1887

Abstract

A Gram-negative, non-motile, rod-shaped bacterial strain, designated CW-E 2, was isolated from a polluted soil sample collected from Jiangsu Province, China. A taxonomic study of the isolate, including phylogenetic analysis based on 16S rRNA gene sequences and phenotypic characteristics, was carried out. The predominant menaquinone was MK-6 and the major fatty acids were i-C, i-C 3-OH, i-C 9 and summed feature 4. The G+C content of the DNA was 37.2 mol%. Based on phenotypic and genotypic characteristics, strain CW-E 2 represents a novel species of the genus for which the name sp. nov. is proposed. The type strain is CW-E 2 (=KCTC 12877=CCTCC AB 206147).

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2007-08-01
2020-01-21
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References

  1. Bernardet, J.-F., Segers, P., Vancanneyt, M., Berthe, F., Kersters, K. & Vandamme, P. ( 1996; ). Cutting a Gordian knot: emended classification and description of the genus Flavobacterium, emended description of the family Flavobacteriaceae, and proposal of Flavobacterium hydatis nom. nov. (basonym, Cytophaga aquatilis Strohl and Tait 1978). Int J Syst Bacteriol 46, 128–148.[CrossRef]
    [Google Scholar]
  2. Bernardet, J.-F., Nakagawa, Y. & Holmes, B. ( 2002; ). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 52, 1049–1070.[CrossRef]
    [Google Scholar]
  3. Bernardet, J.-F., Hugo, C. & Bruun, B. ( 2006; ). The genera Chryseobacterium and Elizabethkingia. In The Prokaryotes: Handbook on the Biology of Bacteria, 3rd edn, vol. 7, pp. 638–676. Edited by M. Dworkin, S. Falkow, E. Rosenberg, K.-H. Schleifer & E. Stackebrandt. New York: Springer-Verlag.
  4. de Beer, H., Hugo, C.-J., Jooste, P.-J., Willems, A., Vancanneyt, M., Coenye, T. & Vandamme, P. ( 2005; ). Chryseobacterium vrystaatense sp. nov., isolated from raw chicken in a chicken-processing plant. Int J Syst Evol Microbiol 55, 2149–2153.[CrossRef]
    [Google Scholar]
  5. de Beer, H., Hugo, C.-J., Jooste, P.-J., Vancanneyt, M., Coenye, T. & Vandamme, P. ( 2006; ). Chryseobacterium piscium sp. nov., isolated from fish of the South Atlantic Ocean off South Africa. Int J Syst Evol Microbiol 56, 1317–1322.[CrossRef]
    [Google Scholar]
  6. Felsenstein, J. ( 1981; ). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef]
    [Google Scholar]
  7. Felsenstein, J. ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef]
    [Google Scholar]
  8. Felsenstein, J. ( 1993; ). phylip (phylogeny inference package), version 3.5c. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  9. Gerhardt, P., Murray, R. G. E., Wood, W. A. & Krieg, N. R. (editors) ( 1994; ). Methods for General and Molecular Bacteriology. Washington, DC: American Society for Microbiology.
  10. Hu, H.-Y., Lim, B.-R., Naohiro, G. & Koich, F.-J. ( 2001; ). Analytical precision and repeatability of respiratory quinones for quantitative study of microbial community structure in environmental samples. J Microbiol Methods 47, 17–24.[CrossRef]
    [Google Scholar]
  11. Hugo, C.-J., Segers, P., Hoste, B., Vancanneyt, M. & Kersters, K. ( 2003; ). Chryseobacterium joostei sp. nov., isolated from the dairy environment. Int J Syst Evol Microbiol 53, 771–777.[CrossRef]
    [Google Scholar]
  12. Kim, M. K., Im, W. T., Shin, Y. K., Lim, J. H., Kim, S. H., Lee, B. C., Park, M. Y., Lee, K. Y. & Lee, S. T. ( 2004; ). Kaistella koreensis gen. nov., sp. nov., a novel member of the Chryseobacterium–Bergeyella–Riemerella branch. Int J Syst Evol Microbiol 54, 2319–2324.[CrossRef]
    [Google Scholar]
  13. Kim, K. K., Bae, H.-S., Schumann, P. & Lee, S. T. ( 2005a; ). Chryseobacterium daecheongense sp. nov., isolated from freshwater lake sediment. Int J Syst Evol Microbiol 55, 133–138.[CrossRef]
    [Google Scholar]
