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Abstract

A yellow-pigmented, Gram-staining-negative, non-motile, strictly aerobic and rod-shaped bacterium, designated CS100, was isolated from soil in Chungbuk, Korea. Phylogenetic analysis and comparative studies based on the 16S rRNA gene sequence showed that strain CS100 belonged to the genus in the family . Strain CS100 showed the highest sequence similarities to JCM 13953 (97.6 %) and KACC 11410 (97.1 %). Sequence similarity to other members of the genus was 91.5–97.0 %. Growth occurred at 4–30 °C, at pH 5.0–9.0 and in the presence of 0–2 % (w/v) NaCl. Flexirubin-type pigments were produced. Menaquinone-6 (MK-6) was the major respiratory quinone and the major fatty acids were iso-C (17.3 %), summed feature 3 (comprising iso-C 2-OH and/or Cω7, 15.5 %) and C (11.8 %). The DNA G+C content was 36.4 mol%. Strain CS100 hydrolysed skimmed milk and gelatin, but not chitin or pectin, and showed oxidase and catalase activities. DNA–DNA relatedness was 3.0 % with JCM 13953 and 11.5 % with KACC 11410. On the basis of the evidence from this study, strain CS100 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is CS100 ( = KACC 15048 = JCM 17386).

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2011-11-01
2020-01-23
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References

