Evidence that Belongs in Subgroup Gamma of the Class , Not in the Genus : Partial Sequence Analysis of a 16S rRNA Gene Free

Abstract

The taxonomic status of the anaerobe has for some time been uncertain. To resolve this uncertainty, the distal portion of a 16S rRNA gene from this important ovine pathogen was cloned, mapped, and sequenced. A comparison of the sequence with the sequences of 16S rRNA molecules from other bacteria indicated that is more closely related to and other members of the class than to or the bacteroides-flavobacterium-cytophaga phylum. The evidence from the comparison of sequence signatures suggests that is not a member of the genus but that it belongs in subgroup γ of the class .

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1990-04-01
2024-03-29
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References

  1. Anderson B. J., Bills M. M., Egerton J. R., Mattick J. S. 1984; Cloning and expression in Escherichia coli of the gene encoding the structural subunit of Bacteroides nodosus fimbriae. J. Bacteriol. 160:748–754
    [Google Scholar]
  2. Arrand J. E. 1985 Preparation of nucleic acid probes. 34–37 Hames B. D., Higgins S. J.ed Nucleic acid hybridization. A practical approach IRL Press; Oxford:
    [Google Scholar]
  3. Beveridge W. I. B. 1941 Footrot in sheep: a transmissible disease due to infection with Fusiformis nodosus. Council for Scientific and Industrial Research Bulletin no. 140. Council for Scientific and Industrial Research; Melbourne, Australia:
    [Google Scholar]
  4. Birnboim H. C., Doly J. 1979; A rapid alkaline extraction procedure for screening recombinant plasmid DNA. Nucleic Acids Res. 7:1513–1523
    [Google Scholar]
  5. Brosius J., Palmer M. L., Kennedy P. J., Noller H. F. 1978; Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli. Proc. Natl. Acad. Sci. USA 75:48014805
    [Google Scholar]
  6. Carbon P., Ebel J. P., Ehresman C. 1981; The sequences of the ribosomal 16S RNA from Proteus vulgaris. Sequence comparison with E. coli 16S RNA and its use in secondary structure model building. Nucleic Acids Res. 9:2325–2333
    [Google Scholar]
  7. Casadaban M. J., Cohen S. N. 1980; Analysis of gene control signals by DNA fusion and cloning in Escherichia coli. J. Mol. Biol. 138:179–207
    [Google Scholar]
  8. Claxton P. D., Ribeiro L. A., Egerton J. R. 1983; Classification of Bacteroides nodosus by agglutination tests. Aust. Vet. J. 60:331–334
    [Google Scholar]
  9. Cowan S. T., Steel K. J. 1974 Manual for identification of medical bacteria. , 2nd ed.. Cambridge University Press; Cambridge:
    [Google Scholar]
  10. Crouse J., Amorese D. 1987; Ethanol precipitation: ammonium acetate as an alternative to sodium acetate. Focus 9:3–5
    [Google Scholar]
  11. Dalrymple B., Mattick J. S. 1987; An analysis of the organization and evolution of type 4 fimbrial (MePhe) subunit proteins. J. Mol. Evol. 25:261–269
    [Google Scholar]
  12. Dewhirst F. E., Paster B. J., Bright P. L. 1989; Chromobacterium, Eikenella, Kingella, Neisseria, Simonsiella, and Vitreoscilla species comprise a major branch of the beta group Proteobacteria by 16S ribosomal ribonucleic acid sequence comparison: transfer of Eikenella and Simonsiella to the family Neisseriaceae (emend). Int. J. Syst. Bacteriol. 39:258–266
    [Google Scholar]
  13. Egerton J. R., Roberts D. S., Parsonson I. M. 1969; The aetiology and pathogenesis of ovine footrot. I. A histological study of the bacterial invasion. J. Comp. Pathol. 79:207–215
    [Google Scholar]
  14. Emery D. L. 1988 Approaches to identify and neutralize virulence determinants of Fusobacterium and Bacteroides spp.. 243–362 Roth J. A.ed Virulence mechanisms of bacterial pathogens American Society for Microbiology; Washington, D.C:
    [Google Scholar]
  15. Fourney R. M., Miyakoshi J., Day R. S. III, Paterson M. C. 1988; Northern blotting: efficient RNA staining and transfer. Focus 10:5–7
    [Google Scholar]
  16. Grunstein M., Hogness D. S. 1975; Colony hybridization: a method for the isolation of cloned DNAs that contain a specific gene. Proc. Natl. Acad. Sci. USA 72:3961–3965
    [Google Scholar]
  17. Holmes D. S., Quigley M. 1981; A rapid boiling method for the preparation of bacterial plasmids. Anal. Biochem. 114:193–197
    [Google Scholar]
  18. Maniatis T., Fristch E. F., Sambrook J. 1982 Molecular cloning. A laboratory manual. Cold Spring Harbor Laboratory; Cold Spring Harbor, N.Y:
    [Google Scholar]
