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Volume 45, Issue 3

A Taxonomic Study of the Genus by Analysis of Ribosomal Protein AT-L30 Free

Abstract

The ribosomal AT-L30 proteins from 81 species of the genus as listed by Williams et al. in Bergey’s Manual were analyzed. My results provided further evidence that the genus is well circumscribed. On the basis of levels of AT-L30 N-terminal amino acid sequence homology, the strains were classified into four groups (groups I to IV) and a nongrouped category, whose members contained amino acid sequences characteristic of each species. A phylogenetic tree constructed on the basis of the levels of similarity of the amino acid sequences revealed the existence of six clusters within the genus. The first cluster contains the members of groups I and II together with several other species; the second cluster contains the members of groups III and IV and several other species; the third cluster contains and the fourth cluster contains only the fifth cluster contains and and the sixth cluster contains and Considerable agreement between the results of the AT-L30 analyses and the results of numerical phenetic classification was found, although there were numerous disagreements in details. For example, four groups (groups I to IV) defined by the AT-L30 analysis data did not correlate with the aggregate groups defined by numerical classification. In general, but not always, the species classified in a particular cluster in the numerical classification system had the same or similar AT-L30 terminal amino acid sequences. The AT-L30 analysis data were more consistent with the 16S rRNA analysis data than with the numerical classification data, indicating that there was a good correlation between the four groups defined by AT-L30 analysis data and the aggregate groups defined by 16S rRNA analysis data. I stress that discrepancies between results of phenetic analyses and results of phylogenetic analyses should be taxonomically significant and can be resolved by other taxonomic approaches, such as DNA relatedness analysis.

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Copyright © 1995 International Union of Microbiological Societies
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1995-07-01
2024-04-23
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References

