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Volume 56, Issue 9

sp. nov., isolated from soil Free

Abstract

A Gram-negative, rod-shaped, -like bacterial strain, DS-4, was isolated from soil of Dokdo, Korea, and its taxonomic position was investigated using a polyphasic approach. Strain DS-4 grew optimally on trypticase soy agar medium without NaCl at pH 6.0–6.5 and 25 °C. It contained Q-10 as the predominant ubiquinone and C 7, C, C 2-OH and C 7 and/or iso-C 2-OH as the major fatty acids. Sphingoglycolipid, phosphatidylcholine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine and unidentified phospholipid were the major polar lipids. The DNA G+C content was 66.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain DS-4 fell within the evolutionary radiation comprising species. Levels of 16S rRNA gene sequence similarity between strain DS-4 and the type strains of species ranged from 93.0 to 97.6 %. DNA–DNA relatedness data and differential phenotypic properties, together with the phylogenetic distinctiveness, demonstrated that strain DS-4 differs from the recognized species. On the basis of phenotypic, phylogenetic and genetic data, this strain represents a novel species of the genus , for which the name sp. nov. is proposed, with DS-4 (=KCTC 12541=CIP 108841) as the type strain.

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2006-09-01
2024-05-10
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References

  1. Buonaurio R., Stravato V. M., Kosako Y., Fujiwara N., Naka T., Kobayashi K., Cappelli C., Yabuuchi E. 2002; Sphingomonas melonis sp. nov., a novel pathogen that causes brown spots on yellow Spanish melon fruits. Int J Syst Evol Microbiol 52:2081–2087 [CrossRef]
     [Google Scholar]
  2. Busse H.-J., Denner E. B. M., Buczolits S., Salkinoja-Salonen M., Bennasar A., Kämpfer P. 2003; Sphingomonas aurantiaca sp. nov., Sphingomonas aerolata sp. nov. and Sphingomonas faeni sp. nov.,air- and dustborne and Antarctic, orange-pigmented, psychrotolerant bacteria, and emended description of the genus Sphingomonas . Int J Syst Evol Microbiol 53:1253–1260 [CrossRef]
     [Google Scholar]
  3. Cowan S. T., Steel K. J. 1965 Manual for the Identification of Medical Bacteria London: Cambridge University Press;
     [Google Scholar]
  4. Ezaki T., Hashimoto Y., Yabuuchi E. 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 [CrossRef]
     [Google Scholar]
  5. Kämpfer P., Denner E. B. M., Meyer S., Moore E. R. B., Busse H.-J. 1997; Classification of “ Pseudomonas azotocolligans ” Anderson 1955, 132, in the genus Sphingomonas as Sphingomonas trueperi sp. nov. Int J Syst Bacteriol 47:577–583 [CrossRef]
     [Google Scholar]
  6. Komagata K., Suzuki K. 1987; Lipids and cell-wall analysis in bacterial systematics. Methods Microbiol 19:161–203
     [Google Scholar]
  7. Lányi B. 1987; Classical and rapid identification methods for medically important bacteria. Methods Microbiol 19:1–67
     [Google Scholar]
  8. Lee J.-S., Shin Y. K., Yoon J.-H., Takeuchi M., Pyun Y.-R., Park Y.-H. 2001 Sphingomonas aquatilis sp. nov., Sphingomonas koreensis sp. nov. and Sphingomonas taejonensis sp. nov., yellow-pigmented bacteria isolated from natural mineral water. Int J Syst Evol Microbiol 51, 1491–1498
  9. Minnikin D. E., O'Donnell A. G., Goodfellow M., Anderson G., Athalye M., Schaal A., Parlett J. H. 1984; An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241 [CrossRef]
     [Google Scholar]
