Skip to main content

Sphingobacterium bambusae sp. nov., isolated from soil of bamboo plantation

The Journal of Microbiology volume 47, pages 693–698 (2009)Cite this article

Abstract

A Gram-negative, non-motile, non-spore-forming bacterial strain designated IBFC2009T was isolated from soil of a bamboo plantation. The strain could grow at 11°C∼39°C, pH 6.0–9.0, and in the presence of 0∼5% NaCl. Based on 16S rRNA gene sequence analysis, Strain IBFC2009T belonged to the genus Sphingobacterium and showed the highest sequence similarity of 94.6% (S. composti T5-12T) with the type strains within the genus. The major fatty acids were summed feature 3 (iso-C15:0 2-OH and/or C16:1 ω7c, 34.4%), iso-C15:0 (22.4%), C16:0 3-OH (15.2%), and iso-C17:0 3-OH (12.8%). The G+C content of the genomic DNA was 41.0 mol%. According to the phenotypic and genotypic characteristics, Strain IBFC2009T should represent a novel species of the genus Sphingobacterium, for which the name Sphingobacterium bambusae sp. nov. is proposed. The type strain is IBFC2009T (=CCTCC AB 209162T =KCTC 22814T).

This is a preview of subscription content, access via your institution.

Access options

Buy single article

Instant access to the full article PDF.

43,34 €

Price includes VAT (Finland)
Tax calculation will be finalised during checkout.

References

  • Cappuccino, J.D. and N. Sherman. 2002. Microbiology: A Laboratory Manual, 6th ed. Benjamin Cummings, San Francisco, USA.

    Google Scholar 

  • Dong, X.Z. and M.Y. Cai. 2001. Identification Manual for Routine Bacteriology. Scientific Press, Beijing, China.

    Google Scholar 

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

    Article  Google Scholar 

  • Fitch, W.M. 1972. Toward defining the course of evolution: Minimum change for a specific tree topology. Syst. Zool. 20, 406–416.

    Article  Google Scholar 

  • Gerhardt, P., R.G.E. Murray, W.A. Wood, and N.R. Krieg. 1994. Methods for General and Molecular Bacteriology. American Society for Microbiology, Washington, D.C., USA.

    Google Scholar 

  • Holmes, B., R.J. Owen, and D.G. Hollis. 1982. Flavobacterium spiritivorum, a new species isolated from human clinical specimens. Int. J. Syst. Bacteriol. 32, 157–165.

    Article  CAS  Google Scholar 

  • Keswani, J. and W.B. Whitman. 2001. Relationship of 16S rRNA sequence similarity to DNA hybridization in prokaryotes. Int. J. Syst. Evol. Microbiol. 51, 667–678.

    CAS  PubMed  Google Scholar 

  • Kim, K.H., L.N. Ten, Q.M. Liu, W.T. Im, and S.T. Lee. 2006. Sphingobacterium daejeonense sp. nov., isolated from a compost sample. Int. J. Syst. Evol. Microbiol. 56, 2031–2036.

    Article  CAS  PubMed  Google Scholar 

  • Kumar, S., K. Tamura, and M. Nei. 2004. MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment briefings. Bioinformatics 5, 150–163.

    Article  CAS  PubMed  Google Scholar 

  • Liu, R., H. Liu, C.X. Zhang, S.Y. Yang, X.H. Liu, K.Y. Zhang, and R. Lai. 2008. Sphingobacterium siyangense sp. nov., isolated from farm soil. Int. J. Syst. Evol. Microbiol. 58, 1458–1462.

    Article  CAS  PubMed  Google Scholar 

  • Marmur, J. and P. Doty. 1962. Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J. Mol. Biol. 5, 109–118.

    Article  CAS  PubMed  Google Scholar 

  • Matsuyama, H., H. Katoh, T. Ohkushi, A. Satoh, K. Kawahara, and I. Yumoto. 2008. Sphingobacterium kitahiroshimense sp. nov., isolated from soil. Int. J. Syst. Evol. Microbiol. 58, 1576–1579.

    Article  CAS  PubMed  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.

