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Volume 63, Issue Pt_6

sp. nov., isolated from seawater and emended description of the genus Free

Abstract

A novel bacterium, designated strain F028-2, was isolated from seawater at Damupo beach in Pohang, Korea, and investigated in a taxonomic study using a polyphasic approach. This novel strain was strictly aerobic, non-motile, Gram-stain-negative and rod-shaped, and occasionally formed aggregates. The temperature, pH and NaCl ranges for growth were 4–30 °C, pH 6.5–9.0 and 1–7 % (w/v), respectively. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain F028-2 formed a lineage within the family of the class , and was closely related to members of the genera and with 96.3–96.4 % sequence similarities. The polar lipid profile of strain F028-2 comprised diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, two unidentified aminolipids, one unidentified phospholipid and six unidentified lipids. The predominant cellular fatty acids were Cω7 and C 3-OH. The genomic DNA G+C content of strain F028-2 was 61.6 mol% and the major respiratory quinone was Q-10. Based on phenotypic, phylogenetic and genotypic data, strain F028-2 is considered to represent a novel species in the genus , for which the name sp. nov. is proposed. The type strain is F028-2 ( = KCTC 23543 = JCM 17627). An emended description of the genus is also proposed.

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Funding
This study was supported by the:
  • 21C Frontier Microbial Genomics and Applications Centre Program
© 2013 IUMS
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2013-06-01
2024-04-19
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References

