1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 64, Issue Pt_2

sp. nov. and sp. nov., isolated from farmed rainbow trout ( Free

Abstract

Four Gram-staining-negative, catalase- and oxidase-positive, pale-orange pigmented bacterial strains (435-08, 47B-3-09, 412R-09 and 60B-3-09) were isolated from diseased rainbow trout. Analysis of their 16S rRNA gene sequences suggested their adscription to the genus . Strains formed two phylogenetic groups represented by strains 435-08 and 47B-3-09 (group A), and strains 412R-09 and 60B-3-09 (group B) displaying 16S rRNA sequence similarities greater than 99.8–99.9 % within their respective groups. Strain 435-08 exhibited the highest levels of similarity with WB-1.1.56 (98.6 % sequence similarity) and strain 412R-09 with KUC-1 and WB-1.1.56 (98.9 % and 98.6 % sequence similarity, respectively). DNA–DNA hybridization studies showed low levels of relatedness between strain 435-08 and strain 412R-09 and between both strains and the most closely related species of the genus . The genomic DNA G+C contents of strains 435-08 and 412R-09 were 36.2 and 34.3 mol%, respectively. The predominant respiratory quinone of both strains was MK-6 and the major fatty acids were iso-C, Cω7 and C. The two groups of strains could be distinguished from each other and from related species of the genus by a number of phenotypic properties. Phylogenetic, genotypic and phenotypic evidence indicated that strains of groups A and B represent two novel species of the genus , for which the names sp. nov. (type strain 435-08 = CECT 7791 = CCUG 60100) and sp. nov. (type strain 412R-09 = CECT 7911 = CCUG 60099) are proposed.

  • Published Online:
Funding
This study was supported by the:
  • Spanish Office for Science and Technology (CDETI) (Award CENIT 2007-2010 (ACUISOST))
  • Spanish Ministry of Science and Innovation (Award CGL2010-19303)
  • Junta de Andalucía (Award P10-CVI-6226)
  • Västra Götaland Region (Award VGFOUREG-157801, VGFOUREG-83080 and VGFOUREG-30781)
© 2014 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.056341-0
2014-02-01
2024-04-16
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/2/392.html?itemId=/content/journal/ijsem/10.1099/ijs.0.056341-0&mimeType=html&fmt=ahah

