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Abstract

A Gram-stain-negative, non-motile, deep yellow, rod-shaped bacterium, designated strain LCS9, was isolated from a soil sample at the tropical zone within the Ecorium of the National Institute of Ecology in Seocheon, central-western Korea. 16S rRNA gene sequence analysis showed that strain LCS9 clustered with members of the genus of the family , phylum . Sequence similarities between strain LCS9 and the type strains of the genus ranged from 94.6 to 94.9 %. Strain LCS9 grew at 10–37 °C (optimum, 25 °C) and at pH 6.0–10.0 (optimum, pH 7); was positive for catalase and oxidase; and negative for nitrate reduction and production of indole. Cells showed pigment absorbance peaks at 451 and 479 nm, and had 0.03 % survival following exposure to 3 kGy gamma radiation. Strain LCS9 had the following chemotaxonomic characteristics: the major quinone was menaquinone-7 (MK-7); the major fatty acids were iso-C and iso-C 3-OH; polar lipids included phosphoatidylethanolamine, an unidentified aminophospholipid, unidentified aminolipidsand unidentified lipids. The DNA G+C content was 39.4 mol%. Based on polyphasic analysis, the type strain LCS9 (=KCTC 42070=JCM 19972) represents a novel species for which the name sp. nov. is proposed. Radiation resistance in the genus has not been reported to date, and so this is the first report of low-level radiation resistance of a member of the genus.

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2016-09-01
2024-04-23
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References

