1887

Abstract

Minimal standards for describing new taxa within the aerobic endospore-forming bacteria are proposed, following Recommendation 30b of the Bacteriological Code (1990 Revision). These minimal standards are recommended as guidelines to assist authors in the preparation of descriptions for novel taxa. They encourage broad polyphasic characterization and the construction of descriptions that are practically useful in routine diagnostic laboratories. The proposals have been endorsed by the Subcommittee on the Taxonomy of the Genus and Related Organisms of the International Committee on Systematics of Prokaryotes.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.013649-0
2009-08-01
2019-11-13
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/59/8/2114.html?itemId=/content/journal/ijsem/10.1099/ijs.0.013649-0&mimeType=html&fmt=ahah

References

  1. Brill, J. A. & Wiegel, J. ( 1997; ). Differentiation between spore-forming and asporogenic bacteria using a PCR and Southern hybridization based method. J Microbiol Methods 31, 29–36.[CrossRef]
    [Google Scholar]
  2. Cerritos, R., Vinuesa, P., Eguiarte, L. E., Herrera-Estrella, L., Alcaraz-Peraza, L. D., Arvizu-Gómez, J. L., Olmedo, G., Ramirez, E., Siefert, J. L. & Souza, V. ( 2008; ). Bacillus coahuilensis sp. nov., a moderately halophilic species from a desiccation lagoon in the Cuatro Ciénegas Valley in Coahuila, Mexico. Int J Syst Evol Microbiol 58, 919–923.[CrossRef]
    [Google Scholar]
  3. Chun, J., Lee, J.-H., Jung, Y., Kim, M., Kim, S., Kim, B. K. & Lim, Y.-W. ( 2007; ). EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 57, 2259–2261.[CrossRef]
    [Google Scholar]
  4. Claus, D. & Berkeley, R. C. W. ( 1986; ). Genus Bacillus Cohn 1872. In Bergey's Manual of Systematic Bacteriology, vol. 2, pp. 1105–1139. Edited by P. H. A. Sneath, N. S. Mair, M. E. Sharpe & J. G. Holt. Baltimore: Williams & Wilkins.
  5. De Vos, P. & Trüper, H. G. ( 2000; ). Judicial Commission of the International Committee on Systematic Bacteriology. IXth International (IUMS) Congress of Bacteriology and Applied Microbiology. Minutes of the meetings, 14, 15 and 18 August 1999, Sydney, Australia. Int J Syst Evol Microbiol 50, 2239–2244.[CrossRef]
    [Google Scholar]
  6. Gordon, R. E., Haynes, W. C. & Pang, C. H.-N. ( 1973; ). The genus Bacillus. Agriculture Handbook no. 427. Washington, DC: US Department of Agriculture.
  7. Goris, J., Konstantinidis, K. T., Klappenbach, J. A., Coenye, T., Vandamme, P. & Tiedje, J. M. ( 2007; ). DNA–DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 57, 81–91.[CrossRef]
    [Google Scholar]
  8. Heylen, K., Vanparys, B., Wittebolle, L., Verstraete, W., Boon, N. & De Vos, P. ( 2006; ). Cultivation of denitrifying bacteria: optimization of isolation conditions and diversity study. Appl Environ Microbiol 72, 2637–2643.[CrossRef]
    [Google Scholar]
  9. Johansen, T., Carlson, C. R. & Kolstø, A.-B. ( 1996; ). Variable numbers of rRNA gene operons in Bacillus cereus strains. FEMS Microbiol Lett 136, 325–328.[CrossRef]
    [Google Scholar]
  10. Lapage, S. P., Sneath, P. H. A., Lessel, E. F., Skerman, V. B. D., Seeliger, H. P. R. & Clark, W. A. (editors) ( 1992; ). International Code of Nomenclature of Bacteria (1990 Revision). Bacteriological Code. Washington, DC: American Society for Microbiology.
  11. Logan, N. A. & De Vos, P. ( 2009; ). Genus Bacillus Cohn 1872. In Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 3. Edited by P. De Vos, G. M. Garrity, D. Jones, N. R. Krieg, W. Ludwig, F. A. Rainey, K. H. Schleifer & W. B. Whitman. New York: Springer (in press).
  12. Mota, F. F., Gomes, E. A., Paiva, E. & Seldin, L. ( 2005; ). Assessment of the diversity of Paenibacillus species in environmental samples by a novel rpoB-based PCR-DGGE method. FEMS Microbiol Ecol 53, 317–328.[CrossRef]
    [Google Scholar]
  13. Okamoto, K., Serror, P., Azevedo, V. & Vold, B. ( 1993; ). Physical mapping for stable RNA genes in Bacillus subtilis using polymerase chain-reaction amplification from a yeast artificial chromosome library. J Bacteriol 175, 4290–4297.
    [Google Scholar]
