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Antonie van Leeuwenhoek

, Volume 64, Issue 3–4, pp 307–313 | Cite as

Suprageneric classification of peptidoglycan group B actinomycetes by nucleotide sequencing of 5S ribosomal RNA

  • Yong-Ha Park
  • Ken-Ichiro Suzuki
  • Dong-Gu Yim
  • Keun-Chul Lee
  • Eundooj Kim
  • Jun-sik Yoon
  • Sung-jun Kim
  • Yong-Hee Kho
  • Michael Goodfellow
  • Kazuo Komagata
Article

Abstract

5S ribosomal RNA sequences were determined for thirteen actinomycetes mainly representatives with the rare group B type peptidoglycan. The primary and secondary structure of the resultant sequences were of the type characteristic of Gram-positive bacteria with DNA rich in guanine plus cytosine. The sequencing and associated chemotaxonomic data provide compelling grounds for classifying actinomycetes with a group B type peptidoglycan in a single family. The familyMicrobacteriaceae fam. nov. is proposed to accommodate actinomycetes classified in the generaAgromyces, Aureobacterium, Clavibacter, Curtobacterium andMicrobacterium.

Key words

Agromyces Aureobacterium Clavibacter Curtobacterium Microbacterium 5S rRNA 

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References

  1. Collins MD & Bradbury JF (1986) Plant pathogenic species ofCorynebacterium. In: Sneath PHA, Mair NS, Sharpe, ME & Holt JG (Eds) Bergey's Manual of Systematic Bacteriology, Volume 2 (pp. 1276–1283). Williams & Wilkins, Baltimore.Google Scholar
  2. Collins MD & Bradbury JF (1991) The generaAgromyces, Aureobacterium, Clavibacter, Curtobacterium, andMicrobacterium. In: Balows A, Truper HG, Dworkin M, Harder W & Schleifer KH (Eds) The Prokaryotes, Second Edition (pp. 1355–1368). Springer-Verlag, New York.Google Scholar
  3. Collins MD, Jones D, Keddie RM, Kroppenstedt RM & Schleifer KH (1983) Classification of some coryneform bacteria in a new genusAureobacterium. System. Appl. Microbiol. 4: 236–252.Google Scholar
  4. Dams E, Yamada T, De Baere R, Huysamans E, Vandenberghe A & De Wachter R (1987) Structure of 5S rRNA in actinomycetes and relatives and evolution of eubacteria. J. Mol. Evol. 25: 255–260.Google Scholar
  5. Davis MJ, Gillespie AG Jr., Vidaver AG & Harris RW (1984)Clavibacter: a new genus containing some phytopathogenic coryneform bacteria, includingClavibacter xyli subsp.xyli sp. nov. andClavibacter xyli subsp.cynodontis subsp. nov., pathogens that cause ratoon stunting disease of sugarcane and Bermudagrass stunting disease. Int. J. Syst. Bacteriol. 34: 107–117.Google Scholar
  6. Dekio S, Yamasaki R, Jidoi J, Hori H & Osawa S (1984) Secondary structure and phylogeny ofStaphylococcus andMicrococcus 5S rRNAs. J. Bacteriol. 159: 233–237.Google Scholar
  7. Döpfer H, Stackebrandt E & Fiedler F (1982) Nucleic acid hybridization studies onMicrobacterium, Curtobacterium, Agromyces and related taxa. J. Gen. Microbiol. 128: 1697–1708.Google Scholar
  8. Donis-Keller H (1980) Phy M: an RNase activity specific for U and A residues useful in RNA sequence analysis. Nucleic Acids Res. 8: 3133–3142.Google Scholar
  9. Embley TM, Smida J & Stackebrandt E (1988) The phylogeny of mycolateless wall chemotype IV actinomycetes and description ofPseudonocardiaceae fam. nov. System. Appl. Microbiol. 11: 44–52Google Scholar
  10. Goodfellow M (1989) Suprageneric classification of actinomycetes In: Williams ST, Sharpe ME & Holt JG (Eds) Bergey's Manual of Systematic Bacteriology, Volume 4 (pp. 2333–2339). Williams & Wilkins, Baltimore.Google Scholar
  11. Goodfellow M, Stanton, LJ, Simpson KE & Minnikin DE (1990) Numerical and chemical classification ofActinoplanes and some related actinomycetes. J. Gen. Microbiol. 136: 19–36.Google Scholar
  12. Hori H & Osawa S (1986) Evolutionary change in 5S rRNA secondary structure and a phylogenetic tree of 352 5S rRNA species. BioSystems 19: 163–172.Google Scholar
  13. 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.Google Scholar
  14. Leifson E (1962). The bacterial flora of distilled and stored water. III. New species of the generaCorynebacterium, Flavobacterium, Spirillum andPseudomonas. Int. Bull. Bacteriol. Nomencl. Taxon. 12: 161–170.Google Scholar
