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Abstract

A Gram-stain-positive, flagellate, rod-shaped, catalase- and oxidase-positive bacterium, designated DCY72, was isolated from the soil of a field. Growth occurred at 4–34 °C (optimum 30 °C), at pH 4–10 (optimum pH 7), and with 0–5 % NaCl (w/v). The major menaquinones of strain DCY72 were MK-9(H) (81.0 %) and MK-10(H) (12.2 %). The major amino acid present in the cell-wall peptidoglycan was -lysine. The major fatty acids were anteiso-C and anteiso-C. The genomic DNA G+C content was 64.5 mol%. 16S rRNA gene sequence analysis revealed that strain DCY72 belonged to the family and was most closely related to CCM 1646 (98.2 % similarity). The DNA–DNA relatedness between strain DCY72 and KACC 14391 (98.2 % 16S rRNA gene sequence similarity), KACC 14581 (97.6 %), KACC 20508 (97.3 %) and KACC 20528 (97.3 %). was 12.9 %±0.3, 25.6 %±0.3, 26.6 %±0.5 and 23.2 %±0.9, respectively. On the basis of the phenotypic characteristics, genotypic analysis and physiological characteristics, strain DCY72 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is DCY72 ( = KCTC 33072 = JCM 18514).

Funding
This study was supported by the:
  • Next-Generation BioGreen 21 Program
  • SSAC, (Award grant no PJ00952903)
  • National Research Foundation of Korea
  • Ministry of Science, ICT & Future Planning (Award no 20110015122)
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2014-02-01
2024-04-19
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References

  1. Bauer A. W., Kirby W. M. M., Sherris J. C., Turck M. ( 1966 ). Antibiotic susceptibility testing by a standardized single disk method. . Am J Clin Pathol 45, 493496.[PubMed]
    [Google Scholar]
  2. Bernardet J.-F., Nakagawa Y., Holmes B. Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes ( 2002 ). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. . Int J Syst Evol Microbiol 52, 10491070. [View Article] [PubMed]
    [Google Scholar]
  3. Christensen W. B. ( 1946 ). Urea decomposition as a means of differentiating Proteus and paracolon cultures from each other and from Salmonella and Shigella types. . J Bacteriol 52, 461466.[PubMed]
    [Google Scholar]
  4. 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, 22592261. [View Article] [PubMed]
    [Google Scholar]
  5. Collins M. D. ( 1985 ). Isoprenoid quinone analyses in bacterial classification and identification. . In Chemical Methods in Bacterial Systematics, pp. 267287. Edited by Goodfellow M., Minnikin D. E. . London:: Academic Press;.
    [Google Scholar]
  6. Conn H. J., Dimmick I. ( 1947 ). Soil bacteria similar in morphology to Mycobacterium and Corynebacterium. . J Bacteriol 54, 291303.[PubMed]
    [Google Scholar]
  7. Cowan S. T., Steel K. J. ( 1974 ). Manual for the Identification of Medical Bacteria. Cambridge:: Cambridge University Press;.
    [Google Scholar]
  8. 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, 224229. [View Article]
    [Google Scholar]
  9. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783791. [View Article]
    [Google Scholar]
  10. Jones D., Keddie R. M. ( 1992 ). The genus Arthrobacter . . In The Prokaryotes: a Handbook on the Biology of Bacteria: Ecophysiology, Isolation, Identification, Applications, , 2nd edn., vol. 2, pp. 12831299. Edited by Balows A., Truper H. G., Dworkin M., Harder W., Schleifer K. H. . NY:: Springer;.
    [Google Scholar]
  11. Keddie R. M., Collins M. D., Jones D. ( 1986 ). Genus Arthrobacter Conn and Dimmick 1947, 300AL . . In Bergey's Manual of Systematic Bacteriology, vol. 2, pp. 12881301. Edited by Sneath P. H. A., Mair N. S., Sharpe M. E., Holt J. G. . Baltimore:: Williams & Wilkins;.
    [Google Scholar]
  12. Kim M. K., Im W.-T., Ohta H., Lee M., Lee S.-T. ( 2005 ). Sphingopyxis granuli sp. nov., a β-glucosidase-producing bacterium in the family Sphingomonadaceae in α-4 subclass of the Proteobacteria . . J Microbiol 43, 152157.[PubMed]
    [Google Scholar]
  13. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. & other authors ( 2012 ). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequences database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62, 716721. [View Article]
    [Google Scholar]
  14. Kimura M. ( 1983 ). The Neutral Theory of Molecular Evolution. Cambridge:: Cambridge University Press;. [View Article]
    [Google Scholar]
  15. Koch C., Schumann P., Stackebrandt E. ( 1995 ). Reclassification of Micrococcus agilis (Ali-Cohen 1889) to the genus Arthrobacter as Arthrobacter agilis comb. nov. and emendation of the genus Arthrobacter . . Int J Syst Bacteriol 45, 837839. [View Article] [PubMed]
    [Google Scholar]
  16. Lane D. J. ( 1991 ). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115176. Edited by Stackebrandt E., Goodfellow M. . Chichester:: Wiley;.
    [Google Scholar]
  17. 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, 159167. [View Article]
    [Google Scholar]
  18. 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 Methods 2, 233241. [View Article]
    [Google Scholar]
  19. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  20. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101. Newark, DE: MIDI Inc.
  21. Schleifer K. H., Kandler O. ( 1972 ). Peptidoglycan types of bacterial cell walls and their taxonomic implications. . Bacteriol Rev 36, 407477.[PubMed]
    [Google Scholar]
  22. Skerman V. B. D. ( 1967 ). A Guide to the Identification of the Genera of Bacteria, , 2nd edn.. Baltimore:: Williams & Wilkins;.
    [Google Scholar]
  23. Tamura K., Dudley J., Nei M., Kumar S. ( 2007 ). mega4: molecular evolutionary genetics analysis (mega) software version 4.0. . Mol Biol Evol 24, 15961599. [View Article] [PubMed]
    [Google Scholar]
  24. Wayne L. G., Brenner D. J., Colwell R. R., Grimont P. A. D., Kandler O., Krichevsky M. I., Moore L. H., Moore W. E. C., Murray R. G. E. & 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, 463464. [View Article]
    [Google Scholar]
  25. Wu C., Lu X., Qin M., Wang Y., Ruan J. ( 1989 ). Analysis of menaquinone compound in microbial cells by HPLC. . Microbiology [English translation of Microbiology (Beijing)] 16, 176178. [View Article]
    [Google Scholar]
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