  14. Priest, F. G., Barker, M., Baillie, L. W. J., Holmes, E. C. & Maiden, M. C. J. ( 2004; ). Population structure and evolution of the Bacillus cereus group. J Bacteriol 186, 7959–7970.[CrossRef]
    [Google Scholar]
  15. Slabbinck, B., Dawyndt, P., Martens, M., De Vos, P. & De Baets, B. ( 2008; ). TaxonGap: a visualisation tool for intra- and inter-species variation among individual biomarkers. Bioinformatics 24, 866–867.[CrossRef]
    [Google Scholar]
  16. Sorokin, A., Candelon, B., Guilloux, K., Galleron, N., Wackerow-Kouzova, N., Dusko, S., Ehrlich, S., Bourguet, D. & Sanchis, V. ( 2006; ). Multiple-locus sequence typing analysis of Bacillus cereus and Bacillus thuringiensis reveals separate clustering and a distinct population structure of psychrotrophic strains. Appl Environ Microbiol 72, 1569–1578.[CrossRef]
    [Google Scholar]
  17. Stackebrandt, E. & Goebel, B. M. ( 1994; ). Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44, 846–849.[CrossRef]
    [Google Scholar]
  18. Stackebrandt, E., Frederiksen, W., Garrity, G. M., Grimont, P. A. D., Kämpfer, P., Maiden, M. C. J., Nesme, X., Rosselló-Mora, R., Swings, J. & other authors ( 2002; ). Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. Int J Syst Evol Microbiol 52, 1043–1047.[CrossRef]
    [Google Scholar]
  19. Tindall, B. J. ( 2008; ). Confirmation of deposit, but confirmation of what? Int J Syst Evol Microbiol 58, 1785–1787.[CrossRef]
    [Google Scholar]
  20. Tindall, B. J. & Garrity, G. M. ( 2008; ). Proposals to clarify how type strains are deposited and made available to the scientific community for the purpose of systematic research. Int J Syst Evol Microbiol 58, 1987–1990.[CrossRef]
    [Google Scholar]
  21. Tindall, B. J., Kämpfer, P., Euzéby, J. P. & Oren, A. ( 2006; ). Valid publication of names of prokaryotes according to the rules of nomenclature: past history and current practice. Int J Syst Evol Microbiol 56, 2715–2720.[CrossRef]
    [Google Scholar]
  22. Tourasse, N. J., Helgason, E., Økstad, O. A., Hegna, I. K. & Kolstø, A.-B. ( 2006; ). The Bacillus cereus group: novel aspects of population structure and genome dynamics. J Appl Microbiol 101, 579–593.[CrossRef]
    [Google Scholar]
  23. Wang, L.-T., Lee, F.-L., Tai, C.-J., Yokota, A. & Kuo, H.-P. ( 2007a; ). Reclassification of Bacillus axarquiensis Ruiz-Garcia et al. 2005 and Bacillus malacitensis Ruiz-Garcia et al. 2005 as later heterotypic synonyms of Bacillus mojavensis Roberts et al. 1994. Int J Syst Evol Microbiol 57, 1663–1667.[CrossRef]
    [Google Scholar]
  24. Wang, L.-T., Lee, F.-L., Tai, C.-J. & Kasai, H. ( 2007b; ). Comparison of gyrB gene sequences, 16S rRNA gene sequences and DNA–DNA hybridization in the Bacillus subtilis group. Int J Syst Evol Microbiol 57, 1846–1850.[CrossRef]
    [Google Scholar]
  25. 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. & other authors ( 1987; ). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37, 463–464.[CrossRef]
    [Google Scholar]
  26. Xu, D. & Côté, J. C. ( 2003; ). Phylogenetic relationships between Bacillus species and related genera inferred from comparison of 3′ end 16S rDNA and 5′ end 16S–23S ITS nucleotide sequences. Int J Syst Evol Microbiol 53, 695–704.[CrossRef]
    [Google Scholar]
  27. Yarza, P., Richter, M., Peplies, J., Euzéby, J., Amann, R., Schleifer, K.-H., Ludwig, W., Glöckner, F. O. & Rosselló-Mora, R. ( 2008; ). The all-species living tree project: a 16S rRNA-based phylogenetic tree of all sequenced type strains. Syst Appl Microbiol 31, 241–250.[CrossRef]
    [Google Scholar]
  28. Zeigler, D. R. ( 2005; ). Application of a recN sequence similarity analysis to the identification of species within the bacterial genus Geobacillus. Int J Syst Evol Microbiol 55, 1171–1179.[CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.013649-0
Loading
/content/journal/ijsem/10.1099/ijs.0.013649-0
Loading

Data & Media loading...

Supplements

An introduction to the taxonomy of aerobic, endospore-forming bacteria. [PDF](174 KB)

PDF

Accession numbers of 16S rRNA gene sequences recommended for use in comparative analyses of aerobic endospore-forming bacteria. [Excel file](77 KB).

EXCEL

Most Cited This Month

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error