Skip to main content
SpringerLink
Log in

Shewanella upenei sp. nov., a lipolytic bacterium isolated from bensasi goatfish Upeneus bensasi

  • Articles
  • Published:
The Journal of Microbiology Aims and scope Submit manuscript

Abstract

A Gram-staining-negative, motile, non-spore-forming and rod-shaped bacterial strain, 20-23RT, was isolated from intestine of bensasi goatfish, Upeneus bensasi, and its taxonomic position was investigated by using a polyphasic study. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain 20-23RT belonged to the genus Shewanella. Strain 20-23RT exhibited 16S rRNA gene sequence similarity values of 99.5, 99.2, and 97.5% to Shewanella algae ATCC 51192T, Shewanella haliotis DW01T, and Shewanella chilikensis JC5T, respectively. Strain 20-23RT exhibited 93.1–96.0% 16S rRNA gene sequence similarity to the other Shewanella species. It also exhibited 98.3–98.4% gyrB sequence similarity to the type strains of S. algae and S. haliotis. Strain 20-23RT contained simultaneously both menaquinones and ubiquinones; the predominant menaquinone was MK-7 and the predominant ubiquinones were Q-8 and Q-7. The fatty acid profiles of strain 20–23RT, S. algae KCTC 22552T and S. haliotis KCTC 12896T were similar; major components were iso-C15:0, C16:0, C16:1 ω7c and/or iso-C15:0 2-OH and C17:1 ω8c. The DNA G+C content of strain 20-23RT was 53.9 mol%. Differential phenotypic properties and genetic distinctiveness of strain 20–23RT, together with the phylogenetic distinctiveness, revealed that this strain is distinguishable from recognized Shewanella species. On the basis of the data presented, strain 20-23RT represents a novel species of the genus Shewanella, for which the name Shewanella upenei sp. nov. is proposed. The type strain is 20–23RT (=KCTC 22806T =CCUG 58400T).

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

Access this article

Log in via an institution

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

  • Baumann, P. and L. Baumann. 1981. The marine Gram-negative eubacteria: genera Photobacterium, Beneckea, Alteromonas, Pseudomonas, and Alcaligenes, pp. 1302–1331. In M.P. Starr, H. Stolp, H.G. Trüper, A. Balows, and H.G. Schlegel (eds.), The Prokaryotes. Springer-Verlag, Berlin, Germany.

    Google Scholar 

  • Bruns, A., M. Rohde, and L. Berthe-Corti. 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.

    Article  PubMed  CAS  Google Scholar 

  • Chang, H.W., S.W. Roh, K.H. Kim, Y.D. Nam, C.O. Jeon, H.M. Oh, and J.W. Bae. 2008. Shewanella basaltis sp. nov., a marine bacterium isolated from black sand. Int. J. Syst. Evol. Microbiol. 58, 1907–1910.

    Article  PubMed  CAS  Google Scholar 

  • Cohen-Bazire, G., W.R. Sistrom, and R.Y. Stanier. 1957. Kinetic studies of pigment synthesis by nonsulfur purple bacteria. J. Cell Comp. Physiol. 49, 25–68.

    Article  CAS  Google Scholar 

  • Cowan, S.T. and K.J. Steel. 1965. Manual for the Identification of Medical Bacteria. Cambridge University Press, London, United Kingdom.

    Google Scholar 

  • Euzéby, J.P. 1997. List of Bacterial Names with Standing in Nomenclature: a folder available on the Internet. Int. J. Syst. Bacteriol. 47, 590–592. (List of Prokaryotic names with Standing in Nomenclature. Last full update: December 10, 2010. URL: http://www.bacterio.net).

    Article  PubMed  Google Scholar 

  • Ezaki, T., Y. Hashimoto, and E. Yabuuchi. 1989. Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int. J. Syst. Bacteriol. 39, 224–229.

    Article  Google Scholar 

  • Ivanova, E.P., N.M. Gorshkova, J.P. Bowman, A.M. Lysenko, N.V. Zhukova, A.F. Sergeev, V.V. Mikhailov, and D.V. Nicolau. 2004. Shewanella pacifica sp. nov., a polyunsaturated fatty acid-producing bacterium isolated from sea water. Int. J. Syst. Evol. Microbiol. 54, 1083–1087.