  15. Orla-Jensen S (1919) The Lactic Acid Bacteria. Host & Son, Copenhagen.Google Scholar
  16. Park YH, Hori H, Suzuki KI, Osawa S & Komagata K (1987a) Phylogeneic analysis of the coryneform bacteria by 5S rRNA sequences. J. Bacteriol. 169: 1801–1806.Google Scholar
  17. Park YH, Hori H, Suzuki KI, Osawa S & Komagata K (1987b) Nucleotide sequence of 5S ribosomal RNA fromRhodococcus erythropolis. Nucleic Acids Res. 15: 365.Google Scholar
  18. Park YH, Yim DG, Kim E, Kho YH, Mheen TI, Lonsdale J & Goodfellow M (1991) Classification of acidophilic, neutrotolerant and neutrophilic streptomycetes by nucleotide sequencing of 5S ribosomal RNA. J. Gen. Microbiol. 137: 2265–2269.Google Scholar
  19. Park YH, Kim E, Yim DG, Kho YH, Mheen TI & Goodfellow M (1993) Suprageneric classification ofThermoactinomyces vulgaris by nucleotide sequencing of 5S ribosomal RNA. Zbl. Bakt. 278: 469–478.Google Scholar
  20. Peattie D.A. (1979) Direct chemical method for sequencing RNA. Proc. Natl. Acad. Sci. USA 76: 1760–1764.Google Scholar
  21. Schleifer KH & Kandler O (1972) Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bact. Rev. 34: 407–477.Google Scholar
  22. Simoncsits A (1980) 3′ Terminal labelling of RNA with beta-32p-pyrophosphate group and its application to the sequence analysis of 5S RNA fromStreptomyces griseus. Nucleic Acids Res. 8: 4111–4124.Google Scholar
  23. Stackebrandt E, Kroppenstedt RM & Fowler VJ (1983) A phylogenetic analysis of the familyDermatophilaceae. J. Gen. Microbiol. 129: 1831–1838.Google Scholar
  24. Suzuki K-I, Goodfellow M & O'Donnell AG (1993) Cell envelopes and classification. In: Goodfellow M & O'Donnell AG (Eds) Handbook of Bacterial Systematics (pp. 195–250). Academic Press Ltd., London.Google Scholar
  25. Tinoco I Jr, Uhlenbeck OC & Levine MD (1971) Estimation of secondary structure in ribonucleic acids. Nature, London 230: 362–367.Google Scholar
  26. Yamada K & Komagata K (1972) Taxonomic studies on coryneform bacteria. IV. Morphological, cultural, biochemical and physiological characteristics. J. Gen. Appl. Microbiol. 18: 399–416.Google Scholar
  27. Yokota A, Takeuchi M & Weiss N (1993a) Proposal of two new species in the genusMicrobacterium: Microbacterium dextranolyticum sp. nov. andMicrobacterium aurum sp. nov. Int. J. System. Bacteriol. 43: 549–554.Google Scholar
  28. Yokota A, Takeuchi M, Sakane T & Weiss N (1993b) Proposal of six new species in the genusAureobacterium and transfer ofFlavobacterium esteraromaticum Omelianski to the genusAureobacterium asAureobacterium esteroaromaticum comb. nov. Int. J. System. Bacteriol. 43: 555–564.Google Scholar
  29. Zgursckaya HI, Evtushenko LI, Akimov VN, Voyevoda HV, Dobrovolskaya TG, Lysak LV & Kalakoutskii LV (1992) Emended description of the genusAgromyces and description ofAgromyces cerinus subsp.cerinus sp. nov., subsp. nov.,Agromyces cerinus subsp.nitratus sp. nov., subsp. nov.,Agromyces fucosus subsp.fucosus sp. nov., subsp. nov., andAgromyces fucosus subsp.hippuratus sp. nov., subsp. nov. Int. J. Syst. Bacteriol. 42: 635–641.Google Scholar

Copyright information

© Kluwer Academic Publishers 1993

Authors and Affiliations

  • Yong-Ha Park
    • 1
  • Ken-Ichiro Suzuki
    • 2
  • Dong-Gu Yim
    • 1
  • Keun-Chul Lee
    • 1
  • Eundooj Kim
    • 1
  • Jun-sik Yoon
    • 1
    • 3
  • Sung-jun Kim
    • 3
  • Yong-Hee Kho
    • 1
  • Michael Goodfellow
    • 4
  • Kazuo Komagata
    • 5
  1. 1.Korean Collection for Type Cultures, Genetic Engineering Research InstituteKorea Institute of Science and TechnologyTaejeonRepublic of Korea
  2. 2.Japan Collection of MicroorganismsRIKEN, WakoshiSaitamaJapan
  3. 3.Department of Genetic EngineeringChosun UniversityKwangjooRepublic of Korea
  4. 4.Department of MicrobiologyThe Medical SchoolNewcastle upon TyneUK
  5. 5.Department of Agricultural ChemistryTokyo University of AgricultureTokyoJapan

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