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Abstract

A Gram-negative, aerobic, non-motile, non-spore-forming, yellow-pigmented, rod-shaped bacterium, designated strain THG 01, was isolated from the soil of a ginseng field in Pocheon province, South Korea, and its taxonomic position was investigated by using a polyphasic approach. Strain THG 01 grew well at 25–37 °C and pH 6.0–7.5 in the absence of NaCl on nutrient agar. On the basis of 16S rRNA gene sequence similarity data, strain THG 01 was shown to belong to the family and was related to D3 (97.5 % similarity), UW101 (96.8 %) and ED5 (96.7 %). 16S rRNA gene sequence similarities between the novel strain and members of other recognized species within the family were less than 96.7 %. The G+C content of the genomic DNA of strain THG 01 was 32.1 mol%. Phenotypic and chemotaxonomic data (major menaquinone was MK-6 and major fatty acids were iso-C, iso-C 3-OH and Cω7 and/or Cω6 ) supported the affiliation of strain THG 01 to the genus . DNA–DNA hybridization experiments showed that DNA–DNA relatedness values between strain THG 01 and its closest phylogenetic neighbours were below 11 %. The results of physiological and biochemical tests enabled strain THG 01 to be differentiated genotypically and phenotypically from recognized species of the genus . The isolate therefore represents a novel species, for which the name sp. nov. is proposed, with THG 01 ( = KACC 14525 = JCM 16720) as the type strain.

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2011-06-01
2019-12-13
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References

  1. Ali Z., Cousin S., Frühling A., Brambilla E., Schumann P., Yang Y., Stackebrandt E.. ( 2009;). Flavobacterium rivuli sp. nov., Flavobacterium subsaxonicum sp. nov., Flavobacterium swingsii sp. nov. and Flavobacterium reichenbachii sp. nov., isolated from a hard water rivulet. . Int J Syst Evol Microbiol 59:, 2610–2617. [CrossRef].[PubMed]
    [Google Scholar]
  2. Atlas R. M.. ( 1993;). Handbook of Microbiological Media. Edited by Parks L. C... Boca Raton, FL:: CRC Press;.
    [Google Scholar]
  3. Bergey D. H., Harrison F. C., Breed R. S., Hammer B. W., Huntoon F. M.. (editors) ( 1923;). Genus II. Flavobacterium gen. nov.. In Bergey’s Manual of Determinative Bacteriology, pp. 97–117. Baltimore:: Williams & Wilkins;.
    [Google Scholar]
  4. Bernardet J. F., Bowman J. P.. ( 2006;). The genus Flavobacterium. . In The Prokaryotes. A Handbook on the Biology of Bacteria, , 3rd edn., vol. 7, pp. 481–531. Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K. H., Stackebrandt E... New York:: Springer;.
    [Google Scholar]
  5. 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]
  6. Buck J. D.. ( 1982;). Nonstaining (KOH) method for determination of gram reactions of marine bacteria. . Appl Environ Microbiol 44:, 992–993.[PubMed]
    [Google Scholar]
  7. 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. [CrossRef].[PubMed]
    [Google Scholar]
  8. Cousin S., Päuker O., Stackebrandt E.. ( 2007;). Flavobacterium aquidurense sp. nov. and Flavobacterium hercynium sp. nov., from a hard-water creek. . Int J Syst Evol Microbiol 57:, 243–249. [CrossRef].[PubMed]
    [Google Scholar]
  9. Euzéby J. P.. ( 1997;). List of bacterial names with standing in nomenclature: a folder available on the Internet. . Int J Syst Bacteriol 47:, 590–592. http://www.bacterio.cict.fr [CrossRef].[PubMed]
    [Google Scholar]
  10. 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]
  11. Felsenstein J.. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39:, 783–791. [CrossRef]
    [Google Scholar]
  12. 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]
  13. 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]
  14. 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]
  15. Im W.-T., Liu Q.-M., Yang J.-E., Kim M.-S., Kim S.-Y., Lee S.-T., Yi T.-H.. ( 2010;). Panacagrimonas perspica gen. nov., sp. nov., a novel member of Gammaproteobacteria isolated from soil of a ginseng field. . J Microbiol 48:, 262–266. [CrossRef].[PubMed]
    [Google Scholar]
  16. Kim M.-K., Lee J.-W., Lee K.-Y., Yang D.-C.. ( 2005;). Microbial conversion of major ginsenoside rb(1) to pharmaceutically active minor ginsenoside rd. . J Microbiol 43:, 456–462.[PubMed]
    [Google Scholar]
  17. Kim J. H., Kim K. Y., Cha C. J.. ( 2009;). Flavobacterium chungangense sp. nov., isolated from a freshwater lake. . Int J Syst Evol Microbiol 59:, 1754–1758. [CrossRef].[PubMed]
    [Google Scholar]
  18. Kimura M.. ( 1983;). The Neutral Theory of Molecular Evolution. Cambridge:: Cambridge University Press;. [CrossRef]
    [Google Scholar]
  19. 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:, 299–306. [CrossRef].[PubMed]
    [Google Scholar]
  20. Liu Q.-M., Im W.-T., Lee M., Yang D.-C., Lee S.-T.. ( 2006;). Dyadobacter ginsengisoli sp. nov., isolated from soil of a ginseng field. . Int J Evol Syst Microbiol 56:, 1939–1944. [CrossRef]
    [Google Scholar]
  21. Liu Y., Jin J. H., Zhou Y. G., Liu H. C., Liu Z. P.. ( 2010;). Flavobacterium caeni sp. nov., isolated from a sequencing batch reactor for the treatment of malachite green effluents. . Int J Syst Evol Microbiol 60:, 417–421. [CrossRef].[PubMed]
    [Google Scholar]
  22. 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]
  23. Moore D. D., Dowhan D.. ( 1995;). Preparation and analysis of DNA. . In Current Protocols in Molecular Biology, pp. 2–11. 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]
  24. Qu J. H., Li H. F., Yang J. S., Yuan H. L.. ( 2008;). Flavobacterium cheniae sp. nov., isolated from sediment of a eutrophic reservoir. . Int J Syst Evol Microbiol 58:, 2186–2190. [CrossRef].[PubMed]
    [Google Scholar]
  25. 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]
  26. Sasser M.. ( 1990;). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc..
    [Google Scholar]
  27. 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]
  28. 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].[PubMed]
    [Google Scholar]
  29. 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. [CrossRef]
    [Google Scholar]
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vol. , part 6, pp. 1408 - 1412

Cellular fatty acid profiles of strain THG 01 and the type strains of phylogenetically related species of the genus [ PDF] 40 KB



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