Application of the variable region in 16S rDNA to create an index for rapid species identification in the genus Streptomyces

FEMS Microbiology Letters

Volumn 151, Issue 2, 1997, Pages 249-255

  Kataoka, Masakazu ^a   Ueda, Kumiko ^a   Kudo, Takuji ^b   Seki, Tatsuji ^a   Yoshida, Toshiomi ^a  

^a OSAKA UNIVERSITY   (Japan)

^b RIKEN BIORESOURCE CENTER   (Japan)

Author keywords

16S rRNA gene; Phylogenetic analysis; Streptomyces

Indexed keywords

RIBOSOME DNA;

ARTICLE; BACTERIUM IDENTIFICATION; DNA SEQUENCE; NONHUMAN; PHYLOGENY; PRIORITY JOURNAL; SEQUENCE ANALYSIS; STRAIN DIFFERENCE; STREPTOMYCES;

DNA, RIBOSOMAL; PHYLOGENY; RNA, RIBOSOMAL, 16S; STREPTOMYCES;

BACTERIA (MICROORGANISMS); STREPTOMYCES;

EID: 0030785668     PISSN: 03781097     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1097(97)00169-9     Document Type: Article

References (23)

1. Shirling, E.B. and Gottlieb, D. (1969) Cooperative description of type cultures of Streptomyces. IV. Species descriptions from the second, third and fourth studies. Int. J. Syst. Bacteriol. 19, 391-512.
2. Shirling, E.B. and Gottlieb, D. (1972) Cooperative description of type strains of Streptomyces. V. Additional descriptions. Int. J. Syst. Bacteriol. 22, 265-394.
3. Williams, S.T., Goodfellow, M., Alderson, G., Wellington, E.M.H., Sneath, P.H.A. and Sackin, M.J. (1983) Numerical classification of Streptomyces and related genera. J. Gen. Microbiol. 129, 1743-1813.
4. AL. In: Bergey's Manual of Systematic Bacteriology, Vol. 4 (S.T. Williams, M.E. Sharpe and J.G. Holt, Eds.), pp. 2452-2492. Williams and Wilkins, Baltimore, MD.
5. Woese, C.R. (1987) Bacterial evolution. Microbiol. Rev. 51, 221-271.
6. Gladek, A., Mordarski, A., Goodfellow, M. and Williams, S.T. (1985) Ribosomal ribonucleic acid similarities in the classification of Streptomyces. FEMS Microbiol. Lett. 26, 175-180.
7. AL. Syst. Appl. Microbiol. 13, 361-371.
8. Nakase, T. (1992) In: JCM Catalogue of Strains, 5th edn. (T. Nakase, Ed.), RIKEN, Saitama, Japan.
9. Higuchi, R.G. and Ochman, H. (1989) Production of single-stranded DNA templates by exonuclease digestion following the polymerase chain reaction. Nucleic Acids Res. 17, 5865.
10. Saiki, R.K., Gelfand, D.H., Stoffe, S., Scharf, S.J., Higuchi, R., Horn, G.T., Mullis, K.B. and Erlich, H.A. (1988) Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science 239, 487-491.
11. Pernodet, L.L., Boccard, F., Alegre, M.T., Gagnat, J. and Guérineau, M. (1989) Organization and nucleotide sequence analysis of a ribosomal RNA gene cluster from Streptomyces ambofaciens. Gene 79, 33-46.
12. 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.
13. Saitou, N. and Nei, M. (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4, 406-425.
14. Suzuki, Y. and Yamada, T. (1988) The nucleotide sequence of 16S rRNA gene from Streptomyces lividans TK21. Nucleic Acids Res. 16, 370.
15. Baylis, H.A. and Bibb, M.J. (1989) The nucleotide sequence of a 16S rRNA gene from Streptomyces coelicolor A3(2). Nucleic Acids Res. 18, 831.
16. Kim, E., Kim, H., Kang, K.H., Kho, Y.H. and Park, Y.-H. (1991) Complete nucleotide sequence of a 16S ribosomal RNA gene from Streptomyces griseus subsp. griseus. Nucleic Acids Res. 19, 1149.
17. Stackebrandt, E., Witt, D., Kemmerling, C., Kroppenstedt, R. and Liesack, W. (1991) Designation of streptomycetes 16S and 23S rRNA-based target regions of oligonucleotide probes. Appl. Environ. Microbiol. 57, 1468-1477.
18. Mehling, A., Wehmeier, U.F. and Piepersberg, W. (1995) Nucleotide sequences of streptomycete 16S ribosomal DNA: towards a specific identification system for streptomycetes using PCR. Microbiology 141, 2139-2147.
19. Kampfer, P., Kroppenstedt, R.M. and Dott, W. (1991) A numerical classification of the genera Streptomyces and Streptoverticillum using miniaturized physiological tests. J. Gen. Microbiol. 137, 1831-1891.
20. Mordarski, M., Goodfellow, M., Williams, S.T. and Sneath, P.H.A. (1986) Evaluation of species groups in the genus Streptomyces. In: Biological, Biochemical and Biomedical Aspects of Actinomycetes (G. Szabo, S. Biro and M. Goodfellow, Eds.), pp. 517-525. Akademiai Kiado, Budapest.
21. Sanglier, J.-J., Whitehead, D., Saddler, G.S., Ferguson, E.V. and Goodfellow, M. (1992) Pyrolysis mass spectrometry as a method for the classification, identification and selection of actinomycetes. Gene 115, 235-242.
22. Saddler, G.S., O'Donnell, A.G., Goodfellow, M. and Minnikin, D.E. (1987) SIMCA pattern recognition in the analysis of streptomycetes fatty acids. J. Gen. Microbiol. 133, 1137-1147.
23. Goodfellow, M., Williams, S.T. and Alderson, G. (1986) Transfer of Chainia species to the genus Streptomyces with emended description of species. System. Appl. Microbiol. 8, 55-60.