  14. Kim, K. K., Kim, M. K., Lim, J. H., Park, H. Y. & Lee, S. T. ( 2005b; ). Transfer of Chryseobacterium meningosepticum and Chryseobacterium miricola to Elizabethkingia gen. nov. as Elizabethkingia meningoseptica comb. nov. and Elizabethkingia miricola comb. nov. Int J Syst Evol Microbiol 55, 1287–1293.[CrossRef]
    [Google Scholar]
  15. Kimura, M. ( 1980; ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequence. J Mol Evol 16, 111–120.[CrossRef]
    [Google Scholar]
  16. Kimura, M. ( 1983; ). The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
  17. Kumar, S., Tamura, K., Jakobsen, I.-B. & Nei, M. ( 2001; ). mega2: molecular evolutionary genetics analysis software. Bioinformatics 17, 1244–1245.[CrossRef]
    [Google Scholar]
  18. Mandel, M. & Marmur, J. ( 1968; ). Use of ultraviolet absorbance-temperature profile for determining the guanine plus cytosine content of DNA. Methods Enzymol 12B, 195–206.
    [Google Scholar]
  19. Marmur, J. ( 1961; ). A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3, 208–218.[CrossRef]
    [Google Scholar]
  20. Nedashkovskaya, O. I., Suzuki, M., Vysotskii, M. V. & Mikhailov, V. V. ( 2003; ). Reichenbachia agariperforans gen. nov., sp. nov., a novel marine bacterium in the phylum Cytophaga–Flavobacterium–Bacteroides. Int J Syst Evol Microbiol 53, 81–85.[CrossRef]
    [Google Scholar]
  21. Nedashkovskaya, O. I., Kim, S. B., Suzuki, M., Shevchenko, L. S., Lee, M. S., Lee, K. H., Park, M. S., Frolova, G. M., Oh, H. W. & other authors ( 2005; ). Pontibacter actiniarum gen. nov., sp. nov., a novel member of the phylum ‘Bacteroidetes’, and proposal of Reichenbachiella gen. nov. as a replacement for the illegitimate prokaryotic generic name Reichenbachia Nedashkovskaya et al. 2003. Int J Syst Evol Microbiol 55, 2583–2588.[CrossRef]
    [Google Scholar]
  22. Quan, Z.-X., Kim, K. K., Kim, M. K., Jin, L. & Lee, S. T. ( 2007; ). Chryseobacterium caeni sp. nov., isolated from bioreactor sludge. Int J Syst Evol Microbiol 57, 141–145.[CrossRef]
    [Google Scholar]
  23. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  24. Sambrook, J. & Russell, D. W. ( 2002; ). Molecular Cloning: a Laboratory Manual, pp. 1595–1596, 3rd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory.
  25. Sasser, M. ( 1990; ). Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsletter 20, 1–6.
    [Google Scholar]
  26. Shimomura, K., Kaji, S. & Hiraishi, A. ( 2005; ). Chryseobacterium shigense sp. nov., a yellow-pigmented, aerobic bacterium isolated from a lactic acid beverage. Int J Syst Evol Microbiol 55, 1903–1906.[CrossRef]
    [Google Scholar]
  27. 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, 4876–4888.[CrossRef]
    [Google Scholar]
  28. Vandamme, P., Bernardet, J.-F., Segers, P., Kersters, K. & Holmes, B. ( 1994; ). New perspectives in the classification of the flavobacteria: description of Chryseobacterium gen. nov., Bergeyella gen. nov., and Empedobacter nom. rev. Int J Syst Bacteriol 44, 827–831.[CrossRef]
    [Google Scholar]
  29. Xu, P., Li, W.-J., Xu, L.-H. & Jiang, C.-L. ( 2003; ). A microwave-based method for genomic DNA extraction from Actinomycetes. Microbiology 30, 82–84 (in Chinese)
    [Google Scholar]
  30. Yamaguchi, S. & Yokoe, M. ( 2000; ). A novel protein-deamidating enzyme from Chryseobacterium proteolyticum sp. nov., a newly isolated bacterium from soil. Appl Environ Microbiol 66, 3337–3343.[CrossRef]
    [Google Scholar]
  31. Young, C.-C., Kämpfer, P., Shen, F.-T., Lai, W.-A. & Arun, A. B. ( 2005; ). Chryseobacterium formosense sp. nov., isolated from the rhizosphere of Lactuca sativa L. (garden lettuce). Int J Syst Evol Microbiol 55, 423–426.[CrossRef]
    [Google Scholar]
  32. Zhou, Y., Wang, X., Liu, H., Zhang, K.-Y., Zhang, Y.-Q., Lai, R. & Li, W.-J. ( 2007; ). Pontibacter akesuensis sp. nov., isolated from a desert soil in China. Int J Syst Evol Microbiol 57, 321–325.[CrossRef]
    [Google Scholar]
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