1887

Abstract

Gram-negative, non-spore-forming, rod-shaped, yellow-pigmented bacteria isolated from a freshwater stream in Korea were investigated to determine their taxonomic position. Complete 16S rRNA gene sequence analysis indicated that the organisms should be placed in the branch in the family . Phylogenetically, the strains were most closely related to ATCC 33487 and LMG 13028 (94·3 and 94·1 % 16S rRNA gene sequence similarity, respectively) and they clustered on a separate well-supported branch. The strains contained menaquinone MK-6 as the predominant respiratory quinone and showed higher G+C contents (41·7 mol%) than other species in the branch and i-C as a major fatty acid (47–52 %). The phylogenetic distances from any species with validly published names and their phenotypic properties confirmed that the strains constitute a separate species in a new genus, for which the name gen. nov., sp. nov. is proposed (type strain Chj707=KCTC 12107=IAM 15050).

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2004-11-01
2020-01-23
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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. Buck, J. D. ( 1982; ). Nonstaining (KOH) method for determination of Gram reactions of marine bacteria. Appl Environ Microbiol 44, 992–993.
    [Google Scholar]
  3. Busse, H.-J., Denner, E. B. M. & Lubitz, W. ( 1996; ). Classification and identification of bacteria: current approaches to an old problem. Overview of methods used in bacterial systematics. J Biotechnol 47, 3–38.[CrossRef]
    [Google Scholar]
  4. Collins, M. D. & Jones, D. ( 1981; ). Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implications. Microbiol Rev 45, 316–354.
    [Google Scholar]
  5. Dees, S. B., Carlone, G. M., Hollis, D. & Moss, C. W. ( 1985; ). Chemical and phenotypic characteristics of Flavobacterium thalpophilum compared with those of other Flavobacterium and Sphingobacterium species. Int J Syst Bacteriol 35, 16–22.[CrossRef]
    [Google Scholar]
  6. 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]
  7. Holmes, B. ( 1992; ). The genera Flavobacterium, Sphingobacterium, and Weeksella. In The Prokaryotes, 2nd edn, vol. 4, pp. 3620–3630. Edited by A. Balows, H. G. Trüper, M. Dworkin, W. Harder & K. H. Schleifer. Berlin: Springer.
  8. Holmes, B., Owen, R. J., Steigerwalt, A. G. & Brenner, D. J. ( 1984; ). Flavobacterium gleum, a new species found in human clinical specimens. Int J Syst Bacteriol 34, 21–25.[CrossRef]
    [Google Scholar]
  9. Holmes, B., Steigerwalt, A. G., Weaver, R. E. & Brenner, D. J. ( 1986; ). Weeksella zoohelcum sp. nov. (formerly group IIj) from human clinical specimens. Syst Appl Microbiol 8, 191–196.[CrossRef]
    [Google Scholar]
  10. Hugh, R. & Leifson, E. ( 1953; ). The taxonomic significance of fermentative versus oxidative metabolism of carbohydrates by various Gram-negative bacteria. J Bacteriol 66, 24–26.
    [Google Scholar]
  11. Hugo, C. J., Jooste, P. J., Segers, P., Vancanneyt, M. & Kersters, K. ( 1999; ). A polyphasic taxonomic study of Chryseobacterium strains isolated from dairy sources. Syst Appl Microbiol 22, 586–595.[CrossRef]
    [Google Scholar]
  12. 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]
  13. Jooste, P. J. & Hugo, C. J. ( 1999; ). The taxonomy, ecology and cultivation of bacterial genera belonging to the family Flavobacteriaceae. Int J Food Microbiol 53, 81–94.[CrossRef]
    [Google Scholar]
  14. Kämpfer, P., Dreyer, U., Neef, A., Dott, W. & Busse, H.-J. ( 2003; ). Chryseobacterium defluvii sp. nov., isolated from wastewater. Int J Syst Evol Microbiol 53, 93–97.[CrossRef]
    [Google Scholar]
