The DOI matches its Crossref record; 5 of the 5 references it cites were found in a registry or an index.
Genome-Wide Analysis of Synonymous Single Nucleotide Polymorphisms in Mycobacterium tuberculosis Complex Organisms: Resolution of Genetic Relationships Among Closely Related Microbial Strains
Open accessAbstract
Several human pathogens (e.g., Bacillus anthracis, Yersinia pestis, Bordetella pertussis, Plasmodium falciparum, and Mycobacterium tuberculosis) have very restricted unselected allelic variation in structural genes, which hinders study of the genetic relationships among strains and strain-trait correlations. To address this problem in a representative pathogen, 432 M. tuberculosis complex strains from global sources were genotyped on the basis of 230 synonymous (silent) single nucleotide polymorphisms (sSNPs) identified by comparison of four genome sequences. Eight major clusters of related genotypes were identified in M. tuberculosis sensu stricto, including a single cluster representing organisms responsible for several large outbreaks in the United States and Asia. All M. tuberculosis sensu stricto isolates of previously unknown phylogenetic position could be rapidly and unambiguously assigned to one of the eight major clusters, thus providing a facile strategy for identifying organisms that are clonally related by descent. Common clones of M. tuberculosis sensu stricto and M. bovis are distinct, deeply branching genotypic complexes whose extant members did not emerge directly from one another in the recent past. sSNP genotyping rapidly delineates relationships among closely related strains of pathogenic microbes and allows construction of genetic frameworks for examining the distribution of biomedically relevant traits such as virulence, transmissibility, and host range.
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Cites
Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence
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Lateral gene transfer and the nature of bacterial innovation
Ochman, H., Lawrence, J. G., & Groisman, E. A. (2000) · Nature · doi:10.1038/35012500 · Cited by 3,816
High-resolution haplotype structure in the human genome
Daly, M. J., Rioux, J. D., Schaffner, S. F., Hudson, T. J., & Lander, E. S. (2001) · Nature Genetics · doi:10.1038/ng1001-229 · Cited by 1,717
Haplotype tagging for the identification of common disease genes
Johnson, G. C. L., Esposito, L., Barratt, B. J., Smith, A. N., Heward, J., Di Genova, G., Ueda, H., Cordell, H. J., Eaves, I. A., Dudbridge, F., et al. (2001) · Nature Genetics · doi:10.1038/ng1001-233 · Cited by 1,174
Yersinia pestis , the cause of plague, is a recently emerged clone of Yersinia pseudotuberculosis
Achtman, M., Zurth, K., Morelli, G., Torrea, G., Guiyoule, A., & Carniel, E. (1999) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.96.24.14043 · Cited by 1,126
Cited by
Ancient Origin and Gene Mosaicism of the Progenitor of Mycobacterium tuberculosis
Gutierrez, M. C., Brisse, S., Brosch, R., Fabre, M., Omaïs, B., Marmiesse, M., Supply, P., & Vincent, V. (2005) · PLoS Pathogens · doi:10.1371/journal.ppat.0010005 · Cited by 646
Origin, Spread and Demography of the Mycobacterium tuberculosis Complex
Wirth, T., Hildebrand, F., Allix-Béguec, C., Wölbeling, F., Kubica, T., Kremer, K., van Soolingen, D., Rüsch-Gerdes, S., Locht, C., Brisse, S., et al. (2008) · PLoS Pathogens · doi:10.1371/journal.ppat.1000160 · Cited by 473
Consequences of genomic diversity in Mycobacterium tuberculosis
Coscolla, M., & Gagneux, S. (2014) · Seminars in Immunology · doi:10.1016/j.smim.2014.09.012 · Cited by 451
Microevolution and history of the plague bacillus, Yersinia pestis
Achtman, M., Morelli, G., Zhu, P., Wirth, T., Diehl, I., Kusecek, B., Vogler, A. J., Wagner, D. M., Allender, C. J., Easterday, W. R., et al. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0408026101 · Cited by 440
Comparisons of dN/dS are time dependent for closely related bacterial genomes
Rocha, E. P. C., Smith, J. M., Hurst, L. D., Holden, M. T. G., Cooper, J. E., Smith, N. H., & Feil, E. J. (2006) · Journal of Theoretical Biology · doi:10.1016/j.jtbi.2005.08.037 · Cited by 428
Metadata
- Authors
- Gutacker, M. M., Smoot, J. C., Migliaccio, C. A. L., Ricklefs, S. M., Hua, S., Cousins, D. V., Graviss, E. A., Shashkina, E., Kreiswirth, B. N., & Musser, J. M.
- Venue
- Genetics
- Publisher
- Oxford University Press (OUP)
- Published
- 2002-12-01
- Volume
- 162
- Issue
- 4
- Pages
- 1533-1543
- ISSN
- 0016-6731 (ISSN-L)
- 1943-2631
- OpenAlex
- W1922405592
- Cited by
- 237
- References
- 5
- FWCI
- 10.23
- Type
- journal article
- Language
- en
- Open access
- bronze
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- CoChat. (2026). Citation check: Genome-Wide Analysis of Synonymous Single Nucleotide Polymorphisms in Mycobacterium tuberculosis Complex Organisms: Resolution of Genetic Relationships Among Closely Related Microbial Strains. https://app.cochat.ai/papers/10.1093/genetics/162.4.1533
- The paper
- Gutacker, M. M., Smoot, J. C., Migliaccio, C. A. L., Ricklefs, S. M., Hua, S., Cousins, D. V., Graviss, E. A., Shashkina, E., Kreiswirth, B. N., & Musser, J. M. (2002). Genome-Wide Analysis of Synonymous Single Nucleotide Polymorphisms in Mycobacterium tuberculosis Complex Organisms: Resolution of Genetic Relationships Among Closely Related Microbial Strains. Genetics. https://doi.org/10.1093/genetics/162.4.1533
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Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