    CAS  PubMed  Google Scholar 

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

    Google Scholar 

  • Shivaji, S., M.K. Ray, N.S. Rao, L. Saisree, M.V. Jagannadham, G.S. Kumar, G.S.N. Reddy. and P.M. Bhargava. 1992. Sphingobacterium antarcticus sp. nov., a psychrotrophic bacterium from the soils of Schirmacher Oasis, Antarctica. Int. J. Syst. Bacteriol. 42, 102–106.

    Article  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 

  • Steyn, P.L., P. Segers, M. Vancanneyt, P. Sandra, K. Kersters, and J.J. Joubert. 1998. Classification of heparinolytic bacteria into a new genus, Pedobacter, comprising four species: Pedobacter heparinus comb. nov., Pedobacter piscium comb. nov., Pedobacter africanus sp. nov., and Pedobacter saltans sp. nov. Proposal of the family Sphingobacteriaceae fam. nov. Int. J. Syst. Bacteriol. 48, 165–177.

    Article  CAS  PubMed  Google Scholar 

  • Takeuchi, M. and A. Yokota. 1992. Proposals of Sphingobacterium faecium sp. nov., Sphingobacterium piscium sp. nov., Sphingobacterium heparinum comb. nov., Sphingobacterium thalpophilum comb. nov., and two genospecies of the genus Sphingobacterium, and synonymy of Flavobacterium yabuuchiae and Sphingobacterium spiritivorum. J. Gen. Appl. Microbiol. 38, 465–482.

    Article  Google Scholar 

  • Ten, L.N., Q.M. Liu, W.T. Im, Z. Aslam, and S.T. Lee. 2006. Sphingobacterium composti sp. nov., a novel DNase-producing bacterium isolated from compost. J. Microbiol. Biotechnol. 16, 1728–1733.

    CAS  Google Scholar 

  • Thompson, J.D., T.J. Gibson, F. Plewniak, F. Jeanmougin, and D. Higgins. 1997. The Clustal-X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 24, 4876–4882.

    Article  Google Scholar 

  • Wei, W., Y. Zhou, X. Wang, X. Huang, and R. Lai. 2008. Sphingobacterium anhuiense sp. nov., isolated from forest soil. Int. J. Syst. Evol. Microbiol. 58, 2098–2101.

    Article  CAS  PubMed  Google Scholar 

  • Yabuuchi, E., T. Kaneko, I. Yano, C.W. Moss, and N. Miyoshi. 1983. Sphingobacterium gen. nov., Sphingobacterium spiritivorum comb. nov., Sphingobacterium multivorum comb. nov., Sphingobacterium mizutae sp. nov., and Flavobacterium indologenes sp. nov.: Glucose-nonfermenting Gram-negative rods in CDC groups IIk-2 and IIb. Int. J. Syst. Bacteriol. 33, 580–598.

    Article  Google Scholar 

  • Yongmanitchai, W. and O.P. Ward. 1991. Growth of and omega-3 fatty acid production by Phaeodactylum tricornutum under different culture conditions. Appl. Environ. Microbiol. 57, 419–425.

    CAS  PubMed  Google Scholar 

  • Yoo, S.H., H.Y. Weon, H.B. Jang, B.Y. Kim, S.W. Kwon, S.J. Go, and E. Stackebrandt. 2007. Sphingobacterium composti sp. nov., isolated from cotton-waste composts. Int. J. Syst. Evol. Microbiol. 57, 1590–1593.

    Article  PubMed  Google Scholar 

Download references

Author information

Affiliations

  1. Institute of Bast Fiber Crops, Chinese Academy of Agriculture Sciences, Hunan, 410205, P. R. China

    Shengwen Duan, Zhengchu Liu, Xiangyuan Feng, Ke Zheng & Lifeng Cheng

Authors
  1. Shengwen Duan
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Zhengchu Liu
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Xiangyuan Feng
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Ke Zheng
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Lifeng Cheng
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Zhengchu Liu.

Additional information

These authors contributed equally to this work.

Rights and permissions

Reprints and Permissions

About this article

Cite this article

Duan, S., Liu, Z., Feng, X. et al. Sphingobacterium bambusae sp. nov., isolated from soil of bamboo plantation. J Microbiol. 47, 693–698 (2009). https://doi.org/10.1007/s12275-009-0296-2

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s12275-009-0296-2

Keywords

  • Sphingobacterium bambusae sp. nov.
  • novel bacterium
  • taxonomy