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INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 63, Issue Pt_1

Description of sp. nov., sp. nov. and sp. nov., classification of as a later heterotypic synonym of and emended descriptions of the genus and Free

Abstract

A group of five Gram-negative, aerobic, halotolerant, non-pigmented bacteria isolated from shallow sediment samples and invertebrate specimens collected from the Gulf of Alaska and the Sea of Japan was subjected to taxonomic study. On the basis of 16S rRNA gene sequence analysis, the novel isolates were affiliated to the genus , sharing the highest sequence similarity of 99.3–99.9 % with DSM 4741. DNA–DNA hybridization experiments between and among the novel strains and DSM 4741 and JCM 15644 revealed that the five strains represent three separate genospecies, which could be differentiated in their morphological, physiological and biochemical characteristics. NBRC 15607 was included in this study as it has recently been reported to exhibit high 16S rRNA gene sequence similarity to DSM 4741, and it showed a high DNA relatedness value of 96 % with DSM 4741, indicating that they belong to the same species. On the basis of phylogenetic analysis, DNA–DNA hybridization and phenotypic characterization, three novel species are proposed, named sp. nov. (type strain KMM 1561  = NRIC 0815  = CCUG 49560), sp. nov. (type strain KMM 3880  = NRIC 0814  = CCUG 49563) and sp. nov. (type strain KMM 3879  = NRIC 0813  = CCUG 49562). It is also proposed that is a later heterotypic synonym of , and emended descriptions of the genus and the species are provided.

  • Published Online:
Funding
This study was supported by the:
  • Russian Foundation for Basic Research (RFBR)
  • Far-Eastern Branch of Russian Academy of Sciences (Award 11-04-98538)
  • RFBR
© 2013 IUMS
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2013-01-01
2024-04-25
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References

