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Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity
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(2010) Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity. Nature Genetics, 42 (12). pp. 1140-1143. doi:10.1038/ng.705
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Official URL: http://dx.doi.org/10.1038/ng.705
Abstract
Plague is a pandemic human invasive disease caused by the bacterial agent Yersinia pestis. We here report a comparison of 17 whole genomes of Y. pestis isolates from global sources. We also screened a global collection of 286 Y. pestis isolates for 933 SNPs using Sequenom MassArray SNP typing. We conducted phylogenetic analyses on this sequence variation dataset, assigned isolates to populations based on maximum parsimony and, from these results, made inferences regarding historical transmission routes. Our phylogenetic analysis suggests that Y. pestis evolved in or near China and spread through multiple radiations to Europe, South America, Africa and Southeast Asia, leading to country-specific lineages that can be traced by lineage-specific SNPs. All 626 current isolates from the United States reflect one radiation, and 82 isolates from Madagascar represent a second radiation. Subsequent local microevolution of Y. pestis is marked by sequential, geographically specific SNPs.
| Item Type: | Journal Article | ||||
|---|---|---|---|---|---|
| Alternative Title: | Phylogenetic diversity and historical patterns of pandemic spread of Yersinia pestis | ||||
| Subjects: | Q Science > QR Microbiology | ||||
| Divisions: | Faculty of Medicine > Warwick Medical School > Biomedical Sciences > Microbiology & Infection Faculty of Medicine > Warwick Medical School |
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| Library of Congress Subject Headings (LCSH): | Plague -- Genetic aspects, Yersinia pestis , Phylogeography | ||||
| Journal or Publication Title: | Nature Genetics | ||||
| Publisher: | Nature Publishing Group | ||||
| ISSN: | 1061-4036 | ||||
| Official Date: | 2010 | ||||
| Dates: |
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| Date of first compliant deposit: | 5 October 2016 | ||||
| Volume: | 42 | ||||
| Number: | 12 | ||||
| Page Range: | pp. 1140-1143 | ||||
| DOI: | 10.1038/ng.705 | ||||
| Status: | Peer Reviewed | ||||
| Publication Status: | Published | ||||
| Access rights to Published version: | Restricted or Subscription Access | ||||
| Description: | Zip file available with all the supplementary tables and figures and the R script for the 2011 Nature Genetics manuscript [http://wrap.warwick.ac.uk/81946]. |
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| Funder: | Germany. Deutsch Sanitätstruppe [German Medical Corps], Science Foundation Ireland (SFI), National Key Program for Infectious Diseases of China, State Key Development Program for Basic Research of China, United States. Department of Homeland Security, National Institutes of Health (U.S.) (NIH), Wellcome Trust (London, England), Centers for Disease Control and Prevention (U.S.) (CDC) | ||||
| Grant number: | MSAB15A013 (Deutsch Sanitätstruppe), 05/FE1/B882 (SFI), 2008ZX10004009 (Key Program for Infectious Diseases), 2009CB522600 (Basic Research), NBCH2070001; HSHQDC-08- C00158 (Homeland Security), AI065359, N01AI-30071 (NIH), | ||||
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