1887

Abstract

A novel marine bacterium isolated from the intestine of cultured flounder () was studied by using a polyphasic taxonomic approach. The isolate was Gram-stain-negative, pleomorphic, aerobic, yellow and oxidase- and catalase-negative. Phylogenetic analysis of 16S rRNA gene sequences indicated that isolate Th6 formed a distinct branch within the family and showed 96.6 % similarity to its closest relative, T-y7. The DNA GC content was 29 mol%. The major respiratory quinone was MK-6. The predominant fatty acids were iso-C G, iso-C, iso-C 3-OH, iso-C 3-OH and summed feature 3 (Cω6 and/or Cω7). On the basis of the phenotypic, chemotaxonomic and phylogenetic characteristics, the novel bacterium has been assigned to a novel species of a new genus for which the name gen. nov., sp. nov. is proposed. The type strain is Th6 ( = JCM 18636 = KCTC 32140).

Funding
This study was supported by the:
  • International Science and Technology Cooperation Program of China (Award 2012DFG31990)
  • China Ocean Mineral Resources Research & Development Association (Award DY125-15-R-03)
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2015-04-01
2021-04-15
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References

  1. Bernardet J. F., Nakagawa Y. ( 2006 ). An introduction to the family Flavobacteriaceae . . In The Prokaryotes, pp. 455480. Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K.-H., Stackebrandt E. . New York:: Springer;. [CrossRef]
    [Google Scholar]
  2. 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, 128148. [CrossRef]
    [Google Scholar]
  3. 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, 10491070. [CrossRef] [PubMed]
    [Google Scholar]
  4. Beveridge T., Lawrence J., Murray R. ( 2007 ). Sampling and staining for light microscopy. . In Methods for General and Molecular Microbiology, 1933. Edited by Reddy C. A., Beveridge T. J., Breznak J. A., Marzluf G., Schmidt T. M., Snyder L. R. . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  5. Bowman J. P., McCammon S. A., Brown J. L., Nichols P. D., McMeekin T. A. ( 1997 ). Psychroserpens burtonensis gen. nov., sp. nov., and Gelidibacter algens gen. nov., sp. nov., psychrophilic bacteria isolated from antarctic lacustrine and sea ice habitats. . Int J Syst Bacteriol 47, 670677. [CrossRef] [PubMed]
    [Google Scholar]
  6. Buczolits S., Denner E. B. M., Vybiral D., Wieser M., Kämpfer P., Busse H.-J. ( 2002 ). Classification of three airborne bacteria and proposal of Hymenobacter aerophilus sp. nov.. Int J Syst Evol Microbiol 52, 445456.[PubMed] [CrossRef]
    [Google Scholar]
  7. Collins M. D., Shah H. N. ( 1984 ). Fatty acid, menaquinone and polar lipid composition of Rothia dentosacariosa . . Arch Microbiol 137, 247249. [CrossRef]
    [Google Scholar]
  8. Einen J., Øvreås L. ( 2006 ). Flaviramulus basaltis gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from seafloor basalt. . Int J Syst Evol Microbiol 56, 24552461. [CrossRef] [PubMed]
    [Google Scholar]
  9. Gonzalez C., Gutierrez C., Ramirez C. ( 1978 ). Halobacterium vallismortis sp. nov. An amylolytic and carbohydrate-metabolizing, extremely halophilic bacterium. . Can J Microbiol 24, 710715. [CrossRef] [PubMed]
    [Google Scholar]
  10. Hsu S. C., Lockwood J. L. ( 1975 ). Powdered chitin agar as a selective medium for enumeration of actinomycetes in water and soil. . Appl Microbiol 29, 422426.[PubMed]
    [Google Scholar]
  11. Ivanova E. P., Alexeeva Y. V., Flavier S., Wright J. P., Zhukova N. V., Gorshkova N. M., Mikhailov V. V., Nicolau D. V., Christen R. ( 2004 ). Formosa algae gen. nov., sp. nov., a novel member of the family Flavobacteriaceae . . Int J Syst Evol Microbiol 54, 705711. [CrossRef] [PubMed]
    [Google Scholar]
  12. Jooste, P. J. (1985). The taxonomy and significance of Flavobacterium–Cytophaga strains from dairy sources. PhD thesis, University of the Orange Free State, Bloemfontein, South Africa.
  13. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. et al. ( 2012 ). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62, 716721.[PubMed] [CrossRef]
    [Google Scholar]
  14. Kimura M. ( 1980 ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16, 111120. [CrossRef] [PubMed]
    [Google Scholar]
  15. Komagata K., Suzuki K. ( 1987 ). Lipid and cell-wall analysis in bacterial systematics. . Methods Microbiol 19, 161207. [CrossRef]
    [Google Scholar]
  16. Lyman J., Fleming R. H. ( 1940 ). Composition of seawater. . J Mar Res 3, 134146.
    [Google Scholar]