  15. Kumar, S., Tamura, K., Jacobsen, I. B. & Nei, M. ( 2001; ). mega2: molecular evolutionary genetics analysis software. Bioinformatics 17, 1244–1245.[CrossRef]
    [Google Scholar]
  16. 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]
  17. Mudarris, M., Austin, B., Segers, P., Vancanneyt, M., Hoste, B. & Bernardet, J. F. ( 1994; ). Flavobacterium scophthalmum sp. nov., a pathogen of turbot (Scophthalmus maximus L.). Int J Syst Bacteriol 44, 447–453.[CrossRef]
    [Google Scholar]
  18. Rosselló-Mora, R. & Amann, R. ( 2001; ). The species concept for prokaryotes. FEMS Microbiol Rev 25, 39–67.[CrossRef]
    [Google Scholar]
  19. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  20. Sasser, M. ( 1990; ). Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101. Newark, DE: MIDI Inc.
  21. Schleifer, K. H. & Stackebrandt, E. ( 1983; ). Molecular systematics of prokaryotes. Annu Rev Microbiol 37, 143–187.[CrossRef]
    [Google Scholar]
  22. Segers, P., Mannheim, W., Vancanneyt, M., De Brandt, K., Hinz, K.-H., Kersters, K. & Vandamme, P. ( 1993; ). Riemerella anatipestifer gen. nov., comb. nov., the causative agent of septicemia anserum exsudativa, and its phylogenetic affiliation within the Flavobacterium-Cytophaga rRNA homology group. Int J Syst Bacteriol 43, 768–776.[CrossRef]
    [Google Scholar]
  23. Shin, Y. K., Lee, J.-S., Chun, C. O., Kim, H.-J. & Park, Y.-H. ( 1996; ). Isoprenoid quinone profiles of the Leclercia adecarboxylata KCTC 1036T. J Microbiol Biotechnol 6, 68–69.
    [Google Scholar]
  24. Stackebrandt, E. & Liesack, W. ( 1993; ). Nucleic acids and classification. In Handbook of New Bacterial Systematics, pp. 151–194. Edited by M. Goodfellow & A. G. O'Donnell. London: Academic Press.
  25. Tamaoka, J. & Komagata, K. ( 1984; ). Determination of DNA base composition by reversed phase high-performance liquid chromatography. FEMS Microbiol Lett 25, 125–128.[CrossRef]
    [Google Scholar]
  26. 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]
  27. Vancanneyt, M., Vandamme, P., Segers, P., Torck, U., Coopman, R., Kersters, K. & Hinz, K.-H. ( 1999; ). Riemerella columbina sp. nov., a bacterium associated with respiratory disease in pigeons. Int J Syst Bacteriol 49, 289–295.[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. Vandamme, P., Pot, B., Gillis, M., De Vos, P., Kersters, K. & Swings, J. ( 1996; ). Polyphasic taxonomy, a consensus approach to bacterial systematics. Microbiol Rev 60, 407–438.
    [Google Scholar]
  30. 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.
    [Google Scholar]
  31. Woese, C. R., Yang, D., Mandelco, L. & Stetter, K. O. ( 1990; ). The Flexibacter-Flavobacterium connection. Syst Appl Microbiol 13, 161–165.[CrossRef]
    [Google Scholar]
  32. Yabuuchi, E., Kaneko, T., Yano, I., Moss, C. W. & Miyoshi, N. ( 1983; ). Sphingobacterium gen. nov., Sphingobacterium spiritivorum comb. nov., Sphingobacterium multivorum comb. nov., Sphingobacterium mizutae sp. nov., and Flavobacterium indologenes sp. nov. glucose-nonfermenting gram-negative rods in CDC groups IIK-2 and IIb. Int J Syst Bacteriol 33, 580–598.[CrossRef]
    [Google Scholar]
  33. Yoon, J.-H., Lee, S.-T., Kim, S.-B., Kim, W. Y., Goodfellow, M. & Park, Y.-H. ( 1997; ). Restriction fragment length polymorphism analysis of PCR-amplified 16S ribosomal DNA for rapid identification of Saccharomonospora strains. Int J Syst Bacteriol 47, 111–114.[CrossRef]
    [Google Scholar]
  34. Yoon, J.-H., Lee, S. T. & Park, Y.-H. ( 1998; ). Inter- and intraspecific phylogenetic analysis of genus Nocardioides and related taxa based on 16S rDNA sequences. Int J Syst Bacteriol 48, 187–194.[CrossRef]
    [Google Scholar]
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