Skip to main content
Log in

Oceanicoccus sagamiensis gen. nov., sp. nov., a gammaproteobacterium isolated from sea water of Sagami Bay in Japan

The Journal of Microbiology Aims and scope Submit manuscript

Abstract

A gram-negative, motile, coccoid- and amorphous-shaped, non-pigmented chemoheterotrophic bacterium, designated strain PZ-5T, was isolated from sea water of Sagami Bay in Japan and subjected to a polyphasic taxonomic study. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the novel isolate could be affiliated with the class Gammaproteobacteria. Strain PZ-5T showed below 93.9% similarity with validly published bacteria and demonstrated the highest sequence similarity to Dasania marina KOPRI 20902T (93.9%). Strain PZ-5T formed a monophyletic group with D. marina KOPRI 20902T. The DNA G+C content of strain PZ-5T was 49.8 mol%. The major isoprenoid quinone was Q-8 and predominant cellular fatty acids were C15:0 ISO 20H (19%), C16:1 ω7c (17.4%), C17;1 ω8c (16.2%), C11:0 3OH (7.5%), and C15:1 ω8c (6.5%). Based on evidence from a polyphasic taxonomical study, it was concluded that the strain should be classified as representing a new genus and species of the class Gammaproteobacteria, for which the name Oceanicoccus sagamiensis gen. nov., sp. nov., (type strain PZ-5T =NBRC 107125T =KCTC 23278T) is proposed.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Similar content being viewed by others

References

  • Bogan, B.W., W.R. Sullivan, K.J. Kayser, K.D. Derr, H.C. Aldrich, and J.R. Paterek. 2003. Alkanindiges illinoisensis gen. nov., sp. nov., an obligately hydrocarbonoclastic, aerobic squalane-degrading bacterium isolated from oilfield soils. Int. J. Syst. Evol. Microbiol. 53, 1389–1395.

    Article  PubMed  CAS  Google Scholar 

  • Felsenstein, J. 1981. Evolutionary trees from DNA sequences: a maximum likelihood approach. J. Mol. Evol. 17, 368–376.

    Article  PubMed  CAS  Google Scholar 

  • Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.

    Article  Google Scholar 

  • Garrity, G.M., J.A. Bell, and T. Lilburn. 2005. Order IX. Pseudomonadales Orla-Jensen 1921, 270AL. Brenner, p. 323. In Bergey’s Manual of Systematic Bacteriology, 2nd ed, Vol. 2, In D.J. Brenner, N.R. Krieg, and J.T. Staley (eds.), Springer, New York, NY, USA.

    Chapter  Google Scholar 

  • Graeber, I., I. Kaesler, M.S. Borchert, R. Dieckmann, T. Pape, R. Lurz, P. Nielsen, H.V. Döhren, W. Michaelis, and U. Szewzyk. 2008. Spongiibacter marinus gen. nov., sp. nov., a halophilic marine bacterium isolated from the boreal sponge Haliclona sp. 1. Int. J. Syst. Evol. Microbiol. 58, 585–590.

    Article  PubMed  CAS  Google Scholar 

  • Hwang, C.Y. and B.C. Cho. 2009. Spongiibacter tropicus sp. nov., isolated from a Synechococcus culture. Int. J. Syst. Evol. Microbiol. 58, 2176–2179.

    Article  Google Scholar 

  • Kimura, M. 1983. The Neutral Theory of Molecular Evolution. Cambridge University Press, Cambridge, UK.

    Google Scholar 

  • Lee, Y.K., S.G. Hong, H.H. Cho, K.H. Cho, and H.K. Lee. 2007. Dasania marina gen. nov., sp. nov., of the order Pseudomonadales, isolated from Arctic marine sediment. J. Microbiol. 45, 505–509.

    PubMed  CAS  Google Scholar 

  • Lucena, T., J. Pascual, E. Garay, D.R. Arahal, M. Carmen Macián, and M.J. Pujalte. 2010. Haliea mediterranea sp. nov., a marine gammaproteobacterium. Int. J. Syst. Evol. Microbiol. 60, 1844–1848.