References

  1. Arahal D. R., García M. T., Vargas C., Cánovas D., Nieto J. J., Ventosa A. ( 2001 ). Chromohalobacter salexigens sp. nov., a moderately halophilic species that includes Halomonas elongata DSM 3043 and ATCC 33174. . Int J Syst Evol Microbiol 51, 1457–1462.[PubMed]
    [Google Scholar]
  2. Bernardet J. F., Bowman J. P. ( 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., Nakagawa Y. ( 2006 ). An introduction to the family Flavobacteriaceae . . In The Prokaryotes: a Handbook on the Biology of Bacteria, , 3rd edn., vol. 7, pp. 455–480. Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K. H., Stackebrandt E. . New York:: Springer;.
     [Google Scholar]
  4. 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. [View Article]
    [Google Scholar]
  5. 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. [View Article] [PubMed]
    [Google Scholar]
  6. Bowman J. P., Cavanagh J., Austin J. J., Sanderson K. ( 1996 ). Novel Psychrobacter species from Antarctic ornithogenic soils. . Int J Syst Bacteriol 46, 841–848. [View Article] [PubMed]
    [Google Scholar]
  7. Chen Y. C., Davis M. A., Lapatra S. E., Cain K. D., Snekvik K. R., Call D. R. ( 2008 ). Genetic diversity of Flavobacterium psychrophilum recovered from commercially raised rainbow trout, Oncorhynchus mykiss (Walbaum), and spawning coho salmon, O. kisutch (Walbaum). . J Fish Dis 31, 765–773. [View Article] [PubMed]
    [Google Scholar]
  8. Chen W. M., Huang W. C., Young C. C., Sheu S. Y. ( 2013 ). Flavobacterium tilapiae sp. nov., isolated from a freshwater pond, and emended descriptions of Flavobacterium defluvii and Flavobacterium johnsoniae. . Int J Syst Evol Microbiol 63, 827–834. [View Article] [PubMed]
    [Google Scholar]
  9. Crump E. M., Perry M. B., Clouthier S. C., Kay W. W. ( 2001 ). Antigenic characterization of the fish pathogen Flavobacterium psychrophilum . . Appl Environ Microbiol 67, 750–759. [View Article] [PubMed]
    [Google Scholar]
  10. Darwish A. M., Ismaiel A. A., Newton J. C., Tang J. ( 2004 ). Identification of Flavobacterium columnare by a species-specific polymerase chain reaction and renaming of ATCC43622 strain to Flavobacterium johnsoniae . . Mol Cell Probes 18, 421–427. [View Article] [PubMed]
    [Google Scholar]
  11. De Ley J., Tijtgat R. ( 1970 ). Evaluation of membrane filter methods for DNA-DNA hybridization. . Antonie van Leeuwenhoek 36, 461–474. [View Article] [PubMed]
    [Google Scholar]
  12. 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. [View Article] [PubMed]
    [Google Scholar]
  13. Figueiredo H. C. P., Klesius P. H., Arias C. R., Evans J., Shoemaker C. A., Pereira D. J. Jr, Peixoto M. T. D. ( 2005 ). Isolation and characterization of strains of Flavobacterium columnare from Brazil. . J Fish Dis 28, 199–204. [View Article] [PubMed]
    [Google Scholar]
  14. Flemming L., Rawlings D., Chenia H. ( 2007 ). Phenotypic and molecular characterisation of fish-borne Flavobacterium johnsoniae-like isolates from aquaculture systems in South Africa. . Res Microbiol 158, 18–30. [View Article] [PubMed]
    [Google Scholar]
  15. Guindon S., Gascuel O. ( 2003 ). A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. . Syst Biol 52, 696–704. [View Article] [PubMed]
    [Google Scholar]
  16. Johnson J. L. ( 1994 ). Similarity analysis of DNAs. . In Methods for General and Molecular Bacteriology, pp. 655–682. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  17. Kämpfer P., Lodders N., Martin K., Avendaño-Herrera R. ( 2012 ). Flavobacterium chilense sp. nov. and Flavobacterium araucananum sp. nov., isolated from farmed salmonid fish. . Int J Syst Evol Microbiol 62, 1402–1408. [View Article] [PubMed]
    [Google Scholar]
  18. 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, 716–721. [View Article] [PubMed]
    [Google Scholar]
  19. 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. [View Article] [PubMed]
    [Google Scholar]
  20. Kumar S., Tamura K., Nei M. ( 2004 ). mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. . Brief Bioinform 5, 150–163. [View Article] [PubMed]
    [Google Scholar]
  21. Lim C. S., Oh Y. S., Lee J. K., Park A. R., Yoo J. S., Rhee S. K., Roh D. H. ( 2011 ). Flavobacterium chungbukense sp. nov., isolated from soil. . Int J Syst Evol Microbiol 61, 2734–2739. [View Article] [PubMed]
    [Google Scholar]
  22. Marmur J. ( 1961 ). A procedure for the isolation of deoxyribonucleic acid from microoganisms. . J Mol Biol 3, 208–219. [View Article]
    [Google Scholar]
  23. Marmur J., Doty P. ( 1962 ). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. . J Mol Biol 5, 109–118. [View Article] [PubMed]
    [Google Scholar]
  24. Page R. D. M. ( 1996 ). TreeView: an application to display phylogenetic trees on personal computers. . Comput Appl Biosci 12, 357–358.[PubMed]
    [Google Scholar]
  25. Rasmussen, S. W. (2002). SEQtools, a software package for analysis of nucleotide and protein sequences.
  26. Rosselló-Mora R. ( 2006 ). DNA-DNA reassociation methods applied to microbial taxonomy and their critical evaluation. . In Molecular Identification, Systematics and Population Structure of Prokaryotes, pp. 23–50. Edited by Stackebrandt E. . Berlin:: Springer;. [View Article]
    [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. (2001). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  29. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607–653. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  30. Tindall B. J., Sikorski J., Smibert R. A., Krieg N. R. ( 2008 ). Phenotypic characterization and the principles of comparative systematics. . In Methods for General and Molecular Microbiology, , 3rd edn., 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;.
     [Google Scholar]
  31. 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. & other authors ( 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. [View Article]
    [Google Scholar]
  32. Xu M., Xin Y., Tian J., Dong K., Yu Y., Zhang J., Liu H., Zhou Y. ( 2011 ). Flavobacterium sinopsychrotolerans sp. nov., isolated from a glacier. . Int J Syst Evol Microbiol 61, 20–24. [View Article] [PubMed]
    [Google Scholar]
  33. Yoon J. H., Park S., Kang S. J., Oh S. J., Myung S. C., Kim W. ( 2011 ). Flavobacterium ponti sp. nov., isolated from seawater. . Int J Syst Evol Microbiol 61, 81–85. [View Article] [PubMed]
    [Google Scholar]
  34. Zamora L., Fernández-Garayzábal J. F., Svensson-Stadler L. A., Palacios M. A., Domínguez L., Moore E. R. B., Vela A. I. ( 2012 ). Flavobacterium oncorhynchi sp. nov., a new species isolated from rainbow trout (Oncorhynchus mykiss). . Syst Appl Microbiol 35, 86–91. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.056341-0
Loading
Flavobacterium tructae sp. nov. and Flavobacterium piscis sp. nov., isolated from farmed rainbow trout (Oncorhynchus mykiss)
Int J Syst Evol Microbiol 64, 392 (2014); https://doi.org/10.1099/ijs.0.056341-0
/content/journal/ijsem/10.1099/ijs.0.056341-0
/content/journal/ijsem/10.1099/ijs.0.056341-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited Most Cited RSS feed

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