1887

Abstract

A novel exopolysaccharide-producing bacterium, designated strain SE3, was isolated from Pacific Ocean sediment. The strain was Gram-stain-negative, motile, strictly aerobic, oxidase-positive and catalase-positive, and required Na for growth. Its major isoprenoid quinone was ubiquinone-8 (Q-8), and its cellular fatty acid profile mainly consisted of Cω7, C and Cω7. The DNA G+C content was 46.9 mol%. 16S rRNA gene sequence analysis suggested that strain SE3 is a member of the genus . Strain SE3 exhibited close phylogenetic affinity to JCM 17292 (99.0 % 16S rRNA gene sequence similarity), LMEB 39 (98.39 %) and HJ51 (97.65 %). The DNA–DNA reassociation values between strain SE3 and JCM 17292, JCM 15903 and LMG 24469 were 31, 26 and 44 %, respectively. Owing to the significant differences in phenotypic and chemotaxonomic characteristics, phylogenetic analysis based on 16S rRNA gene sequences and DNA–DNA relatedness data, the new isolate merits classification as a representative of novel species, for which the name is proposed. The type strain is SE3 ( = JCM 18891 = NCIMB 14852).

Funding
This study was supported by the:
  • Ministry of Education, Science, Sports and Culture, Japan (Award 2241001)
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.055558-0
2014-01-01
2024-04-26
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/1/101.html?itemId=/content/journal/ijsem/10.1099/ijs.0.055558-0&mimeType=html&fmt=ahah

References

  1. Barrow G. I., Feltham R. K. A. (editors) ( 1993 ). Cowan and Steel’s Manual for the Identification of Medical Bacteria, , 3rd edn.. Cambridge:: Cambridge University Press;. [View Article]
    [Google Scholar]
  2. Baumann L., Baumann P., Mandel M., Allen R. D. ( 1972 ). Taxonomy of aerobic marine eubacteria. . J Bacteriol 110, 402429.[PubMed]
    [Google Scholar]
  3. Bowman J. P., McMeekin T. A. ( 2005 ). Genus Xl. Pseudoalteromonas Gauthier, Gauthier and Christen 1995a, 759VP . . In Bergey’s Manual of Systematic Bacteriology, , 2nd edn., vol 2, pp. 467478. Edited by Brenner D. J., Krieg N. R., Staley J. T., Garrity G. M. . New York:: Springer;.
    [Google Scholar]
  4. Ezaki T., Hashimoto Y., Yabuuchi E. ( 1989 ). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used determine genetic relatedness among bacterial strains. . Int J Syst Evol Microbiol 39, 224229.
    [Google Scholar]
  5. Gauthier G., Gauthier M., Christen R. ( 1995 ). Phylogenetic analysis of the genera Alteromonas, Shewanella, and Moritella using genes coding for small-subunit rRNA sequences and division of the genus Alteromonas into two genera, Alteromonas (emended) and Pseudoalteromonas gen. nov., and proposal of twelve new species combinations. . Int J Syst Bacteriol 45, 755761. [View Article] [PubMed]
    [Google Scholar]
  6. Guindon S., Gascuel O. ( 2003 ). A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. . Syst Biol 52, 696704. [View Article] [PubMed]
    [Google Scholar]
  7. Ivanova E. P., Zhukova N. V., Svetashev V. I., Gorshkova N. M., Kurilenko V. V., Frolova G. M., Mikhailov V. V. ( 2000 ). Evaluation of phospholipid and fatty acid compositions as chemotaxonomic markers of Alteromonas-like proteobacteria. . Curr Microbiol 41, 341345. [View Article] [PubMed]
    [Google Scholar]
  8. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. et al. ( 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]
  9. 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]
  10. Leifson E. ( 1963 ). Determination of carbohydrate metabolism of marine bacteria. . J Bacteriol 85, 11831184.[PubMed]
    [Google Scholar]
  11. Marmur J. ( 1961 ). A procedure for the isolation of deoxyribonucleic acid from microorganisms. . J Mol Biol 3, 208218. [View Article]
    [Google Scholar]
  12. Matsuyama H., Kamesaki T., Sasaki R., Minami H., Yumoto I. ( 2003 ). Production of two types of exopolysaccharide by Novosphingobium rosa . . J Biosci Bioeng 95, 152156.[PubMed] [CrossRef]
    [Google Scholar]
  13. Matsuyama H., Hirabayashi T., Kasahara H., Minami H., Hoshino T., Yumoto I. ( 2006 ). Glaciecola chathamensis sp. nov., a novel marine polysaccharide-producing bacterium. . Int J Syst Evol Microbiol 56, 28832886. [View Article] [PubMed]
    [Google Scholar]
  14. Matsuyama H., Minami H., Kasahara H., Kato Y., Murayama M., Yumoto I. ( 2013 ). Pseudoalteromonas arabiensis sp. nov., a marine polysaccharide-producing bacterium. . Int J Syst Evol Microbiol 63, 18051809. [View Article] [PubMed]
    [Google Scholar]
  15. Nishijima M., Araki-Sakai M., Sano H. ( 1997 ). Identification of isoprenoid quinones by frit-FAB liquid chromatography–mass spectrometry for the chemotaxonomy of microorganisms. . J Microbiol Methods 28, 113122. [View Article]
    [Google Scholar]
  16. Oh Y.-S., Park A.-R., Lee J.-K., Lim C.-S., Yoo J.-S., Roh D.-H. ( 2011 ). Pseudoalteromonas donghaensis sp. nov., isolated from seawater. . Int J Syst Evol Microbiol 61, 351355. [View Article] [PubMed]
    [Google Scholar]
  17. Rzhetsky A., Nei M. ( 1993 ). Theoretical foundation of the minimum-evolution method of phylogenetic inference. . Mol Biol Evol 10, 10731095.[PubMed]
    [Google Scholar]
  18. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  19. Tamaoka J., Komagata K. ( 1984 ). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. . FEMS Microbiol Lett 25, 125128. [View Article]
    [Google Scholar]
  20. 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]
  21. Thompson J. D., Higgins D. G., Gibson T. J. ( 1994 ). clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. . Nucleic Acids Res 22, 46734680. [View Article] [PubMed]
    [Google Scholar]
  22. 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. et al. ( 1987 ). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. . Int J Syst Bacteriol 37, 463464. [View Article]
    [Google Scholar]
  23. Xu X.-W., Wu Y.-H., Wang C.-S., Gao X.-H., Wang X.-G., Wu M. ( 2010 ). Pseudoalteromonas lipolytica sp. nov., isolated from the Yangtze River estuary. . Int J Syst Evol Microbiol 60, 21762181. [View Article] [PubMed]
    [Google Scholar]
  24. Yumoto I., Yamazaki K., Hishinuma M., Nodasaka Y., Suemori A., Nakajima K., Inoue N., Kawasaki K. ( 2001 ). Pseudomonas alcaliphila sp. nov., a novel facultatively psychrophilic alkaliphile isolated from seawater. . Int J Syst Evol Microbiol 51, 349355.[PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.055558-0
Loading
/content/journal/ijsem/10.1099/ijs.0.055558-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF
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