sp. nov., isolated from soil in Taiwan Free

Abstract

Among a large collection of Taiwanese soil isolates, a novel Gram-negative, rod-shaped, non-spore-forming, yellow-pigmented bacterial strain, Soil-3-27, was isolated from farmland soil in Wu-Feng, Taiwan. The isolate was subjected to a polyphasic study including 16S rRNA gene sequencing, DNA–DNA hybridization, fatty acid analysis and comparative phenotypic characterization. The 16S rRNA gene sequence analysis indicated that the organism belongs to the genus . The organism contains menaquinone MK-6 as the predominant isoprenoid quinone and 15 : 0 iso (43 %), 17 : 1 iso9 (17.5 %) and 17 : 0 iso 3-OH (16.6 %) as the major fatty acids. Phylogenetically, the closest relatives of strain Soil-3-27 are , and with 96.7–97.2 % sequence similarity. DNA–DNA hybridization showed relatedness values of 8.5–24.2 % with these species. The DNA G+C content is 36.8 mol%. Strain Soil-3-27 is clearly distinguishable from other species and represents a novel species, for which the name sp. nov. is proposed. The type strain is strain Soil-3-27 (=BCRC 17412=IAM 15317=LMG 23355).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.64294-0
2006-08-01
2024-03-29
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/56/8/1771.html?itemId=/content/journal/ijsem/10.1099/ijs.0.64294-0&mimeType=html&fmt=ahah

References

  1. Barrow G. I., Feltham R. K. A. 1993 Cowan and Steel's Manual for the Identification of Medical Bacteria , 3rd edn. Cambridge: Cambridge University Press;
    [Google Scholar]
  2. Chern L.-L., Stackebrandt E., Lee S.-F., Lee F.-L., Chen J.-K., Fu H.-M. 2004; Chitinibacter tainanensis gen. nov., sp. nov. a chitin-degrading aerobe from soil in Taiwan. Int J Syst Evol Microbiol 54:1387–1391 [CrossRef]
    [Google Scholar]
  3. Collins M. D., Jones D. 1981; A note on the separation of natural mixtures of bacterial ubiquinones using reverse-phase partition thin-layer chromatography and high performance liquid chromatography. J Appl Bacteriol 51:129–134 [CrossRef]
    [Google Scholar]
  4. Cowan S. T. 1974 Cowan and Steel's Manual for the Identification of Medical Bacteria , 2nd edn. Cambridge: Cambridge University Press;
    [Google Scholar]
  5. de Beer H., Hugo C. J., Jooste P. J., Willems A., Vancanneyt M., Coenye T., Vandamme P. A. R. 2005; Chryseobacterium vrystaatense sp. nov., isolated from raw chicken in a chicken-processing plant. Int J Syst Evol Microbiol 55:2149–2153 [CrossRef]
    [Google Scholar]
  6. 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]
  7. Fitch W. M. 1971; Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416 [CrossRef]
    [Google Scholar]
  8. Gerhardt P., Murray R. G. E., Costilow R. N., Nester E. W., Wood W. A., Krieg N. R., Phillips G. B. 1981 Manual of Methods for General Bacteriology Washington, DC: American Society for Microbiology;
    [Google Scholar]
  9. Holmes B., Owen R. J., Steigerwalt A. G., Brenner D. J. 1984; Flavobacterium gleum , a new species found in human clinical specimens. Int J Syst Bacteriol 34:21–25 [CrossRef]
    [Google Scholar]
  10. Kim K. K., Kim M. K., Lim J. H., Park H. Y., Lee S. T. 2005; Transfer of Chryseobacterium meningosepticum and Chryseobacterium miricola to Elizabethkingia gen. nov. as Elizabethkingia meningoseptica comb. nov. and Elizabethkingia miricola comb. nov. Int J Syst Evol Microbiol 55:1287–1293 [CrossRef]
    [Google Scholar]
  11. Komagata K., Suzuki K. 1987; Lipids and cell-wall analysis in bacterial systematics. Methods Microbiol 19:161–203
    [Google Scholar]
  12. 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]
  13. Lapage S. P., Sneath P. H. A., Lessel E. F., Skerman V. B. D., Seeliger H. P. R., Clark W. A. 1992 International Code of Nomenclature of Bacteria (1990 revision) Washington, DC: American Society for Microbiology;
    [Google Scholar]
  14. Li Y., Kawamura Y., Fujiwara N., Naka T., Liu H., Huang X., Kobayashi K., Ezaki T. 2003; Chryseobacterium miricola sp. nov., a novel species isolated from condensation water of space station Mir. Syst Appl Microbiol 26:523–528 [CrossRef]
    [Google Scholar]
  15. MacFaddin J. F. 1980 Biochemical Tests for the Identification of Medical Bacteria , 2nd edn. Baltimore, MD: Williams & Wilkins;
    [Google Scholar]
  16. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
    [Google Scholar]
  17. Shen F.-T., Kämpfer P., Young C.-C., Lai W.-A., Arun A. B. 2005; Chryseobacterium taichungense sp. nov., isolated from contaminated soil. Int J Syst Evol Microbiol 55:1301–1304 [CrossRef]
    [Google Scholar]
  18. Shimomura K., Kaji S., Hiraishi A. 2005; Chryseobacterium shigense sp. nov., a yellow-pigmented, aerobic bacterium isolated from a lactic acid beverage. Int J Syst Evol Microbiol 55:1903–1906 [CrossRef]
    [Google Scholar]
  19. Tamaoka J., Komagata K. 1984; Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128 [CrossRef]
    [Google Scholar]
  20. 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]
  21. Vandamme P., Bernardet J.-F., Segers P., Kersters K., Holmes B. 1994; New perspectives in the classification of the flavobacteria: description of Chryseobacterium gen.nov., Bergeyella gen. nov., and Empedobacter nom. rev. Int J Syst Bacteriol 44:827–831 [CrossRef]
    [Google Scholar]
  22. Vandamme P., Pot B., Gillis M., de Vos P., Kersters K., Swings J. 1996; Polyphasic taxonomy, a consensus approach to bacterial systematics. Microbiol Rev 60:407–438
    [Google Scholar]
  23. Yamaguchi S., Yokoe M. 2000; A novel protein-deamidating enzyme from Chryseobacterium proteolyticum sp. nov., a newly isolated bacterium from soil. Appl Environ Microbiol 66:3337–3343 [CrossRef]
    [Google Scholar]
  24. Young C.-C., Kämper P., Shen F.-T., Lai W.-A., Arun A. B. 2005; Chryseobacterium formosense sp. nov., isolated from the rhizosphere of Lactuca sativa L. (garden lettuce). Int J Syst Evol Microbiol 55:423–426 [CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.64294-0
Loading
/content/journal/ijsem/10.1099/ijs.0.64294-0
Loading

Data & Media loading...

Most cited Most Cited RSS feed