  1. Bergey D. H., Harrison F. C., Breed R. S., Hammer B. W., Huntoon F. M.. (editors) ( 1923;). Bergey’s Manual of Determinative Bacteriology. Baltimore:: Williams & Wilkins;.
    [Google Scholar]
  2. Bernardet J.-F., Bowman J.. ( 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]
  3. 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]
  4. Bernardet J.-F., Nakagawa Y., Holmes B..Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes ( 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][PubMed]
    [Google Scholar]
  5. 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]
  6. 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. [CrossRef][PubMed]
    [Google Scholar]
  7. 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]
  8. Felsenstein J.. ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17:, 368–376. [CrossRef][PubMed]
    [Google Scholar]
  9. Felsenstein J.. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39:, 783–791. [CrossRef]
    [Google Scholar]
  10. Felsenstein J.. ( 1993;). phylip (phylogeny inference package) version 3.5.1. Distributed by the author.. Department of Genome Sciences, University of Washington, Seattle, USA.
  11. 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]
  12. 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]
  13. Horn M. A., Ihssen J., Matthies C., Schramm A., Acker G., Drake H. L.. ( 2005;). Dechloromonas denitrificans sp. nov., Flavobacterium denitrificans sp. nov., Paenibacillus anaericanus sp. nov. and Paenibacillus terrae strain MH72, N2O-producing bacteria isolated from the gut of the earthworm Aporrectodea caliginosa. . Int J Syst Evol Microbiol 55:, 1255–1265. [CrossRef][PubMed]
    [Google Scholar]
  14. Jayanth K., Jeyasekaran G., Shakila R. J.. ( 2002;). Isolation of marine bacteria, antagonistic to human pathogens. . Indian J Mar Sci 31:, 39–44.
    [Google Scholar]
  15. Kim B.-Y., Weon H.-Y., Cousin S., Yoo S.-H., Kwon S.-W., Go S.-J., Stackebrandt E.. ( 2006;). Flavobacterium daejeonense sp. nov. and Flavobacterium suncheonense sp. nov., isolated from greenhouse soils in Korea. . Int J Syst Evol Microbiol 56:, 1645–1649. [CrossRef][PubMed]
    [Google Scholar]
  16. 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]
  17. Kim J. J., Jin H. M., Lee H. J., Jeon C. O., Kanaya E., Koga Y., Takano K., Kanaya S.. ( 2011;). Flavobacterium banpakuense sp. nov., isolated from leaf-and-branch compost. . Int J Syst Evol Microbiol 61:, 1595–1600. [CrossRef][PubMed]
    [Google Scholar]
  18. Kimura M.. ( 1980;). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16:, 111–120. [CrossRef][PubMed]
    [Google Scholar]
  19. Kumar S., Tamura K., Nei M.. ( 2004;). mega3: Integrated software for molecular evolutionary genetics analysis and sequence alignment. . Brief Bioinform 5:, 150–163. [CrossRef][PubMed]
    [Google Scholar]
  20. Liu H., Liu R., Yang S.-Y., Gao W.-K., Zhang C.-X., Zhang K.-Y., Lai R.. ( 2008;). Flavobacterium anhuiense sp. nov., isolated from field soil. . Int J Syst Evol Microbiol 58:, 756–760. [CrossRef][PubMed]
    [Google Scholar]
  21. 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]
  22. Park J. W., Oh Y. S., Lim J. Y., Roh D. H.. ( 2006;). Isolation and characterization of cold-adapted strains producing β-galactosidase. . J Microbiol 44:, 396–402.[PubMed]
    [Google Scholar]
  23. Park M., Ryu S. H., Vu T. H., Ro H.-S., Yun P.-Y., Jeon C. O.. ( 2007;). Flavobacterium defluvii sp. nov., isolated from activated sludge. . Int J Syst Evol Microbiol 57:, 233–237. [CrossRef][PubMed]
    [Google Scholar]
  24. Qu J.-H., Yuan H.-L., Li H.-F., Deng C.-P.. ( 2009;). Flavobacterium cauense sp. nov., isolated from sediment of a eutrophic lake. . Int J Syst Evol Microbiol 59:, 2666–2669. [CrossRef][PubMed]
    [Google Scholar]
  25. Reichenbach H.. ( 1989;). Genus Cytophaga Winogradsky 1929. . In Bergey’s Manual of Systematic Bacteriology, vol. 3, pp. 2015–2050. Edited by Staley J. T., Bryant M. P., Pfennig N., Holt J. G... Baltimore:: Williams & Wilkins;.
    [Google Scholar]
  26. Reichenbach H.. ( 1991;). The order Cytophagales. . In The Prokaryotes, pp. 3631–3675. Edited by Balows A., Trüper H. G., Dworkin M., Harder W., Schleifer K. H... New York:: Springer;.
    [Google Scholar]
  27. 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]
  28. Sasser M.. ( 1990;). Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101. . Newark, DE:: MIDI Inc;.
  29. Schillinger U., Lücke F. K.. ( 1989;). Antibacterial activity of Lactobacillus sake isolated from meat. . Appl Environ Microbiol 55:, 1901–1906.[PubMed]
    [Google Scholar]
  30. Stanier R. Y.. ( 1947;). Studies on non-fruiting myxobacteria. I. Cytophaga johnsonae n. sp., a chitin-decomposing myxobacterium. . J Bacteriol 53:, 297–315.
    [Google Scholar]
  31. 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]
  32. Van Trappen S., Mergaert J., Swings J.. ( 2003;). Flavobacterium gelidilacus sp. nov., isolated from microbial mats in Antarctic lakes. . Int J Syst Evol Microbiol 53:, 1241–1245. [CrossRef][PubMed]
    [Google Scholar]
  33. Van Trappen S., Vandecandelaere I., Mergaert J., Swings J.. ( 2005;). Flavobacterium fryxellicola sp. nov. and Flavobacterium psychrolimnae sp. nov., novel psychrophilic bacteria isolated from microbial mats in Antarctic lakes. . Int J Syst Evol Microbiol 55:, 769–772. [CrossRef][PubMed]
    [Google Scholar]
  34. 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]
  35. 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.[PubMed]
    [Google Scholar]
  36. Wilson K.. ( 1994;). Preparation of genomic DNA from bacteria. . In Current Protocols in Molecular Biology, pp. 241–245. Edited by Ausubel F. M., Seidman J. G., Struhl K. S... New York:: John Wiley & Sons;.
    [Google Scholar]
  37. 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][PubMed]
    [Google Scholar]
  38. Yi H., Oh H.-M., Lee J.-H., Kim S.-J., Chun J.. ( 2005;). Flavobacterium antarcticum sp. nov., a novel psychrotolerant bacterium isolated from the Antarctic. . Int J Syst Evol Microbiol 55:, 637–641. [CrossRef][PubMed]
    [Google Scholar]
  39. Yoon J.-H., Kang S.-J., Oh T.-K.. ( 2006;). Flavobacterium soli sp. nov., isolated from soil. . Int J Syst Evol Microbiol 56:, 997–1000. [CrossRef][PubMed]
    [Google Scholar]
  40. Zhang D.-C., Wang H.-X., Liu H.-C., Dong X.-Z., Zhou P.-J.. ( 2006;). Flavobacterium glaciei sp. nov., a novel psychrophilic bacterium isolated from the China No.1 glacier. . Int J Syst Evol Microbiol 56:, 2921–2925. [CrossRef][PubMed]
    [Google Scholar]
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vol. , part 11, pp. 2734 - 2739

Neighbour-joining tree based on 16S rRNA gene sequences showing the phylogenetic position of strain CS100 and members of the genus . The sequence of ACAM 647 was used as an outgroup and the GenBank accession numbers are given in parentheses. Bootstrap values are based on 1000 replicates and only values >70% are shown. Bar, 0.02 substitutions per nucleotide position.



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