    Article  PubMed  CAS  Google Scholar 

  • Marmur, J. 1961. A procedure for the isolation of deoxyribonucleic acid from microorganisms. J. Mol. Biol. 3, 208–218.

    Article  CAS  Google Scholar 

  • Mesbah, M., U. Premachandran, and W.B. Whitman. 1989. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int. J. Syst. Bacteriol. 39, 159–167.

    Article  CAS  Google Scholar 

  • Murray, R.G.E., R.N. Doetsch, and F. Robinow. 1994. Determinative and cytological light microscopy. Methods for General and Molecular Bacteriology, pp. 21–41. In P. Gerhardt, R.G.E. Murray, W.A. Wood, and N.R. Krieg (eds.). American Society for Microbiology, Washington, DC, USA.

    Google Scholar 

  • Orla-Jensen, S. 1921. The main lines of the natural bacterial system. J. Bacteriol. 6, 263–273.

    PubMed  CAS  Google Scholar 

  • Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4, 406–425.

    PubMed  CAS  Google Scholar 

  • Sasser, M. 1990. Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. MIDI Inc. Newark, DE, USA.

    Google Scholar 

  • Spring, S., H. Lünsdorf, B.H. Fuchs, and B.J. Tindall. 2009. The photosynthetic apparatus and its regulation in the aerobic gammaproteobacterium Congregibacter litoralis gen. nov., sp. nov. PLoS One 4, e 4866.

    Google Scholar 

  • Swofford, D.L. 2002. PAUP* Phylogenetic analysis using parsimony (* and other methods). Sinauer Associates. Sunderland, MA, USA.

    Google Scholar 

  • Tamura, K., J. Dudley, M. Nei, and S. Kumar. 2007. MEGA 4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24, 1596–1599.

    Article  PubMed  CAS  Google Scholar 

  • Thompson, J.D., T.J. Gibson, F. Plewniak, F. Jeanmougin, and D.G. Higgins. 1997. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25, 4876–4882.

    Article  PubMed  CAS  Google Scholar 

  • Urios, L., H. Agogué, L. Intertaglia, F. Lesongeur, and P. Lebaron. 2008a. Melitea salexigens gen. nov., sp. nov., a gammaproteobacterium from the Mediterranean Sea. Int. J. Syst. Evol. Microbiol. 58, 2479–2483.

    Article  PubMed  CAS  Google Scholar 

  • Urios, L., L. Intertaglia, F. Lesongeur, and P. Lebaron. 2008b. Haliea salexigens gen. nov., sp. nov., a member of the Gammaproteobacteria from the Mediterranean Sea. Int. J. Syst. Evol. Microbiol. 58, 1233–1237.

    Article  PubMed  CAS  Google Scholar 

  • Urios, L., L. Intertaglia, F. Lesongeur, and P. Lebaron. 2009. Haliea rubra sp. nov., a member of the Gammaproteobacteria from the Mediterranean Sea. Int. J. Syst. Evol. Microbiol. 59, 1188–1192.

    Article  PubMed  CAS  Google Scholar 

  • Weisburg, W.G., S.M. Barns, D.A. Pelletier, and D.J. Lane. 1991. 16S ribosomal DNA amplification for phylogenetic study. J. Bacteriol. 173, 697–703.

    PubMed  CAS  Google Scholar 

  • Xie, C. and A. Yokota. 2003. Phylogenetic analysis of Lampropedia hyalina based on the 16S rRNA gene sequence. J. Gen. Appl. Microbiol. 49, 345–349.

    Article  PubMed  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Sanghwa Park.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Park, S., Yoshizawa, S., Kogure, K. et al. Oceanicoccus sagamiensis gen. nov., sp. nov., a gammaproteobacterium isolated from sea water of Sagami Bay in Japan. J Microbiol. 49, 233–237 (2011). https://doi.org/10.1007/s12275-011-0368-y

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s12275-011-0368-y

Keywords

Navigation