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Current Microbiology

, Volume 66, Issue 3, pp 300–305 | Cite as

Burkholderia humi sp. nov., Isolated from Peat Soil

  • Sathiyaraj Srinivasan
  • Jinsoo Kim
  • Sang-Rim Kang
  • Weon-Hwa Jheong
  • Sang-Seob Lee
Article

Abstract

A Gram-negative, aerobic, short-rod-shaped, non-motile bacterium designated Rs7T, was isolated from peat soil collected from Russia and was characterized to determine its taxonomic position. 16S rRNA gene sequence analysis revealed that the strain Rs7T belongs to the class Betaproteobacteria. The highest degree of sequence similarities were determined to be with Burkholderia tropica Ppe8T (98.4 %), Burkholderia unamae MTI-641T (97.8 %), Burkholderia bannensis E25T (97.7 %), Burkholderia heleia SA41T (97.0 %), and Burkholderia sacchari IPT101T (97.0 %). Chemotaxonomic data revealed that the strain Rs7T possesses ubiquinone Q-8. The polar lipid profile of strain Rs7T contained phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, and an unknown amino phospholipid. The predominant fatty acids were C16:0, C19:0 cyclo ω8c, and C17:0 cyclo, all of which corroborated the assignment of the strain to the genus Burkholderia. The DNA G+C content was 63.2 mol%. DNA–DNA hybridization experiments showed less than 37.8 % DNA relatedness with closely related type strains, thus confirming separate species status. The results of physiological and biochemical tests allowed phenotypic differentiation of strain Rs7T from the members of the genus Burkholderia. Based on these data, Rs7T (=KEMC 7302-068T = JCM 18069T) should be classified as the type strain for a novel Burkholderia species, for which the name Burkholderia humi sp. nov. is proposed.

Keywords

Burkholderia Peat Soil Cellular Fatty Acid Itaconate Burkholderia Species 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

Notes

Acknowledgments

This subject is supported by Korea Ministry of Environment as: The GAIA Project (173-092-012) and National Institute of Environmental Research (20120527134).

Supplementary material

284_2012_270_MOESM1_ESM.docx (1.5 mb)
Supplementary material 1 (DOCX 1577 kb)

References

  1. 1.
    Yabuuchi E, Kosako Y, Oyaizu H et al (1992) Proposal of Burkholderia gen. nov. and transfer of seven species of the genus Pseudomonas homology group II to the new genus, with the type species Burkholderia cepacia (Palleroni and Holmes 1981) comb. nov. Microbiol Immunol 36:1251–1275PubMedGoogle Scholar
  2. 2.
    Sheu SY, Chou JH, Bontemps C et al (2012) Burkholderia diazotrophica sp. nov., isolated from root nodules of mimosa spp. Int J Syst Evol Microbiol. doi: 10.1099/ijs.0.039859-0
  3. 3.
    Sheu SY, Chou JH, Bontemps C et al (2011) Burkholderia symbiotica sp. nov., isolated from root nodules of mimosa spp. Native to north east brazil. Int J Syst Evol Microbiol 62:2272–2278Google Scholar
  4. 4.
    Euzéby JP (2008) List of prokaryotic names with standing in nomenclature. http://www.bacterio.cict.fr/. Accessed 1 Nov 2012
  5. 5.
    Lu P, Zheng LQ, Sun JJ et al (2012) Burkholderia zhejiangensis sp. nov., a methyl-parathion-degrading bacterium isolated from a wastewater-treatment system. Int J Syst Evol Microbiol 62:1337–1341PubMedCrossRefGoogle Scholar
  6. 6.
    Kim OS, Cho YJ, Lee K et al (2012) Introducing EzTaxon-e: a prokaryotic 16S rRNA Gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62:716–772PubMedCrossRefGoogle Scholar
  7. 7.
    Brown AE (2008) Benson’s microbiological applications: laboratory manual in general microbiology, 10th edn. McGraw-Hill, Inc., New YorkGoogle Scholar
  8. 8.
    Doetsch RN (1981) Determinative methods of light microscopy. In: Gerhardt P, Murray RGE, Costilow RN, Nester EW, Wood WA, Krieg NR, Phillips GH (eds) Manual of methods for general bacteriology. American Society for Microbiology, Washington, DC, pp 21–33Google Scholar
  9. 9.
    Cappuccino JG, Sherman N (2002) Microbiology: a laboratory manual, 6th edn. Pearson Education, Inc., Benjamin Cummings, San FranciscoGoogle Scholar
  10. 10.
    Frank JA, Reich CI, Sharma S et al (2008) Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes. Appl Environ Microbiol 74:2461–2470PubMedCrossRefGoogle Scholar
  11. 11.
    Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98Google Scholar
  12. 12.
    Thompson JD, Gibson TJ, Plewniak F et al (1997) The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 24:4876–4882CrossRefGoogle Scholar
  13. 13.
    Kimura M (1983) The neutral theory of molecular evolution. Cambridge University Press, CambridgeCrossRefGoogle Scholar
  14. 14.
    Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425PubMedGoogle Scholar
  15. 15.
    Fitch WM (1971) Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416CrossRefGoogle Scholar
  16. 16.
    Tamura K, Peterson D, Peterson N, et al (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28(10):2731–2739Google Scholar
  17. 17.
    Felsenstein J (1985) Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39:783–791CrossRefGoogle Scholar
  18. 18.
    Mesbah M, Premachandran U, Whitman WB (1989) Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39:159–167CrossRefGoogle Scholar
  19. 19.
    Komagata K, Suzuki K (1987) Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19:161–207CrossRefGoogle Scholar
  20. 20.
    Collins MD, Jones D (1981) Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implications. Microbiol Rev 45:316–354PubMedGoogle Scholar
  21. 21.
    Sasser M (1990) Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101. MIDI Inc., NewarkGoogle Scholar
  22. 22.
    Tamaoka J, Komagata K (1984) Determination of DNA base composition by reversed phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128CrossRefGoogle Scholar
  23. 23.
    Ezaki T, Hashimoto Y, Yabuuchi E (1989) Fluorometric DNA–DNA 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 Evol Microbiol 39:224–229Google Scholar
  24. 24.
    Minnikin DE, O’Donnell AG, Goodfellow M et al (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241CrossRefGoogle Scholar
  25. 25.
    Wayne LG, Brenner DJ, Colwell RR 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 37:463–464CrossRefGoogle Scholar

Copyright information

© Springer Science+Business Media New York 2012

Authors and Affiliations

  • Sathiyaraj Srinivasan
    • 1
    • 2
  • Jinsoo Kim
    • 1
  • Sang-Rim Kang
    • 2
  • Weon-Hwa Jheong
    • 3
  • Sang-Seob Lee
    • 2
  1. 1.Basic Science Research Institute, Kyonggi UniversitySuwon-siRepublic of Korea
  2. 2.Department of BioengineeringGraduate School of Kyonggi UniversitySuwonRepublic of Korea
  3. 3.Water Supply & Sewerage Research Division, Environmental Infrastructure Research DepartmentNational Institute of Environmental ResearchSuwonSouth Korea

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