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Abstract

A Gram-negative, strictly aerobic, marine bacterium, designated strain CL-YJ9, was isolated from sediment closely associated with the roots of a plant () inhabiting a coastal tidal flat. Cells of the novel strain were straight and rod-shaped and were motile by means of monopolar flagella. A phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CL-YJ9 belongs to the genus and was most closely related to mano11 (94.1 % sequence similarity) and to other members of the genus (92.5–93.7 % sequence similarity). The strain grew with 1–5 % NaCl (optimum, 3 %) and at 5–30 °C (optimum, approx. 25 °C) and pH 6.0–9.0 (optimum, pH 7.0). The predominant cellular fatty acids were summed feature 3 (C 7 and/or iso-C 2-OH, 40.3 %), C 7 (26.6 %), C (16.6 %) and C 3-OH (7.1 %). The major isoprenoid quinone was Q-8. The G+C content of the genomic DNA was 61 mol%. On the basis of the data from this polyphasic study, strain CL-YJ9 belongs to the genus but is distinguishable from the recognized species. Strain CL-YJ9 therefore represents a novel species, for which the name sp. nov. is proposed. The type strain is CL-YJ9 (=KCCM 42386 =DSM 18822).

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2008-01-01
2019-10-18
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References

  1. Altschul, S. F., Gish, W., Miller, W., Myers, E. W. & Lipman, D. J. ( 1990; ). Basic local alignment search tool. J Mol Biol 215, 403–410.[CrossRef]
    [Google Scholar]
  2. Baumann, P. & Baumann, L. ( 1981; ). The marine Gram-negative eubacteria: genera Photobacterium, Beneckea, Alteromonas, Pseudomonas, and Alcaligenes. In The Prokaryotes. A Handbook on Habitats, Isolation, and Identification of Bacteria, pp. 1302–1331. Edited by M. P. Starr, H. Stolp, H. G. Trüper, A. Balows & H. G. Schlegel. Berlin: Springer.
  3. Baumann, P., Bowditch, R. D., Baumann, L. & Beaman, B. ( 1983; ). Taxonomy of marine Pseudomonas species: P. stanieri sp. nov.; P. perfectomarina sp. nov., nom. rev.; P. nautica; and P. doudoroffii. Int J Syst Bacteriol 33, 857–865.[CrossRef]
    [Google Scholar]
  4. Bowditch, R. D., Baumann, L. & Baumann, P. ( 1984; ). Description of Oceanospirillum kriegii sp. nov. and O. jannaschii sp. nov. and assignment of two species of Alteromonas to this genus as O. commune comb. nov. and O. vagum comb. nov. Curr Microbiol 10, 221–230.[CrossRef]
    [Google Scholar]
  5. Chang, H.-W., Nam, Y.-D., Kwon, H.-Y., Park, J. R., Lee, J.-S., Yoon, J.-H., An, K.-G. & Bea, J.-W. ( 2007; ). Marinobacterium halophilum sp. nov., a marine bacterium isolated from the Yellow Sea. Int J Syst Evol Microbiol 57, 77–80.[CrossRef]
    [Google Scholar]
  6. Cole, J. R., Chai, B., Marsh, T. L., Farris, R. J., Wang, Q., Kulam, S. A., Chandra, S., McGarrell, D. M., Schmidt, T. M. & other authors ( 2003; ). The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy. Nucleic Acids Res 31, 442–443.[CrossRef]
    [Google Scholar]
  7. Collins, M. D. ( 1985; ). Analysis of isoprenoid quinones. Methods Microbiol 18, 329–366.
    [Google Scholar]
  8. Felsenstein, J. ( 1981; ). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef]
    [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.[CrossRef]
    [Google Scholar]
  10. González, J. M., Mayer, F., Moran, M. A., Hodson, R. E. & Whitman, W. B. ( 1997; ). Microbulbifer hydrolyticus gen. nov., sp. nov., and Marinobacterium georgiense gen. nov., sp. nov., two marine bacteria from a lignin-rich pulp mill waste enrichment community. Int J Syst Bacteriol 47, 369–376.[CrossRef]
    [Google Scholar]
  11. Hansen, G. H. & Sørheim, R. ( 1991; ). Improved method for phenotypical characterization of marine bacteria. J Microbiol Methods 13, 231–241.[CrossRef]
    [Google Scholar]
  12. Jeon, Y.-S., Chung, H., Park, S., Hur, I., Lee, J.-H. & Chun, J. ( 2005; ). jPHYDIT: a JAVA-based integrated environment for molecular phylogeny of ribosomal RNA sequences. Bioinformatics 21, 3171–3173.[CrossRef]
    [Google Scholar]
  13. Jukes, T. H. & Cantor, C. R. ( 1969; ). Evolution of protein molecules. In Mammalian Protein Metabolism, pp. 21–132. Edited by H. N. Munro. New York: Academic Press.
  14. Kumar, S., Tamura, K. & Nei, M. ( 2004; ). mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150–163.[CrossRef]
    [Google Scholar]
  15. Lane, D. J. ( 1991; ). 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics, pp. 115–175. Edited by E. Stackebrandt & M. Goodfellow. Chichester: Wiley.
  16. Minnikin, D. E., O'Donnell, A. G., Goodfellow, M., Alderson, G., Athalye, M., Schaal, K. & 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]
  17. Ostle, A. G. & Holt, J. G. ( 1982; ). Nile blue A as fluorescent stain for poly-β-hydroxybutyrate. Appl Environ Microbiol 44, 238–241.
    [Google Scholar]
  18. Posada, D. & Crandall, K. A. ( 1998; ). modeltest: testing the model of DNA substitution. Bioinformatics 14, 817–818.[CrossRef]
    [Google Scholar]
  19. Rosselló-Mora, R. & Amann, R. ( 2001; ). The species concept for prokaryotes. FEMS Microbiol Rev 25, 39–67.[CrossRef]
    [Google Scholar]
  20. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  21. Satomi, M., Kimura, B., Hamada, T., Harayama, S. & Fujii, T. ( 2002; ). Phylogenetic study of the genus Oceanospirillum based on 16S rRNA and gyrB genes: emended description of the genus Oceanospirillum, description of Pseudospirillum gen. nov., Oceanobacter gen. nov. and Terasakiella gen. nov. and transfer of Oceanospirillum jannaschii and Pseudomonas stanieri to Marinobacterium as Marinobacterium jannaschii comb. nov. and Marinobacterium stanieri comb. nov. Int J Syst Evol Microbiol 52, 739–747.[CrossRef]
    [Google Scholar]
  22. Smibert, R. M. & Krieg, N. R. ( 1994; ). Phenotypic characterization. In Methods for General and Molecular Bacteriology, pp. 607–654. Edited by P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, DC: American Society for Microbiology.
  23. 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]
  24. Swofford, D. L. ( 1998; ). paup*: phylogenetic analysis using parsimony (and other methods), version 4. Sunderland, MA: Sinauer Associates.
  25. Tamaoka, J. & Komagata, K. ( 1984; ). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25, 125–128.[CrossRef]
    [Google Scholar]
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vol. , part 1, pp. 164 - 167

Cellular fatty acid compositions of strain CL-YJ9 and type strains of species. [PDF](21 KB)



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