  1. Arahal D. R., Castillo A. M., Ludwig W., Schleifer K. H., Ventosa A. ( 2002 ). Proposal of Cobetia marina gen. nov., comb. nov., within the family Halomonadaceae, to include the species Halomonas marina . . Syst Appl Microbiol 25, 207–211. [View Article] [PubMed]
    [Google Scholar]
  2. Baumann L., Bowditch R. D., Baumann P. ( 1983 ). Description of Deleya gen. nov. created to accommodate the marine species Alcaligenes aestus, A. pacificus, A. cupidus, A. venustus, and Pseudomonas marina . . Int J Syst Bacteriol 33, 793–802. [View Article]
    [Google Scholar]
  3. Bruns A., Rohde M., Berthe-Corti L. ( 2001 ). Muricauda ruestringensis gen. nov., sp. nov., a facultatively anaerobic, appendaged bacterium from German North Sea intertidal sediment. . Int J Syst Evol Microbiol 51, 1997–2006. [View Article] [PubMed]
    [Google Scholar]
  4. Cobet A. B., Wirsen C. Jr, Jones G. E. ( 1970 ). The effect of nickel on a marine bacterium, Arthrobacter marinus sp. nov. . J Gen Microbiol 62, 159–169. [View Article] [PubMed]
    [Google Scholar]
  5. Collins M. D., Shah H. N. ( 1984 ). Fatty acid, menaquinone and polar lipid composition of Rothia dentosacariosa . . Arch Microbiol 137, 247–249. [View Article]
    [Google Scholar]
  6. de la Haba R. R., Arahal D. R., Márquez M. C., Ventosa A. ( 2010 ). Phylogenetic relationships within the family Halomonadaceae based on comparative 23S and 16S rRNA gene sequence analysis. . Int J Syst Evol Microbiol 60, 737–748. [View Article] [PubMed]
    [Google Scholar]
  7. de la Haba R. R., Márquez M. C., Papke R. T., Ventosa A. ( 2012 ). Multilocus sequence analysis of the family Halomonadaceae . . Int J Syst Evol Microbiol 62, 520–538. [View Article] [PubMed]
    [Google Scholar]
  8. De Ley J., Cattoir H., Reynaerts A. ( 1970 ). The quantitative measurement of DNA hybridization from renaturation rates. . Eur J Biochem 12, 143–153. [View Article] [PubMed]
    [Google Scholar]
  9. Dobson S. J., Franzmann P. D. ( 1996 ). Unification of the genera Deleya (Baumann et al. 1983), Halomonas (Vreeland et al. 1980), and Halovibrio (Fendrich 1988) and the species Paracoccus halodenitrificans (Robinson and Gibbons 1952) into a single genus, Halomonas, and placement of the genus Zymobacter in the family Halomonadaceae . . Int J Syst Bacteriol 46, 550–558. [View Article]
    [Google Scholar]
  10. Folch J., Lees M., Sloane Stanley G. H. ( 1957 ). A simple method for the isolation and purification of total lipids from animal tissues. . J Biol Chem 226, 497–509.[PubMed]
    [Google Scholar]
  11. 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]
  12. Hebert A. M., Vreeland R. H. ( 1987 ). Phenotypic comparison of halotolerant bacteria: Halomonas halodurans sp. nov., nom. rev., comb. nov.. Int J Syst Bacteriol 37, 347–350. [View Article]
    [Google Scholar]
  13. Heissenberger A., Leppard G. G., Herndl G. J. ( 1996 ). Relationship between the intracellular integrity and the morphology of the capsular envelope in attached and free-living marine bacteria. . Appl Environ Microbiol 62, 4521–4528.[PubMed]
    [Google Scholar]
  14. Kim M. S., Roh S. W., Bae J. W. ( 2010 ). Cobetia crustatorum sp. nov., a novel slightly halophilic bacterium isolated from traditional fermented seafood in Korea. . Int J Syst Evol Microbiol 60, 620–626. [View Article] [PubMed]
    [Google Scholar]
  15. Leifson E. ( 1963 ). Determination of carbohydrate metabolism of marine bacteria. . J Bacteriol 85, 1183–1184.[PubMed]
    [Google Scholar]
  16. 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]
  17. Owen R. J., Hill L. R., Lapage S. P. ( 1969 ). Determination of DNA base compositions from melting profiles in dilute buffers. . Biopolymers 7, 503–516. [View Article] [PubMed]
    [Google Scholar]
  18. Pearson W. R., Lipman D. J. ( 1988 ). Improved tools for biological sequence comparison. . Proc Natl Acad Sci U S A 85, 2444–2448. [View Article] [PubMed]
    [Google Scholar]
  19. Romanenko L. A., Schumann P., Rohde M., Mikhailov V. V., Stackebrandt E. ( 2002 ). Halomonas halocynthiae sp. nov., isolated from the marine ascidian Halocynthia aurantium . . Int J Syst Evol Microbiol 52, 1767–1772. [View Article] [PubMed]
    [Google Scholar]
  20. Romanenko L. A., Schumann P., Zhukova N. V., Rohde M., Mikhailov V. V., Stackebrandt E. ( 2003 ). Oceanisphaera litoralis gen. nov., sp. nov., a novel halophilic bacterium from marine bottom sediments. . Int J Syst Evol Microbiol 53, 1885–1888. [View Article] [PubMed]
    [Google Scholar]
  21. Romanenko L. A., Schumann P., Rohde M., Mikhailov V. V., Stackebrandt E. ( 2004 ). Reinekea marinisedimentorum gen. nov., sp. nov., a novel gammaproteobacterium from marine coastal sediments. . Int J Syst Evol Microbiol 54, 669–673. [View Article] [PubMed]
    [Google Scholar]
  22. Romanenko L. A., Uchino M., Falsen E., Frolova G. M., Zhukova N. V., Mikhailov V. V. ( 2005 ). Pseudomonas pachastrellae sp. nov., isolated from a marine sponge. . Int J Syst Evol Microbiol 55, 919–924. [View Article] [PubMed]
    [Google Scholar]
  23. Rosenberg A. ( 1983 ). Pseudomonas halodurans sp. nov., a halotolerant bacterium. . Arch Microbiol 136, 117–123. [View Article]
    [Google Scholar]
  24. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  25. Shida O., Takagi H., Kadowaki K., Nakamura L. K., Komagata K. ( 1997 ). Transfer of Bacillus alginolyticus, Bacillus chondroitinus, Bacillus curdlanolyticus, Bacillus glucanolyticus, Bacillus kobensis, and Bacillus thiaminolyticus to the genus Paenibacillus and emended description of the genus Paenibacillus . . Int J Syst Bacteriol 47, 289–298. [View Article] [PubMed]
    [Google Scholar]
  26. Stackebrandt E., Ebers J. ( 2006 ). Taxonomic parameters revisited: tarnished gold standards. . Microbiol Today 33, 152–155.
     [Google Scholar]
  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, 2731–2739. [View Article] [PubMed]
    [Google Scholar]
  28. Thompson J. D., Gibson T. J., Higgins D. G. ( 2002 ). Multiple sequence alignment using ClustalW and ClustalX. . In Current Protocols in Bioinformatics, pp. 2.3.1–2.3.22. Edited by Baxevanis A. D., Pearson W. R., Stein L. D., Stormo G. D., Yates J. R. III . Hoboken, NJ:: Wiley;. [View Article]
    [Google Scholar]
  29. 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]
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Description of Cobetia amphilecti sp. nov., Cobetia litoralis sp. nov. and Cobetia pacifica sp. nov., classification of Halomonas halodurans as a later heterotypic synonym of Cobetia marina and emended descriptions of the genus Cobetia and Cobetia marina
Int J Syst Evol Microbiol 63, 288 (2013); https://doi.org/10.1099/ijs.0.036863-0
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