  1. Baumann P., Baumann L. ( 1981 ). The marine gram-negative eubacteria: genera Photobacterium, Beneckea, Alteromonas, Pseudomonas and Alcaligenes . . In The Prokaryotes, vol. 1, pp. 1302–1331. Edited by Starr M. P., Stolp H., Trüper H. G., Balows A., Schlegel H. . Berlin:: Springer;.
     [Google Scholar]
  2. 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]
  3. Buchan A., González J. M., Moran M. A. ( 2005 ). Overview of the marine Roseobacter lineage. . Appl Environ Microbiol 71, 5665–5677. [View Article] [PubMed]
    [Google Scholar]
  4. Chun J., Lee J. H., Jung Y. Y., Kim M. J., Kim S. I., Kim B. K., Lim Y. W. ( 2007 ). EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. . Int J Syst Evol Microbiol 57, 2259–2261. [View Article] [PubMed]
    [Google Scholar]
  5. CLSI (2003). Performance Standards for Antimicrobial Disk Diffusion Susceptibility Tests; Approved Standard, 8th edn, Informational Supplement M2–A8. Wayne, PA: Clinical and Laboratory Standards Institute.
  6. DeSantis T. Z., Hugenholtz P., Larsen N., Rojas M., Brodie E. L., Keller K., Huber T., Dalevi D., Hu P., Andersen G. L. ( 2006 ). Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. . Appl Environ Microbiol 72, 5069–5072. [View Article] [PubMed]
    [Google Scholar]
  7. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368–376. [View Article] [PubMed]
    [Google Scholar]
  8. Felsenstein J. ( 1985 ). Confidence limit on phylogenies: an approach using the bootstrap. . Evolution 39, 783–791. [View Article]
    [Google Scholar]
  9. Fitch W. M. ( 1971 ). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20, 406–416. [View Article]
    [Google Scholar]
  10. González J. M., Moran M. A. ( 1997 ). Numerical dominance of a group of marine bacteria in the alpha-subclass of the class Proteobacteria in coastal seawater. . Appl Environ Microbiol 63, 4237–4242.[PubMed]
    [Google Scholar]
  11. González J. M., Mayer F., Moran M. A., Hodson R. E., Whitman W. B. ( 1997 ). Sagittula stellata gen. nov., sp. nov., a lignin-transforming bacterium from a coastal environment. . Int J Syst Bacteriol 47, 773–780. [View Article] [PubMed]
    [Google Scholar]
  12. González J. M., Kiene R. P., Moran M. A. ( 1999 ). Transformation of sulfur compounds by an abundant lineage of marine bacteria in the α-subclass of the class Proteobacteria . . Appl Environ Microbiol 65, 3810–3819.[PubMed]
    [Google Scholar]
  13. González J. M., Simó R., Massana R., Covert J. S., Casamayor E. O., Pedrós-Alió C., Moran M. A. ( 2000 ). Bacterial community structure associated with a dimethylsulfoniopropionate-producing North Atlantic algal bloom. . Appl Environ Microbiol 66, 4237–4246. [View Article] [PubMed]
    [Google Scholar]
  14. Harwati T. U., Kasai Y., Kodama Y., Susilaningsih D., Watanabe K. ( 2009 ). Tropicibacter naphthalenivorans gen. nov., sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium isolated from Semarang Port in Indonesia. . Int J Syst Evol Microbiol 59, 392–396. [View Article] [PubMed]
    [Google Scholar]
  15. Hwang C. Y., Cho B. C. ( 2008 ). Ponticoccus litoralis gen. nov., sp. nov., a marine bacterium in the family Rhodonacteraceae . . Int J Syst Evol Microbiol 58, 1332–1338. [View Article] [PubMed]
    [Google Scholar]
  16. Jeon C. O., Park W., Ghiorse W. C., Madsen E. L. ( 2004 ). Polaromonas naphthalenivorans sp. nov., a naphthalene-degrading bacterium from naphthalene-contaminated sediment. . Int J Syst Evol Microbiol 54, 93–97. [View Article] [PubMed]
    [Google Scholar]
  17. Kim Y.-G., Hwang C. Y., Cho B. C. ( 2008 ). Pelagicola litoralis gen. nov., sp. nov., isolated from coastal water in Korea. . Int J Syst Evol Microbiol 58, 2102–2106. [View Article] [PubMed]
    [Google Scholar]
  18. Kimura M. ( 1983 ). The Neutral Theory of Molecular Evolution. Cambridge:: Cambridge University Press;. [View Article]
    [Google Scholar]
  19. Komagata K., Suzuki K. ( 1987 ). Lipid and cell-wall analysis in bacterial systematics. . Methods Microbiol 19, 161–207. [View Article]
    [Google Scholar]
  20. Kumar S., Nei M., Dudley J., Tamura K. ( 2008 ). mega: a biologist-centric software for evolutionary analysis of DNA and protein sequences. . Brief Bioinform 9, 299–306. [View Article] [PubMed]
    [Google Scholar]
  21. Labrenz M., Collins M. D., Lawson P. A., Tindall B. J., Braker G., Hirsch P. ( 1998 ). Antarctobacter heliothermus gen. nov., sp. nov., a budding bacterium from hypersaline and heliothermal Ekho Lake. . Int J Syst Bacteriol 48, 1363–1372. [View Article] [PubMed]
    [Google Scholar]
  22. Lafay B., Ruimy R., Rausch De Traubenberg C., Breittmayer V., Gauthier M. J., Christen R. ( 1995 ). Roseobacter algicola sp. nov., a new marine bacterium isolated from the phycosphere of the toxin-producing dinoflagellate Prorocentrum lima . . Int J Syst Bacteriol 45, 290–296. [View Article] [PubMed]
    [Google Scholar]
  23. Lane D. J. ( 1991 ). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115–175. Edited by Stackebrandt E., Goodfellow M. . Chichester:: Wiley;.
     [Google Scholar]
  24. 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]
  25. Martens T., Heidorn T., Pukall R., Simon M., Tindall B. J., Brinkhoff T. ( 2006 ). Reclassification of Roseobacter gallaeciensis Ruiz-Ponte et al. 1998 as Phaeobacter gallaeciensis gen. nov., comb. nov., description of Phaeobacter inhibens sp. nov., reclassification of Ruegeria algicola (Lafay et al. 1995) Uchino et al. 1999 as Marinovum algicola gen. nov., comb. nov., and emended descriptions of the genera Roseobacter, Ruegeria and Leisingera . . Int J Syst Evol Microbiol 56, 1293–1304. [View Article] [PubMed]
    [Google Scholar]
  26. 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. [View Article]
    [Google Scholar]
  27. Norris J. R., Ribbons D. W., Varma A. K. (editors) ( 1985 ). Methods in Microbiology, vol. 18. London:: Academic Press;.
     [Google Scholar]
  28. 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]
  29. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  30. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characteristics. . In Methods for General and Molecular Biology, pp. 607–654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  31. Tindall B. J., Sikorski J., Simbert R. A., Kreig N. R. ( 2007 ). Phenotypic characterization and 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. A., Schmidt T. M., Snyder L. R. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  32. Uchino Y., Hirata A., Yokota A., Sugiyama J. ( 1998 ). Reclassification of marine Agrobacterium species: proposals of Stappia stellulata gen. nov., comb. nov., Stappia aggregata sp. nov., nom. rev., Ruegeria atlantica gen. nov., comb. nov., Ruegeria gelatinovora comb. nov., Ruegeria algicola comb. nov., and Ahrensia kieliense gen. nov., sp. nov., nom. rev.. J Gen Appl Microbiol 44, 201–210. [View Article] [PubMed]
    [Google Scholar]
  33. Vandecandelaere I., Nercessian O., Segaert E., Achouak W., Faimali M., Vandamme P. ( 2008 ). Ruegeria scottomollicae sp. nov., isolated from a marine electroactive biofilm. . Int J Syst Evol Microbiol 58, 2726–2733. [View Article] [PubMed]
    [Google Scholar]
  34. Vandecandelaere I., Segaert E., Mollica A., Faimali M., Vandamme P. ( 2009 ). Phaeobacter caeruleus sp. nov., a blue-coloured, colony-forming bacterium isolated from a marine electroactive biofilm. . Int J Syst Evol Microbiol 59, 1209–1214. [View Article] [PubMed]
    [Google Scholar]
  35. 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]
  36. Yi H., Lim Y. W., Chun J. ( 2007 ). Taxonomic evaluation of the genera Ruegeria and Silicibacter: a proposal to transfer the genus Silicibacter Petursdottir and Kristjansson 1999 to the genus Ruegeria Uchino et al. 1999. . Int J Syst Evol Microbiol 57, 815–819. [View Article] [PubMed]
    [Google Scholar]
  37. Yoon J. H., Kang S. J., Lee S. Y., Oh T. K. ( 2007 ). Phaeobacter daeponensis sp. nov., isolated from a tidal flat of the Yellow Sea in Korea. . Int J Syst Evol Microbiol 57, 856–861. [View Article] [PubMed]
    [Google Scholar]
  38. Zhang D. C., Li H. R., Xin Y. H., Liu H. C., Chi Z. M., Zhou P. J., Yu Y. ( 2008 ). Phaeobacter arcticus sp. nov., a psychrophilic bacterium isolated from the Arctic. . Int J Syst Evol Microbiol 58, 1384–1387. [View Article] [PubMed]
    [Google Scholar]
  39. ZoBell C. E. ( 1941 ). Studies on marine bacteria. I. The cultural requirements of heterotrophic aerobes. . J Mar Res 4, 42–75.
     [Google Scholar]
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Sagittula marina sp. nov., isolated from seawater and emended description of the genus Sagittula
Int J Syst Evol Microbiol 63, 2101 (2013); https://doi.org/10.1099/ijs.0.040766-0
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