  17. Mesbah M., Whitman W. B. ( 1989 ). Measurement of deoxyguanosine/thymidine ratios in complex mixtures by high-performance liquid chromatography for determination of the mole percentage guanine + cytosine of DNA. . J Chromatogr A 479, 297306. [CrossRef] [PubMed]
    [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, 233241. [CrossRef]
    [Google Scholar]
  19. Moore E. R. B., Arnscheidt A., Krüger A., Strömpl C., Mau M. ( 1999 ). Simplified protocols for the preparation of genomic DNA from bacterial cultures. . In Molecular Microbial Ecology Manual 1.6.1, pp. 115. Edited by Akkermans A. D. L., van Elsas J. D., de Bruijn F. J. . Dordrecht:: Kluwer;.
    [Google Scholar]
  20. Nedashkovskaya O. I., Kim S. B., Han S. K., Snauwaert C., Vancanneyt M., Swings J., Kim K. O., Lysenko A. M., Rohde M. et al. ( 2005 a). Winogradskyella thalassocola gen. nov., sp. nov., Winogradskyella epiphytica sp. nov. and Winogradskyella eximia sp. nov., marine bacteria of the family Flavobacteriaceae . . Int J Syst Evol Microbiol 55, 49 55. [CrossRef] [PubMed]
    [Google Scholar]
  21. Nedashkovskaya O. I., Kim S. B., Lysenko A. M., Frolova G. M., Mikhailov V. V., Bae K. S. ( 2005 b). Bizionia paragorgiae gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from the soft coral Paragorgia arborea . . Int J Syst Evol Microbiol 55, 375378. [CrossRef] [PubMed]
    [Google Scholar]
  22. Nedashkovskaya O. I., Vancanneyt M., Kim S. B. ( 2010 ). Bizionia echini sp. nov., isolated from a sea urchin. . Int J Syst Evol Microbiol 60, 928931. [CrossRef] [PubMed]
    [Google Scholar]
  23. Reichenbach H. ( 1989 ). The order Cytophagales Leadbetter 1974. . In Bergey’s Manual of Systematic Bacteriology, vol. 3, pp. 20112013. Edited by Staley J. T., Bryant M. P., Pfennig N., Holt J. G. . Baltimore, MD:: Williams & Wilkins;.
    [Google Scholar]
  24. Reichenbach H. ( 1992 ). Flavobacteriaceae fam. nov. In Validation of the Publication of New Names and New Combinations Previously Effectively Published Outside the IJSB, List no. 41. . Int J Syst Bacteriol 42, 327329. [CrossRef]
    [Google Scholar]
  25. Sasser M. . ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  26. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607654. Edited by Gerherdt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for mMicrobiology;.
    [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, 846849. [CrossRef]
    [Google Scholar]
  28. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. ( 2011 ). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. . Mol Biol Evol 28, 27312739. [CrossRef] [PubMed]
    [Google Scholar]
  29. Tang K., Zhang Y., Yu M., Shi X., Coenye T., Bossier P., Zhang X.-H. ( 2013 ). Evaluation of a new high-throughput method for identifying quorum quenching bacteria. . Sci Rep 3, 2935. [CrossRef] [PubMed]
    [Google Scholar]
  30. Teather R. M., Wood P. J. ( 1982 ). Use of Congo red-polysaccharide interactions in enumeration and characterization of cellulolytic bacteria from the bovine rumen. . Appl Environ Microbiol 43, 777780.[PubMed]
    [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, 48764882. [CrossRef] [PubMed]
    [Google Scholar]
  32. Tindall B., Sikorski J., Smibert R., Krieg N. ( 2007 ). Phenotypic characterization and the principles of comparative systematics. .In Methods for General and Molecular Microbiology, pp. 330393. Edited by Reddy C. A., Beveridge T. J., Breznak J. A., Marzluf G., Schmidt T. M., Snyder L. R. Washington, DC:, American Society for Microbiology;. [CrossRef]
    [Google Scholar]
  33. Weisburg W. G., Barns S. M., Pelletier D. A., Lane D. J. ( 1991 ). 16S ribosomal DNA amplification for phylogenetic study. . J Bacteriol 173, 697703.[PubMed]
    [Google Scholar]
  34. Xie C.-H., Yokota A. ( 2003 ). Phylogenetic analyses of Lampropedia hyalina based on the 16S rRNA gene sequence. . J Gen Appl Microbiol 49, 345349. [CrossRef] [PubMed]
    [Google Scholar]
  35. Yoon J. H., Kang C. H., Jung Y. T., Kang S. J. ( 2013 ). Bizionia hallyeonensis sp. nov., isolated from seawater in an oyster farm. . Int J Syst Evol Microbiol 63, 685690. [CrossRef] [PubMed]
    [Google Scholar]
  36. Zhang Y., Tang K., Shi X., Zhang X. H. ( 2013 ). Flaviramulus ichthyoenteri sp. nov., an N-acylhomoserine lactone-degrading bacterium isolated from the intestine of a flounder (Paralichthys olivaceus), and emended descriptions of the genus Flaviramulus and Flaviramulus basaltis. . Int J Syst Evol Microbiol 63, 44774483. [CrossRef] [PubMed]
    [Google Scholar]
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