1887

Abstract

A Gram-negative strain, PB92, which belongs to the family , was isolated from soil (Daejeon, Korea). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain PB92 was associated with the genus and was most closely related to the type strains DS-27 (97.7 %), CL-GP80 (97.5 %) and 15-52 (97.5 %). The major cellular fatty acid components of strain PB92 were C 7 (21.4 %), iso-C (30.8 %), iso-C 3-OH (9.3 %) and iso-C 2-OH (11.2 %). The G+C content of the genomic DNA from strain PB92 was 41.4 mol%. Analysis of 16S rRNA gene sequences, as well as physiological and biochemical tests, indicated that strain PB92 could be differentiated genotypically and phenotypically from reference species of the genus . Strain PB92 (=KCTC 12511=DSM 19486) is proposed as the type strain of a novel species, sp. nov.

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2008-07-01
2024-10-11
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References

  1. Baker, G. C., Smith, J. J. & Cowan, D. A.(2003). Review and re-analysis of domain-specific 16S primers. J Microbiol Methods 55, 541–555.[CrossRef] [Google Scholar]
  2. Buck, J. D.(1982). Nonstaining (KOH) method for determination of gram reactions of marine bacteria. Appl Environ Microbiol 44, 992–993. [Google Scholar]
  3. Chun, J., Lee, J. H., Jung, Y., Kim, M., Kim, S., Kim, B. K. & Lim, Y. W.(2007). EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 57, 2259–2261.[CrossRef] [Google Scholar]
  4. Gallego, V., García, M. T. & Ventosa, A.(2006).Pedobacter aquatilis sp. nov., isolated from drinking water, and emended description of the genus Pedobacter. Int J Syst Evol Microbiol 56, 1853–1858.[CrossRef] [Google Scholar]
  5. Hwang, C. Y., Choi, D. H. & Cho, B. C.(2006).Pedobacter roseus sp. nov., isolated from a hypertrophic pond, and emended description of the genus Pedobacter. Int J Syst Evol Microbiol 56, 1831–1836.[CrossRef] [Google Scholar]
  6. Kimura, M.(1980). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16, 111–120.[CrossRef] [Google Scholar]
  7. Kumar, S., Tamura, K. & Nei, M.(2004).mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150–163.[CrossRef] [Google Scholar]
  8. Kwon, S. W., Kim, B. Y., Lee, K. H., Jang, K. Y., Seok, S. J., Kwon, J. S., Kim, W. G. & Weon, H. Y.(2007).Pedobacter suwonensis sp. nov., isolated from the rhizosphere of Chinese cabbage (Brassica campestris). Int J Syst Evol Microbiol 57, 480–484.[CrossRef] [Google Scholar]
  9. Margesin, R., Spröer, C., Schumann, P. & Schinner, F.(2003).Pedobacter cryoconitis sp. nov., a facultative psychrophile from alpine glacier cryoconite. Int J Syst Evol Microbiol 53, 1291–1296.[CrossRef] [Google Scholar]
  10. Mesbah, M. & Whitman, W. B.(1989). Measurement of deoxyguanosine/thymidine ratios in complex mixtures by high-performance liquid chromatography for determination of the mole percentage guanine + cytosine of DNA. J Chromatogr 479, 297–306.[CrossRef] [Google Scholar]
  11. Saitou, N. & Nei, M.(1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425. [Google Scholar]
  12. Sasser, M.(1990).Identification of bacteria by gas chromatography of cellular fatty acids. Newark, DE: MIDI Inc.
  13. Shivaji, S., Chaturvedi, P., Reddy, G. S. & Suresh, K.(2005).Pedobacter himalayensis sp. nov., from the Hamta glacier located in the Himalayan mountain ranges of India. Int J Syst Evol Microbiol 55, 1083–1088.[CrossRef] [Google Scholar]
  14. Stackebrandt, E. & Ebers, J.(2006). Taxonomic parameters revisited: tarnished gold standards. Microbiol Today 33, 152–155. [Google Scholar]
  15. Steyn, P. L., Segers, P., Vancanneyt, M., Sandra, P., Kersters, K. & Joubert, J. J.(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.[CrossRef] [Google Scholar]
  16. Ten, L. N., Liu, Q. M., Im, W. T., Lee, M., Yang, D. C. & Lee, S. T.(2006).Pedobacter ginsengisoli sp. nov., a DNase-producing bacterium isolated from soil of a ginseng field in South Korea. Int J Syst Evol Microbiol 56, 2565–2570.[CrossRef] [Google Scholar]
  17. Thompson, J. D., Gibson, T. J., Plewniak, F., Jeanmougin, F. & Higgins, D. G.(1997). The clustal_x windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25, 4876–4882.[CrossRef] [Google Scholar]
  18. Vanparys, B., Heylen, K., Lebbe, L. & De Vos, P.(2005).Pedobacter caeni sp. nov., a novel species isolated from a nitrifying inoculum. Int J Syst Evol Microbiol 55, 1315–1318.[CrossRef] [Google Scholar]
  19. Yoon, J. H., Lee, M. H., Kang, S. J., Park, S. Y. & Oh, T. K.(2006).Pedobacter sandarakinus sp. nov., isolated from soil. Int J Syst Evol Microbiol 56, 1273–1277.[CrossRef] [Google Scholar]
  20. Yoon, M. H., Ten, L. N., Im, W. T. & Lee, S. T.(2007).Pedobacter panaciterrae sp. nov., isolated from soil in South Korea. Int J Syst Evol Microbiol 57, 381–386.[CrossRef] [Google Scholar]
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