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Abstract

A Gram-reaction-negative, non-spore-forming, gliding, non-translucent, colourless or yellow, aerobic and elevated-colony-forming strain, designated E403, was isolated from the Bashi Channel and subjected to a polyphasic taxonomic study. Strain E403 could grow in the presence of 0.3–8 % (w/v) NaCl, at 16–43 °C and at pH 6–9, and grew optimally at 28 °C, pH 8, in natural seawater medium. The respiratory quinones were MK-6 and MK-7. The major fatty acids were iso-C, iso-C 3-OH, iso-C G, summed feature 3 (Cω7/Cω6), iso-C 3-OH and C. The DNA G+C content of strain E403 was 37.9 mol%. Phylogenetic analyses based on 16S rRNA gene sequences of members of the family showed that strain E403 formed a distinct evolutionary lineage within the stable cluster containing type strains HN-171 (92.2 % similarity) and En5 (92.4 % similarity). In addition to the large 16S rRNA gene sequence differences, E403 can also be distinguished from the reference type strains En5 and SCSIO 03483 by several phenotypic characteristics and chemotaxonomic properties. On the basis of phenotypic, chemotaxonomic and phylogenetic properties, strain E403 is suggested to represent a novel species of a new genus in the family , for which the name gen. nov., sp. nov. is proposed. The type strain is E403 ( = CCTCC AB2012862 = CGMCC 1.12333 = KCTC 32192).

Funding
This study was supported by the:
  • National Basic Research Program of China (Award 2010CB833801)
  • National Natural Science Foundation of China (Award 41206136)
  • Guangdong Province and Chinese Academy of Science cooperation Foundation (Award 2012B091100276)
  • Public Science and Technology Research Funds Projects of Ocean (Award 201005031-5)
  • Provincial Collaborative Foundation Project of Guangdong (Award 9351007002000001)
  • Key Laboratory of Marine Bio-resources Sustainable Utilization, Chinese Academy of Science
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2013-08-01
2024-10-13
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References

  1. Bernardet J.-F., Nakagawa Y. ( 2006 ). An introduction to the family Flavobacteriaceae . . In The Prokaryotes: a Handbook on the Biology of Bacteria, , 3rd edn., vol. 7, pp. 455480. Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K. H., Stackebrandt E. . New York:: Springer;.
    [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. [View Article]
    [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. [View Article] [PubMed]
    [Google Scholar]
  4. Collins M. D. ( 1994 ). Isoprenoid quinones. . In Chemical Methods in Prokaryotic Systematics, pp. 265309. Edited by Goodfellow M., O’Donnell A. G. . Chichester:: Wiley;.
    [Google Scholar]
  5. Dong X.-Z., Cai M.-Y. ( 2001 ). Determinative Manual for Routine Bacteriology. Beijing:: Scientific Press;.
    [Google Scholar]
  6. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368376. [View Article] [PubMed]
    [Google Scholar]
  7. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783791. [View Article]
    [Google Scholar]
  8. Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. (editors) ( 1994 ). Methods for General and Molecular Bacteriology. Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  9. Jooste P. J. ( 1985 ). The taxonomy and significance of Flavobacterium–Cytophaga strains from dairy sources . . PhD thesis, University of the Orange Free State;, South Africa:.
    [Google Scholar]
  10. Kamekura M. ( 1993 ). Lipids of extreme halophiles. . In The Biology of Halophilic Bacteria, pp. 135161. Edited by Vreeland R. H., Hochstein L. I. . Boca Raton:: CRC Press;.
    [Google Scholar]
  11. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. & other authors ( 2012 ). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62, 716721. [View Article] [PubMed]
    [Google Scholar]
  12. Kimura M. ( 1980 ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16, 111120. [View Article] [PubMed]
    [Google Scholar]
  13. Komagata K., Suzuki K. ( 1988 ). Lipid and cell-wall analysis in bacterial systematics. . Methods Microbiol 19, 161207. [View Article]
    [Google Scholar]
  14. Lane D. J. ( 1991 ). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115175. Edited by Stackebrandt E., Goodfellow M. . Chichester:: Wiley;.
    [Google Scholar]
  15. Larkin M. A., Blackshields G., Brown N. P., Chenna R., McGettigan P. A., McWilliam H., Valentin F., Wallace I. M., Wilm A. & other authors ( 2007 ). clustal w and clustal_x version 2.0. . Bioinformatics 23, 29472948. [View Article] [PubMed]
    [Google Scholar]
  16. Lee H. S., Kwon K. K., Yang S. H., Bae S. S., Park C. H., Kim S. J., Lee J. H. ( 2008 ). Description of Croceitalea gen. nov. in the family Flavobacteriaceae with two species, Croceitalea eckloniae sp. nov. and Croceitalea dokdonensis sp. nov., isolated from the rhizosphere of the marine alga Ecklonia kurome . . Int J Syst Evol Microbiol 58, 25052510. [View Article] [PubMed]
    [Google Scholar]
  17. Liu Z. P., Wang B. J., Dai X., Liu X. Y., Liu S. J. ( 2006 ). Zhouia amylolytica gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from sediment of the South China Sea. . Int J Syst Evol Microbiol 56, 28252829. [View Article] [PubMed]
    [Google Scholar]
  18. 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, 159167. [View Article]
    [Google Scholar]
  19. Pruesse E., Peplies J., Glöckner F. O. ( 2012 ). sina: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. . Bioinformatics 28, 18231829. [View Article] [PubMed]
    [Google Scholar]
  20. Quan Z. X., Xiao Y. P., Roh S. W., Nam Y. D., Chang H. W., Shin K. S., Rhee S. K., Park Y. H., Bae J. W. ( 2008 ). Joostella marina gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from the East Sea. . Int J Syst Evol Microbiol 58, 13881392. [View Article] [PubMed]
    [Google Scholar]
  21. 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, 327328. [View Article]
    [Google Scholar]
  22. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  23. Shimkets L. J., Dworkin M., Reichenbach H. ( 2006 ). The myxobacteria. . The Prokaryotes: a Handbook on the Biology of Bacteria, , 3rd edn., vol. 7, pp. 31115. Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K. H., Stackebrandt E. . New York:: Springer;.
    [Google Scholar]
  24. Sipkema D., Schippers K., Maalcke W. J., Yang Y., Salim S., Blanch H. W. ( 2011 ). Multiple approaches to enhance the cultivability of bacteria associated with the marine sponge Haliclona (gellius) sp.. Appl Environ Microbiol 77, 21302140. [View Article] [PubMed]
    [Google Scholar]
  25. Surendra V., Bhawana P., Suresh K., Srinivas T. N. R., Kumar P. A. ( 2012 ). Imtechella halotolerans gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from estuarine water. . Int J Syst Evol Microbiol 62, 26242630. [View Article] [PubMed]
    [Google Scholar]
  26. Swofford, D. L. (1993). paup: Phylogenetic analysis using parsimony, version 3.1.1. Champaign, IL: Illinois Natural History Survey.
  27. 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. [View Article] [PubMed]
    [Google Scholar]
  28. Tindall B. J. ( 1990 ). Lipid composition of Halobacterium lacusprofundi . . FEMS Microbiol Lett 66, 199202. [View Article]
    [Google Scholar]
  29. Xu Y., Tian X.-P., Liu Y.-J., Li J., Kim C.-J., Yin H., Li W.-J., Zhang S. ( 2013 ). Sinomicrobium oceani gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from marine sediment. . Int J Syst Evol Microbiol 63, 10451050. [View Article] [PubMed]
    [Google Scholar]
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