The DOI matches its Crossref record; 39 of the 39 references it cites were found in a registry or an index.
The Bacterial Species Challenge: Making Sense of Genetic and Ecological Diversity
Abstract
The Bacteria and Archaea are the most genetically diverse superkingdoms of life, and techniques for exploring that diversity are only just becoming widespread. Taxonomists classify these organisms into species in much the same way as they classify eukaryotes, but differences in their biology—including horizontal gene transfer between distantly related taxa and variable rates of homologous recombination—mean that we still do not understand what a bacterial species is. This is not merely a semantic question; evolutionary theory should be able to explain why species exist at all levels of the tree of life, and we need to be able to define species for practical applications in industry, agriculture, and medicine. Recent studies have emphasized the need to combine genetic diversity and distinct ecology in an attempt to define species in a coherent and convincing fashion. The resulting data may help to discriminate among the many theories of prokaryotic species that have been produced to date.
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Cites
Escherichia Coli and Salmonella: Typhimurium Cellular and Molecular Biology
Neidhardt, F. C., & Ingraham, J. L. (1987) · Medical Entomology and Zoology · Cited by 4,089
Metagenomics: Application of Genomics to Uncultured Microorganisms
Handelsman, J. (2004) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.68.4.669-685.2004 · Cited by 2,441
Rusch, D. B., Halpern, A. L., Sutton, G., Heidelberg, K. B., Williamson, S., Yooseph, S., Wu, D., Eisen, J. A., Hoffman, J. M., Remington, K., et al. (2007) · PLoS Biology · doi:10.1371/journal.pbio.0050077 · Cited by 2,060
Smith, J. M., Smith, N. H., O'Rourke, M., & Spratt, B. G. (1993) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.90.10.4384 · Cited by 1,802
Self-citationReport of the ad hoc committee for the re-evaluation of the species definition in bacteriology.
Stackebrandt, E., Frederiksen, W., Garrity, G. M., Grimont, P. A. D., Kämpfer, P., Maiden, M. C. J., Nesme, X., Rosselló-Mora, R., Swings, J., Trüper, H. G., et al. (2002) · International Journal of Systematic and Evolutionary Microbiology · doi:10.1099/00207713-52-3-1043 · Cited by 1,540
Welch, R. A., Burland, V., Plunkett, G., Redford, P., Roesch, P., Rasko, D., Buckles, E. L., Liou, S.-R., Boutin, A., Hackett, J., et al. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.252529799 · Cited by 1,531
Genomic Islands in Pathogenic and Environmental Microorganisms
Dobrindt, U., Hochhut, B., Hentschel, U., & Hacker, J. (2004) · Nature Reviews Microbiology · doi:10.1038/nrmicro884 · Cited by 1,188
Re-evaluating prokaryotic species
Gevers, D., Cohan, F. M., Lawrence, J. G., Spratt, B. G., Coenye, T., Feil, E. J., Stackebrandt, E., de Peer, Y. V., Vandamme, P., Thompson, F. L., et al. (2005) · Nature Reviews Microbiology · doi:10.1038/nrmicro1236 · Cited by 1,122
Self-citationWhat Happened to the Streptococci: Overview of Taxonomic and Nomenclature Changes
Facklam, R. (2002) · Clinical Microbiology Reviews · doi:10.1128/cmr.15.4.613-630.2002 · Cited by 1,011
The genomic and epidemiological dynamics of human influenza A virus
Rambaut, A., Pybus, O. G., Nelson, M. I., Viboud, C., Taubenberger, J. K., & Holmes, E. C. (2008) · Nature · doi:10.1038/nature06945 · Cited by 925
Cited by
High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries
Jain, C., Rodriguez-R, L. M., Phillippy, A. M., Konstantinidis, K. T., & Aluru, S. (2018) · Nature Communications · doi:10.1038/s41467-018-07641-9 · Cited by 5,748
The integrative future of taxonomy
Padial, J. M., Miralles, A., De la Riva, I., & Vences, M. (2010) · Frontiers in Zoology · doi:10.1186/1742-9994-7-16 · Cited by 1,915
Beyond biogeographic patterns: processes shaping the microbial landscape
Hanson, C. A., Fuhrman, J. A., Horner-Devine, M. C., & Martiny, J. B. H. (2012) · Nature Reviews Microbiology · doi:10.1038/nrmicro2795 · Cited by 1,739
A complete domain-to-species taxonomy for Bacteria and Archaea
Parks, D. H., Chuvochina, M., Chaumeil, P.-A., Rinke, C., Mussig, A. J., & Hugenholtz, P. (2020) · Nature Biotechnology · doi:10.1038/s41587-020-0501-8 · Cited by 1,530
Diversity and evolution of class 2 CRISPR–Cas systems
Shmakov, S., Smargon, A., Scott, D., Cox, D., Pyzocha, N., Yan, W., Abudayyeh, O. O., Gootenberg, J. S., Makarova, K. S., Wolf, Y. I., et al. (2017) · Nature Reviews Microbiology · doi:10.1038/nrmicro.2016.184 · Cited by 1,029
Metadata
- Authors
- Fraser, C., Alm, E. J., Polz, M. F., Spratt, B. G., & Hanage, W. P.
- Venue
- Science
- Published
- 2009-02-06
- Volume
- 323
- Issue
- 5915
- Pages
- 741-746
- ISSN
- 0036-8075 (ISSN-L)
- 1095-9203
- OpenAlex
- W2066818550
- Cited by
- 414
- References
- 39
- FWCI
- 16.92
- Type
- journal article
- Language
- en
- Open access
- closed
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