  19. Martens B., Spiegl H., Stackebrandt E. 1987; Sequence of a 16S ribosomal RNA gene of Ruminobacter amylophilus: the relation between homology values and similarity coefficients. Syst. Appl. Microbiol. 9:224–230
    [Google Scholar]
  20. Meinkoth J., Wahl G. 1984; Hybridization of nucleic acids immobilized on solid supports. Anal. Biochem. 138:267–284
    [Google Scholar]
  21. Moses E. K., Rood J. I., Yong W. K., Riffkin G. G. 1989; Molecular analysis of one of multiple protease-encoding genes from the prototype virulent strain of Bacteroides nodosus. Gene 77:219–228
    [Google Scholar]
  22. Paster B. J., Dewhirst F. E. 1988; Phylogeny of Campylobacters, wolinellas, Bacteroides gracilis, and Bacteroides ure-olyticus by 16S ribosomal ribonucleic acid sequencing. Int. J. Syst. Bacteriol. 38:56–62
    [Google Scholar]
  23. Paster B. J., Ludwig W., Weisburg W. G., Stackebrandt E., Hespell R. B., Hahn C. M., Reichenbach H., Stetter K. O., Woese C. R. 1985; A phylogenetic grouping of the bacteroides, cytophagas and certain flavobacteria. Syst. Appl. Microbiol. 6:34–42
    [Google Scholar]
  24. Rossau R., Heyndrickx L., van Heuverswyn H. 1988; Nucleotide sequence of a 16S ribosomal RNA gene from Neisseria gonorhoeae. Nucleic Acids Res. 16:6227
    [Google Scholar]
  25. Shah H. N., Collins M. D. 1983; Genus Bacteroides. A chemotaxonomical perspective. J. Appl. Bacteriol. 55:403–416
    [Google Scholar]
  26. Shah H. N., Collins M. D. 1989; Proposal to restrict the genus Bacteroides (Castellani and Chalmers) to Bacteroides fragilis and closely related species. Int. J. Syst. Bacteriol. 39:85–87
    [Google Scholar]
  27. Shine J., Dalgarno L. 1974; The 3′-terminal sequence of Escherichia coli 16S ribosomal RNA: complementarity to nonsense triplets and ribosome binding sites. Proc. Natl. Acad. Sci. USA 71:1342–1346
    [Google Scholar]
  28. Skerman T. M. 1975; Determination of some in vitro growth requirements of Bacteroides nodosus. J. Gen. Microbiol. 87:107–119
    [Google Scholar]
  29. Southern E. M. 1975; Detection of specific sequences among DNA fragments separated by gel electrophoresis. J. Mol. Biol. 98:503–517
    [Google Scholar]
  30. Stackebrandt E., Murray R. G. E., Tniper H. G. 1988; Proteobacteria classis nov., a name for the phylogenetic taxon that includes the “purple bacteria and their relatives.”. Int. J. Syst. Bacteriol. 38:321–325
    [Google Scholar]
  31. Stewart D. J., Clark B. L., Jarret R. G. 1984; Differences between strains of Bacteroides nodosus in their effects on the severity of footrot, body weight and wool growth in Merino sheep. Aust. Vet. J. 61:349–352
    [Google Scholar]
  32. Struhl K. 1985; A rapid method for creating recombinant DNA molecules. Biotechniques 3:452–453
    [Google Scholar]
  33. Thomas J. H. 1958; A simple medium for the isolation and cultivation of Fusiformis nodosus. Aust. Vet. J. 34:411
    [Google Scholar]
  34. Toschka H., Hopfl P., Ludwig W., Schleifer K. H., Ulbrich N., Erdmann V. A. 1988; Complete nucleotide sequence of a 16S ribosomal RNA gene from Pseudomonas aeruginosa. Nucleic Acids Res. 16:2348
    [Google Scholar]
  35. Van den Eynde H., de Baere R., Shah H. S., Gharbia S. E., Fox G. E., Michalik J., Van de Peer Y., de Wachter R. 1989; 5S ribosomal ribonucleic acid sequences in Bacteroides and Fusobacteriunv. evolutionary relationships within these genera and among eubacteria in general. Int. J. Syst. Bacteriol. 39:78–84
    [Google Scholar]
  36. Vieira J., Messing J. 1982; The pUC plasmids, an M13mp7-derived system for insertion mutagenesis and sequencing with synthetic universal primers. Gene 19:259–268
    [Google Scholar]
  37. von Gabain A., Belasco J. G., Schottel J. L., Chang A. C. Y., Cohen S. N. 1983; Decay of mRNA in Escherichia coli: investigation of the fate of specific segments of transcripts. Proc. Natl. Acad. Sci. USA 80:653–657
    [Google Scholar]
  38. Weisburg W. G., Oyaizu Y., Oyaizu H., Woese C. R. 1985; Natural relationship between bacteroides and flavobacteria. J. Bacteriol. 164:230–236
    [Google Scholar]
  39. Woese C. R. 1987; Bacterial evolution. Microbiol. Rev. 51:221–271
    [Google Scholar]
  40. Woese C. R., Weisburg W. G., Hahn C. M., Paster B. J., Zablen L. B., Lewis B. J., Macke T. J., Ludwig W., Stacke-brandt E. 1985; The phylogeny of purple bacteria: the gamma subdivision. Syst. Appl. Microbiol. 6:25–33
    [Google Scholar]
  41. Yanisch-Perron C., Vieira J., Messing J. 1985; Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mpl8 and pUC19 vectors. Gene 33:103–119
    [Google Scholar]
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