    Article  PubMed  CAS  Google Scholar 

  • Kim, D., K.S. Baik, M.S. Kim, B.M. Jung, T.S. Shin, G.H. Chung, M.S. Rhee, and C.N. Seong. 2007. Shewanella haliotis sp. nov., isolated from the gut microflora of abalone, Haliotis discus hannai. Int. J. Syst. Evol. Microbiol. 57, 2926–2931.

    Article  PubMed  CAS  Google Scholar 

  • Komagata, K. and K.I. Suzuki. 1987. Lipid and cell wall analysis in bacterial systematics. Methods Microbiol. 19, 161–207.

    Article  CAS  Google Scholar 

  • Lanyi, B. 1987. Classical and rapid identification methods for medically important bacteria. Methods Microbiol. 19, 1–67.

    Article  CAS  Google Scholar 

  • Lee, O.O., S.C.K. Lau, M.M.Y. Tsoi, X. Li, I. Plakhotnikova, S. Dobretsov, M.C.S. Wu, P.K. Wong, M. Weinbauer, and P.Y. Qian. 2006. Shewanella irciniae sp. nov., a novel member of the family Shewanellaceae, isolated from the marine sponge Ircinia dendroides in the Bay of Villefranche, Mediterranean Sea. Int. J. Syst. Evol. Microbiol. 56, 2871–2877.

    Article  PubMed  CAS  Google Scholar 

  • Leifson, E. 1963. Determination of carbohydrate metabolism of marine bacteria. J. Bacteriol. 85, 1183–1184.

    PubMed  CAS  Google Scholar 

  • MacDonell, M.T. and R.R. Colwell. 1985. Phylogeny of the Vibrionaceae, and recommendation for two new genera, Listonella and Shewanella. Syst. Appl. Microbiol. 6, 171–182.

    CAS  Google Scholar 

  • Miyazaki, M., Y. Nogi, R. Usami, and K. Horikoshi. 2006. Shewanella surugensis sp. nov., Shewanella kaireitica sp. nov. and Shewanella abyssi sp. nov., isolated from deep-sea sediments of Suruga Bay, Japan. Int. J. Syst. Evol. Microbiol. 56, 1607–1613.

    Article  PubMed  CAS  Google Scholar 

  • Nozue, H., T. Hayashi, Y. Hashimoto, T. Ezaki, K. Hamasaki, K. Ohwada, and Y. Terawaki. 1992. Isolation and characterization of Shewanella alga from human clinical specimens and emendation of the description of S. alga Simidu et al., 1990, 335. Int. J. Syst. Bacteriol. 42, 628–634.

    Article  PubMed  CAS  Google Scholar 

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

    Google Scholar 

  • Satomi, M., B.F. Vogel, L. Gram, and K. Venkateswaran. 2006. Shewanella hafniensis sp. nov. and Shewanella morhuae sp. nov., isolated from marine fish of the Baltic Sea. Int. J. Syst. Evol. Microbiol. 56, 243–249.

    Article  PubMed  CAS  Google Scholar 

  • Satomi, M., B.F. Vogel, K. Venkateswaran, and L. Gram. 2007. Description of Shewanella glacialipiscicola sp. nov. and Shewanella algidipiscicola sp. nov., isolated from marine fish of the Danish Baltic Sea, and proposal that Shewanella affinis is a later heterotypic synonym of Shewanella colwelliana. Int. J. Syst. Evol. Microbiol. 57, 347–352.

    Article  PubMed  Google Scholar 

  • Stackebrandt, E. and B.M. Goebel. 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.

    Article  CAS  Google Scholar 

  • Staley, J.T. 1968. Prosthecomicrobium and Ancalomicrobium: new prosthecate freshwater bacteria. J. Bacteriol. 95, 1921–1942.

    PubMed  CAS  Google Scholar 

  • Tamaoka, J. and K. Komagata. 1984. Determination of DNA base composition by reverse-phase high-performance liquid chromatography. FEMS Microbiol. Lett. 25, 125–128.

    Article  CAS  Google Scholar 

  • Wayne, L.G., D.J. Brenner, R.R. Colwell, P.A.D. Grimont, O. Kandler, M.I. Krichevsky, L.H. Moore, and 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, 463–464.