  10. Ohta H., Hattori R., Ushiba Y., Mitsui H., Ito M., Watanabe H., Tonosaki A., Hattori T. 2004; Sphingomonas oligophenolica sp. nov., a halo- and organo-sensitive oligotrophic bacterium from paddy soil that degrades phenolic acids at low concentrations. Int J Syst Evol Microbiol 54:2185–2190 [CrossRef]
     [Google Scholar]
  11. Stackebrandt E., Goebel B. M. 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 [CrossRef]
     [Google Scholar]
  12. Takeuchi M., Sakane T., Yanagi M., Yamasato K., Hamana K., Yokota A. 1995; Taxonomic study of bacteria isolated from plants: proposal of Sphingomonas rosa sp. nov., Sphingomonas pruni sp. nov., Sphingomonas asaccharolytica sp. nov., and Sphingomonas mali sp. nov. Int J Syst Bacteriol 45:334–341 [CrossRef]
     [Google Scholar]
  13. Takeuchi M., Hamana K., Hiraishi A. 2001; Proposal of the genus Sphingomonas sensu stricto and three new genera. Sphingobium , Novosphingobium and Sphingopyxis on the basis of phylogenetic and chemotaxonomic analyses. Int J Syst Evol Microbiol 51:1405–1417
     [Google Scholar]
  14. Tamaoka J., Komagata K. 1984; Determination of DNA base composition by reverse-phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128 [CrossRef]
     [Google Scholar]
  15. Wayne L. G., Brenner D. J., Colwell R. R. 9 other authors 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 [CrossRef]
     [Google Scholar]
  16. Yabuuchi E., Yano I., Oyaizu H., Hashimoto Y., Ezaki T., Yamamoto H. 1990; Proposals of Sphingomonas paucimobilis gen.nov. and comb. nov., Sphingomonas parapaucimobilis sp. nov., Sphingomonas yanoikuyae sp. nov.,Sphingomonas adhaesiva sp. nov., Sphingomonascapsulate comb. nov., and two genospecies of the genus Sphingomonas . Microbiol Immunol 34:99–119 [CrossRef]
     [Google Scholar]
  17. Yoon J.-H., Kim H., Kim S.-B., Kim H.-J., Kim W. Y., Lee S. T., Goodfellow M., Park Y.-H. 1996; Identification of Saccharomonospora strains by the use of genomic DNA fragments and rRNA gene probes. Int J Syst Bacteriol 46:502–505 [CrossRef]
     [Google Scholar]
  18. Yoon J.-H., Lee S. T., Park Y.-H. 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 [CrossRef]
     [Google Scholar]
  19. Yoon J.-H., Kang K. H., Park Y.-H. 2003; Psychrobacter jeotgali sp. nov., isolated from jeotgal, a traditional Korean fermented seafood. Int J Syst Evol Microbiol 53:449–454 [CrossRef]
     [Google Scholar]
  20. Yoon J.-H., Kang S.-J., Lee S.-Y., Lee M.-H., Oh T.-K. 2005; Virgibacillus dokdonensis sp. nov., isolated from a Korean island, Dokdo, located at the edge of the East Sea in Korea. Int J Syst Evol Microbiol 55:1833–1837 [CrossRef]
     [Google Scholar]
  21. Yoon J.-H., Kang S.-J., Oh T.-K. 2006; Dokdonella koreensis gen. nov., sp. nov. isolated from soil. Int J Syst Evol Microbiol 56:145–150 [CrossRef]
     [Google Scholar]
  22. Yurkov V., Stackebrandt E., Holmes A. 7 other authors 1994; Phylogenetic positions of novel aerobic, bacteriochlorophyll a-containing bacteria and description of Roseococcus thiosulfatophilus gen.nov., sp. nov., Erythromicrobium ramosum gen. nov., sp. nov., and Erythrobacter litoralis sp. nov. Int J Syst Bacteriol 44:427–434 [CrossRef]
     [Google Scholar]
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Sphingomonas dokdonensis sp. nov., isolated from soil
Int J Syst Evol Microbiol 56, 2165 (2006); https://doi.org/10.1099/ijs.0.64114-0
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