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).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.000078
2015-04-01
2019-10-14
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/4/1186.html?itemId=/content/journal/ijsem/10.1099/ijs.0.000078&mimeType=html&fmt=ahah

References

  1. Bernardet J. F. , Nakagawa Y. . ( 2006; ). An introduction to the family Flavobacteriaceae . . In The Prokaryotes, pp. 455–480. 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:, 128–148. [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:, 1049–1070. [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, 19–33. 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:, 670–677. [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:, 445–456.[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:, 247–249. [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:, 2455–2461. [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:, 710–715. [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:, 422–426.[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:, 705–711. [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:, 716–721.[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:, 111–120. [CrossRef] [PubMed]
    [Google Scholar]
  15. Komagata K. , Suzuki K. . ( 1987; ). Lipid and cell-wall analysis in bacterial systematics. . Methods Microbiol 19:, 161–207. [CrossRef]
    [Google Scholar]
  16. Lyman J. , Fleming R. H. . ( 1940; ). Composition of seawater. . J Mar Res 3:, 134–146.
    [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:, 297–306. [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:, 233–241. [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. 1–15. 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:, 375–378. [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:, 928–931. [CrossRef] [PubMed]
    [Google Scholar]
  23. Reichenbach H. . ( 1989; ). The order Cytophagales Leadbetter 1974. . In Bergey’s Manual of Systematic Bacteriology, vol. 3, pp. 2011–2013. 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:, 327–329. [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. 607–654. 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:, 846–849. [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:, 2731–2739. [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:, 777–780.[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:, 4876–4882. [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. 330–393. 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:, 697–703.[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:, 345–349. [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:, 685–690. [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:, 4477–4483. [CrossRef] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.000078
Loading
/content/journal/ijsem/10.1099/ijs.0.000078
Loading

Data & Media loading...

Supplementary Data



PDF

Most Cited This Month

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error