  1. Altschul S. F., Gish W., Miller W., Myers E. W., Lipman D. J. 1990; Basic local alignment search tool. J Mol Biol 215:403–410 [View Article][PubMed]
    [Google Scholar]
  2. Baik K. S., Kim M. S., Lee J. H., Lee S. S., Im W. T., Seong C. N. 2014; Flavisolibacter rigui sp. nov., isolated from freshwater of an artificial reservoir and emended description of the genus Flavisolibacter . Int J Syst Evol Microbiol 64:4038–4042 [View Article][PubMed]
    [Google Scholar]
  3. Cappuccino J. G., Sherman N. 2010 Microbiology:A Laboratory Manual , 9th edn. pp. 69–74 & 161–164. San Francisco, CA: Benjamin Cummings;
    [Google Scholar]
  4. Edgar R. C. 2004; muscle: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:1792–1797 [View Article][PubMed]
    [Google Scholar]
  5. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [View Article][PubMed]
    [Google Scholar]
  6. Felsenstein J. 1985; Confidence limits on Phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [Google Scholar]
  7. Frank J. A., Reich C. I., Sharma S., Weisbaum J. S., Wilson B. A., Olsen G. J. 2008; Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes. Appl Environ Microbiol 74:2461–2470 [View Article][PubMed]
    [Google Scholar]
  8. Gosink J. J., Woese C. R., Staley J. T. 1998; Polaribacter gen. nov., with three new species, P. irgensii sp. nov., P. franzmannii sp. nov. and P. filamentus sp. nov., gas vacuolate polar marine bacteria of the Cytophaga-Flavobacterium-Bacteroides group and reclassification of ‘Flectobacillus glomeratus’ as Polaribacter glomeratus comb. nov. Int J Syst Bacteriol 48:223–235 [View Article][PubMed]
    [Google Scholar]
  9. Hall T. A. 1999; BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Ser 41:95–98
    [Google Scholar]
  10. Hiraishi A., Ueda Y., Ishihara J., Mori T. 1996; Comparative lipoquinone analysis of influent sewage and activated sludge by high-performance liquid chromatography and photodiode array detection. J Gen Appl Microbiol 42:457–469 [View Article]
    [Google Scholar]
  11. Im W. T., Jung H. M., Ten L. N., Kim M. K., Bora N., Goodfellow M., Lim S., Jung J., Lee S. T. 2008; Deinococcus aquaticus sp. nov., isolated from fresh water, and Deinococcus caeni sp. nov., isolated from activated sludge. Int J Syst Evol Microbiol 58:2348–2353 [View Article][PubMed]
    [Google Scholar]
  12. Joo E. S., Cha S., Kim M. K., Jheong W., Seo T., Srinivasan S. 2015; Flavisolibacter swuensis sp. nov. isolated from soil. J Microbiol 53:442–447 [View Article][PubMed]
    [Google Scholar]
  13. Kim M. K., Srinivasan S., Back C. G., Joo E. S., Lee S. Y., Jung H. Y. 2015; Complete genome sequence of Deinococcus swuensis, a bacterium resistant to radiation toxicity. Mol Cell Toxicol 11:315–321 [View Article]
    [Google Scholar]
  14. Kimura M., Takahata N. 1983; Selective constraint in protein polymorphism: study of the effectively neutral mutation model by using an improved pseudosampling method. Natl Acad Sci USA 80:1048–1052 [View Article]
    [Google Scholar]
  15. Komagata K., Suzuki K. 1987; Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19:1–207
    [Google Scholar]
  16. Lee S. G., Yoon H. S., Bae H., Ha J., Pak H., Shin Y., Son S. W. 2014; Implication of ultraviolet B radiation exposure for non-melanoma skin cancer in Korea. Mol Cell Toxicol 10:91–94 [View Article]
    [Google Scholar]
  17. Lee J. J., Srinivasan S., Lim S., Joe M., Im S., Kim M. K. 2015; Deinococcus puniceus sp. nov., a bacterium isolated from soil-irradiated gamma radiation. Curr Microbiol 70:464–469 [View Article][PubMed]
    [Google Scholar]
  18. Marmur J. 1961; A procedure for the isolation of deoxyribonucleic acid from micro-organisms. J Mol Biol 3:208–218 [View Article]
    [Google Scholar]
  19. Mesbah M., Premachandran U., Whitman W. B. 1989; Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39:159–167 [View Article]
    [Google Scholar]
  20. Minnikin D. E., Patel P. V., Alshamaony L., Goodfellow M. 1977; Polar lipid composition in the classification of N ocardia and related bacteria. Int J Syst Bacteriol 27:104–117 [View Article]
    [Google Scholar]
  21. Minnikin D. E., O'Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal A., Parlett J. H. 1984; An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Meth 2:233–241 [View Article]
    [Google Scholar]
  22. Murray M. G., Thompson W. F. 1980; Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res 8:4321–4326 [View Article][PubMed]
    [Google Scholar]
  23. Rainey F. A., Ray K., Ferreira M., Gatz B. Z., Nobre M. F., Bagaley D., Rash B. A., Park M. J., Earl A. M. et al. 2005; Extensive diversity of ionizing-radiation-resistant bacteria recovered from Sonoran Desert soil and description of nine new species of the genus Deinococcus obtained from a single soil sample. Appl Environ Microbiol 71:5225–5235 [View Article][PubMed]
    [Google Scholar]
  24. Rzhetsky A., Nei M. 1992; A simple method for estimating and testing minimum-evolution trees. Mol Biol Evol 9:945–967
    [Google Scholar]
  25. Saitou N., Nei M. 1987; The neighbour-joining method: a new method for reconstructing phylogenetic trees. Mol Bio Evol 4:406–425
    [Google Scholar]
  26. Sasser M. 1990; Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids. MIDI Technical Note 101.. Newark: DE: MIDI Inc;
  27. Smibert R. M., Krieg N. R. 1994; Phenotypic characterization. In Methods for General and Molecular Bacteriology , pp. 611–651 Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. Washington, DC: American Society for Microbiology;
    [Google Scholar]
  28. Son Y., Bae M. J., Lee C. G., Jo W. S., Kim S. D., Yang K., Jang H., Kim J. S. 2014; Treatment with granulocyte colony-stimulating factor aggravates thrombocytopenia in irradiated mice. Mol Cell Toxicol 10:311–317 [View Article]
    [Google Scholar]
  29. Srinivasan S., Kim M. K., Joo E. S., Lee S. Y., Lee D. S., Jung H. Y. 2015; Complete genome sequence of Rufibacter sp. DG31D, a bacterium resistant to gamma and UV radiation toxicity. Mol Cell Toxicol 11:415–421 [View Article]
    [Google Scholar]
  30. Swindell S. R., Plasterer T. N. 1997; SEQMAN. In Sequence Data Analysis Guidebook pp. 75–89 Springer; [CrossRef]
    [Google Scholar]
  31. Tamaoka J., Komagata K. 1984; Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128 [View Article]
    [Google Scholar]
  32. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. 2011; mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739 [View Article][PubMed]
    [Google Scholar]
  33. Weisburg W. G., Barns S. M., Pelletier D. A., Lane D. J. 1991; 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173:697–703[PubMed]
    [Google Scholar]
  34. Yoon M. H., Im W. T. 2007; Flavisolibacter ginsengiterrae gen. nov., sp. nov. and Flavisolibacter ginsengisoli sp. nov., isolated from ginseng cultivating soil. Int J Syst Evol Microbiol 57:1834–1839 [View Article][PubMed]
    [Google Scholar]
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