomically by using a polyphasic approach. Comparative 16S rRNA gene sequence analysis showed that strain Gsoil 191 belongs to the family and is related to LMG 23001 (97.8 % sequence similarity) and KCTC 12396 (96.9 %). The G+C content of the genomic DNA was 68.7 mol%. The major respiratory quinone was Q-8 and the major fatty acids were iso-C 9 (30.6 %), iso-C (21.6 %) and iso-C (13.0 %), supporting the affiliation of strain Gsoil 191 to the genus . DNA–DNA hybridization experiments showed that the DNA–DNA relatedness values between strain Gsoil 191 and its closest phylogenetic neighbours were below 40 %. The results of physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain Gsoil 191 from recognized species of the genus . On the basis of its phenotypic properties and phylogenetic distinctiveness, strain Gsoil 191 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is Gsoil 191 (=KCTC 12564=DSM 17954=CCUG 52462).

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2009-08-01
2019-10-23
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References

  1. An, D.-S., Im, W.-T., Yang, H.-C., Yang, D.-C. & Lee, S.-T. ( 2005; ). Dyella koreensis sp. nov., a β-glucosidase-producing bacterium. Int J Syst Evol Microbiol 55, 1625–1628.[CrossRef]
    [Google Scholar]
  2. Atlas, R. M. ( 1993; ). Handbook of Microbiological Media. Edited by L. C. Parks. Boca Raton, FL: CRC Press.
  3. Bae, H.-S., Im, W.-T. & Lee, S.-T. ( 2005; ). Lysobacter concretionis sp. nov., isolated from anaerobic granules in an upflow anaerobic sludge blanket reactor. Int J Syst Evol Microbiol 55, 1155–1161.[CrossRef]
    [Google Scholar]
  4. Buck, J. D. ( 1982; ). Nonstaining (KOH) method for determination of Gram reactions of marine bacteria. Appl Environ Microbiol 44, 992–993.
    [Google Scholar]
  5. Cunha, S., Tiago, I., Pires, A. L., da Costa, M. S. & Veríssimo, A. ( 2006; ). Dokdonella fugitiva sp. nov., a Gammaproteobacterium isolated from potting soil. Syst Appl Microbiol 29, 191–196.[CrossRef]
    [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 limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef]
    [Google Scholar]
  8. Finkmann, W., Altendorf, K., Stackebrandt, E. & Lipski, A. ( 2000; ). Characterization of N2O-producing Xanthomonas-like isolates from biofilters as Stenotrophomonas nitritireducens sp. nov., Luteimonas mephitis gen. nov., sp. nov. and Pseudoxanthomonas broegbernensis gen. nov., sp. nov. Int J Syst Evol Microbiol 50, 273–282.[CrossRef]
    [Google Scholar]
  9. 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]
  10. 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]
  11. 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]
  12. Im, W.-T., Lee, S.-T. & Yokota, A. ( 2004; ). Rhodanobacter fulvus sp. nov., a β-galactosidase-producing gammaproteobacterium. J Gen Appl Microbiol 50, 143–147.[CrossRef]
    [Google Scholar]
  13. Im, W.-T., Jung, H.-M., Cui, Y.-S., Liu, Q.-M., Zhang, S.-L. & Lee, S.-T. ( 2005; ). Cultivation of the three hundreds of bacterial species from the soil of a ginseng field and mining the novel lineage bacteria. In Proceedings of the International Meeting of the Federation of Korean Microbiological Societies, abstract A035, p. 169. Seoul: Federation of Korean Microbiological Societies.
  14. Kimura, M. ( 1983; ). The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
  15. Komagata, K. & Suzuki, K. ( 1987; ). Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19, 161–207.
    [Google Scholar]
  16. Kumar, S., Tamura, K. & Nei, M. ( 2004; ). mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150–163.[CrossRef]
    [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. Minnikin, D. E., O'Donnell, A. G., Goodfellow, M., Alderson, G., Athalye, M., Schaal, A. & Parlett, J. H. ( 1984; ). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2, 233–241.[CrossRef]
    [Google Scholar]
  19. Moore, D. D. & Dowhan, D. ( 1995; ). Preparation and analysis of DNA. In Current Protocols in Molecular Biology, pp. 2–11. Edited by F. M. Ausubel, R. Brent, R. E. Kingston, D. D. Moore, J. G. Seidman, J. A. Smith & K. Struhl. New York: Wiley.
  20. Saitou, N. & Nei, M. ( 1987; ). The neighbour-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  21. Sasser, M. ( 1990; ). Identification of bacteria through fatty acid analysis. In Methods in Phytobacteriology, chapter I.11, pp. 199–204. Edited by Z. Klement, K. Rudolph & D. C. Sands. Budapest: Akademiai Kaido.
  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. 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. Ten, L. N., Jung, H. M., Im, W. T., Yoo, S. A. & Lee, S. T. ( 2008; ). Lysobacter daecheongensis sp. nov., isolated from sediment of stream near the Daechung dam in South Korea. J Microbiol 46, 519–524.[CrossRef]
    [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]
    [Google Scholar]
  26. Tschech, A. & Pfennig, N. ( 1984; ). Growth yield increase linked to caffeate reduction in Acetobacterium woodii. Arch Microbiol 137, 163–167.[CrossRef]
    [Google Scholar]
  27. 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]
  28. Widdel, F. & Bak, F. ( 1992; ). Gram-negative mesophilic sulfate-reducing bacteria. In The Prokaryotes, 2nd edn, pp. 3352–3378. Edited by A. Balows, H. G. Trüper, M. Dworkin, W. Harder & K. H. Schleifer. New York: Springer.
  29. Widdel, F., Kohring, G. & Mayer, F. ( 1983; ). Studies in dissimilatory sulfate-reducing bacteria that decompose fatty acids. III. Characterization of the filamentous gliding Desulfonema limicola gen. nov. sp. nov., and Desulfonema magnum sp. nov. Arch Microbiol 134, 286–294.[CrossRef]
    [Google Scholar]
  30. Yoon, J.-H., Kang, S.-J. & Oh, T.-K. ( 2006; ). Dokdonella koreensis gen. nov., sp. nov., isolated from soil. Int J Syst Evol Microbiol 56, 145–150.[CrossRef]
    [Google Scholar]
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Transmission electron micrograph of a cell of strain Gsoil 191 ( sp. nov.). [PDF](249 KB)

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Two-dimensional thin-layer chromatograms of the polar lipids of strain Gsoil 191 ( sp. nov.). [PDF](93 KB)

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