  1. Gladek A., Mordarski M., Goodfellow M., Williams S. T. 1985; Ribosomal ribonucleic acid similarities in the classification of Streptomyces . FEMS Microbiol. Lett. 26:175–180
     [Google Scholar]
  2. Goodfellow M., Cross T. 1984; Classification,. 7–164 Goodfellow M., Mordarski M., Williams S. T. The biology of actinomycetes Academic Press; London:
     [Google Scholar]
  3. Goodfellow M., Lonsdale C., James A. L., MacNamara O. C. 1987; Rapid biochemical tests for the characterization of streptomycetes. FEMS Microbiol. Lett. 43:39–44
     [Google Scholar]
  4. Goodfellow M., Williams S. T., Alderson G. 1986; Transfer of Chainia species to the genus Streptomyces with amended descriptions of the species. Syst. Appl. Microbiol. 8:55–60
     [Google Scholar]
  5. Goodfellow M., Williams S. T., Alderson G. 1986; Transfer of Elytrosporangium brasiliense Falcao de Morais et al., Microellobosporia cinerea Cross et al., Microellobosporia flavea Cross et al., Microellobosporia grisea (Konev et al.) Pridham and Microellobosporia violacea (Tsyganov et al.) Pridham to the genus Streptomyces with amended descriptions of the species. Syst. Appl. Microbiol. 8:48–54
     [Google Scholar]
  6. Goodfellow M., Williams S. T., Alderson G. 1986; Transfer of Kitasatoa purpurea Matsumae and Hata to the genus Streptomyces as Streptomyces purpureus comb. nov. Syst. Appl. Microbiol. 8:65–66
     [Google Scholar]
  7. Kaltschmidt E., Wittmann H. G. 1970; Ribosomal proteins. VII. Two-dimensional polyacrylamide gel electrophoresis for finger-printing of ribosomal proteins. Anal. Biochem. 36:401–412
     [Google Scholar]
  8. Kämpfer P., Kroppenstedt R. M., Dott W. 1991; A numerical classification of the genera Streptomyces and Streptoverticillium using miniaturized physiological tests. J. Gen. Microbiol. 137:1831–1891
     [Google Scholar]
  9. Kirby R., Rybicki E. P. 1986; Enzyme-linked immunosorbent assay (ELISA) as a means of taxonomic analysis of Streptomyces and related organisms. J. Gen. Microbiol. 132:1891–1894
     [Google Scholar]
  10. Korn-Wendisch F., Kutzner H. J. 1992; The family Streptomycetaceae, . 921–995 Balows A., Trüper H. G., Dworkin M., Harder W., Schleifer K.-H. The prokaryotes, 1 Springer-Verlag; Berlin:
     [Google Scholar]
  11. Korn-Wendisch F., Schneider J. 1992; Phage typing—a useful tool in actinomycete systematics. Gene 115:243–247
     [Google Scholar]
  12. Labeda D. P. 1993; DNA relatedness among strains of the Streptomyces lavendulae phenotypic cluster group. Int. J. Syst. Bacteriol. 43:822–825
     [Google Scholar]
  13. Labeda D. P., Lyons A. J. 1991; Deoxyribonucleic acid relatedness among species of the “Streptomyces cyaneus” cluster. Syst. Appl. Microbiol. 14:158–164
     [Google Scholar]
  14. Labeda D. P., Lyons A. J. 1991; The Streptomyces violaceusniger cluster is heterogeneous in DNA relatedness among strains: emendation of the descriptions of S. violaceusniger and Streptomyces hygroscopicus . Int. J. Syst. Bacteriol. 41:398–401
     [Google Scholar]
  15. Mordarski M., Goodfellow M., Williams S. T., Sneath P. H. A. 1986; Evaluation of species groups in the genus Streptomyces, . 517–525 Szabo G., Biro S., Goodfellow M. Biological, biochemical and biomedical aspects of actinomycetes Akademiai Kiado; Budapest:
     [Google Scholar]
  16. Murray R. G. E., Brenner D. J., Colwell R. R., De Vos P., Goodfellow M., Grimont P. A. D., Pfenning N., Stackebrandt E., Zavarzin G. A. 1990; Report of the Ad Hoc Committee on Approaches to Taxonomy within the Proteobacteria. Int. J. Syst. Bacteriol. 40:213–215
     [Google Scholar]
  17. Ochi K. 1989; Heterogeneity of ribosomal proteins among Streptomyces species and its application to identification. J. Gen. Microbiol. 135:2635–2642
     [Google Scholar]
  18. Ochi K. 1992; Electrophoretic heterogeneity of ribosomal protein AT-L30 among actinomycete genera. Int. J. Syst. Bacteriol. 42:144–150
     [Google Scholar]
  19. Ochi K. 1992; Polyacrylamide gel electrophoresis analysis of ribosomal protein: a new approach for actinomycete taxonomy. Gene 115:261–265
     [Google Scholar]
  20. Ochi K. 1994; Phylogenetic diversity in the genus Bacillus and comparative ribosomal protein AT-L30 analyses of the genus Thermoactinomyces and relatives. Microbiology 140:2165–2171
     [Google Scholar]
  21. Ochi K. 1995; Amino acid sequence analysis of ribosomal protein AT-L30 from members of the family Pseudonocardiaceae . Int. J. Syst. Bacteriol. 45:110–115
     [Google Scholar]
  22. Ochi K. 1995; Comparative ribosomal protein sequence analyses of a phy-logenetically defined genus, Pseudomonas, and its relatives. Int. J. Syst. Bacteriol. 45:268–273
     [Google Scholar]
  23. Ochi K., Haraguchi K., Miyadoh S. 1993; A taxonomic review of the genus Microbispora by analysis of ribosomal protein AT-L30. Int. J. Syst. Bacteriol. 43:58–62
     [Google Scholar]
  24. Ochi K., Hiranuma H. 1994; A taxonomic review of the genera Kitasatosporia and Streptoverticillium by analysis of ribosomal protein AT-L30. Int. J. Syst. Bacteriol. 44:285–292
     [Google Scholar]
  25. Ochi K., Miyadoh S. 1992; Polyacrylamide gel electrophoresis analysis of ribosomal protein AT-L30 from an actinomycete genus, Streptosporangium . Int. J. Syst. Bacteriol. 42:151–155
     [Google Scholar]
  26. Ochi K., Miyadoh S., Tamura T. 1991; Polyacrylamide gel electrophoresis analysis of ribosomal protein AT-L30 as a novel approach to actinomycete taxonomy: application to the genera Actinomadura and Microtetraspora . Int. J. Syst. Bacteriol. 41:234–239
     [Google Scholar]
  27. O’Donnell A. G. 1986; Chemical and numerical methods in the characterization of novel isolates,. 541–549 Szabo G., Biro S., Goodfellow M. Biological, biochemical and biomedical aspects of actinomycetes Akademiai Kiado; Budapest:
     [Google Scholar]
  28. Sanglier J.-J., Whitehead D., Saddler G. S., Ferguson E. V., Goodfellow M. 1992; Pyrolysis mass spectrometry as a method for the classification,identification and selection of actinomycetes. Gene 115:235–242
     [Google Scholar]
  29. Seki T. Personal communication.
    [Google Scholar]
  30. Skerman V. B. D., McGowan V., Sneath P. H. A. 1980; Approved lists of bacterial names. Int. J. Syst. Bacteriol. 30:225–420
     [Google Scholar]
  31. Stackebrandt E., Liesack W., Witt D. 1992; Ribosomal RNA and rDNA sequence analyses. Gene 115:255–260
     [Google Scholar]
  32. 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., Stackebrandt E., Starr M. P., Trüper H. G. 1987; Report of the Ad Hoc Committee on Reconciliation of Approaches to Bacterial Systematics. Int. J. Syst. Bacteriol. 37:463–464
     [Google Scholar]
  33. Wellington E. M. H., Stackebrandt E., Sanders D., Wolstrup J., Jorgensen N. O. G. 1992; Taxonomic status of Kitasatosporia and proposed unification with Streptomyces on the basis of phenotypic and 16S rRNA analysis and emendation of Streptomyces Waksman and Henrici 1943,339AL . Int. J. Syst. Bacteriol. 42:156–160
     [Google Scholar]
  34. Williams S. T., Goodfellow M., Alderson G. 1989; Genus Streptomyces Waksman and Henrici 1943, 339AL,. 2452–2492 Williams S. T., Sharpe M. E., Holt J. G. Bergey’s manual of systematic bacteriology, 4 The Williams & Wilkins Co.; Baltimore:
     [Google Scholar]
  35. Williams S. T., Goodfellow M., Alderson G., Wellington E. M. H., Sneath P. H. A., Sackin M. J. 1983; Numerical classification of Streptomyces and related genera. J. Gen. Microbiol. 129:1743–1813
     [Google Scholar]
  36. Witt D., Stackebrandt E. 1990; Unification of the genera Streptoverticillium and Streptomyces, and amendation of Streptomyces Waksman and Henrici 1943, 339AL . Syst. Appl. Microbiol. 13:361–371
     [Google Scholar]
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A Taxonomic Study of the Genus Streptomyces by Analysis of Ribosomal Protein AT-L30
Int J Syst Evol Microbiol 45, 507 (1995); https://doi.org/10.1099/00207713-45-3-507
/content/journal/ijsem/10.1099/00207713-45-3-507
/content/journal/ijsem/10.1099/00207713-45-3-507
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