    Google Scholar 

  • Yamamoto, S. and S. Harayama. 1995. PCR amplification and direct sequencing of gyrB genes with universal primers and their application to the detection and taxonomic analysis of Pseudomonas putida strains. Appl. Environ. Microbiol. 61, 1104–1109.

    PubMed  CAS  Google Scholar 

  • Yang, S.H., J.H. Lee, J-S. Ryu, C. Kato, and S.J. Kim. 2007. Shewanella donghaensis sp. nov., a psychrophilic, piezosensitive bacterium producing high levels of polyunsaturated fatty acid, isolated from deep-sea sediments. Int. J. Syst. Evol. Microbiol. 57, 208–212.

    Article  PubMed  CAS  Google Scholar 

  • Yoon, J.H., K.H. Kang, T.K. Oh, and Y.H. Park. 2004a. Shewanella gaetbuli sp. nov., a slight halophile isolated from a tidal flat in Korea. Int. J. Syst. Evol. Microbiol. 54, 487–491.

    Article  PubMed  CAS  Google Scholar 

  • Yoon, J.H., H. Kim, S.B. Kim, H.J. Kim, W.Y. Kim, S.T. Lee, M. Goodfellow, and Y.H. Park. 1996. Identification of Saccharomonospora strains by the use of genomic DNA fragments and rRNA gene probes. Int. J. Syst. Bacteriol. 46, 502–505.

    Article  CAS  Google Scholar 

  • Yoon, J.H., I.G. Kim, D.Y. Shin, K.H. Kang, and Y.H. Park. 2003. Microbulbifer salipaludis sp. nov., a moderate halophile isolated from a Korean salt marsh. Int. J. Syst. Evol. Microbiol. 53, 53–57.

    Article  PubMed  CAS  Google Scholar 

  • Yoon, J.H., S.T. Lee, and Y.H. Park. 1998. Inter- and intraspecific phylogenetic analysis of the genus Nocardioides and related taxa based on 16S rRNA gene sequences. Int. J. Syst. Bacteriol. 48, 187–194.

    Article  PubMed  CAS  Google Scholar 

  • Yoon, J.H., S.H. Yeo, I.G. Kim, and T.K. Oh. 2004b. Shewanella marisflavi sp. nov. and Shewanella aquimarina sp. nov., slightly halophilic organisms isolated from sea water of the Yellow Sea in Korea. Int. J. Syst. Evol. Microbiol. 54, 2347–2352.

    Article  PubMed  CAS  Google Scholar 

  • Zhao, J.S., D. Manno, S. Thiboutot, G. Ampleman, and J. Hawari. 2007. Shewanella canadensis sp. nov. and Shewanella atlantica sp. nov., manganese dioxide- and hexahydro-1,3,5-trinitro-1,3,5-triazine-reducing, psychrophilic marine bacteria. Int. J. Syst. Evol. Microbiol. 57, 2155–2162.

    Article  PubMed  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Biotechnology Research Division, National Fisheries Research and Development Institute (NFRDI), Busan, 619-705, Republic of Korea

    Kyung-Kil Kim, Young-Ok Kim & Bo-Hye Nam

  2. Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, 305-806, Republic of Korea

    Sooyeon Park, So-Jung Kang, Tae-Kwang Oh & Jung-Hoon Yoon

  3. Fisheries Resources Research Division, National Fisheries Research and Development Institute (NFRDI), Busan, 619-705, Republic of Korea

    Doo Nam Kim

Authors
  1. Kyung-Kil Kim
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Young-Ok Kim
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Sooyeon Park
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. So-Jung Kang
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Bo-Hye Nam
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Doo Nam Kim
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Tae-Kwang Oh
    View author publications

    You can also search for this author in PubMed Google Scholar

  8. Jung-Hoon Yoon
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Jung-Hoon Yoon.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Kim, KK., Kim, YO., Park, S. et al. Shewanella upenei sp. nov., a lipolytic bacterium isolated from bensasi goatfish Upeneus bensasi . J Microbiol. 49, 381–386 (2011). https://doi.org/10.1007/s12275-011-0175-5

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s12275-011-0175-5

Keywords

Search

Navigation