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PMID: 21037571 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity.

Nature genetics ·Vol. 42 ·No. 12 ·2010-12-00 ·Pages 1140-3

Morelli G, Song Y, Mazzoni CJ, Eppinger M, Roumagnac P, Wagner DM, Feldkamp M, Kusecek B, Vogler AJ, Li Y, Cui Y, Thomson NR, Jombart T, Leblois R, Lichtner P, Rahalison L, Petersen JM, Balloux F, Keim P, Wirth T, Ravel J, Yang R, Carniel E, Achtman M

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.

MeSH Terms
Genetic Variation Genome, Bacterial/genetics Phylogeny Plague/microbiology,transmission Polymorphism, Single Nucleotide/genetics Sequence Analysis, DNA Yersinia pestis/genetics,isolation & purification
Authors & Affiliations
24 authors, click to expand affiliations / ORCID
Morelli Giovanna
Max-Planck-Institut für Infektionsbiologie, Department of Molecular Biology, Berlin, Germany.
Song Yajun
Mazzoni Camila J
Eppinger Mark
Roumagnac Philippe
Wagner David M
Feldkamp Mirjam
Kusecek Barica
Vogler Amy J
Li Yanjun
Cui Yujun
Thomson Nicholas R
Jombart Thibaut
Leblois Raphael
Lichtner Peter
Rahalison Lila
Petersen Jeannine M
Balloux Francois
Keim Paul
Wirth Thierry
Ravel Jacques
Yang Ruifu
Carniel Elisabeth
Achtman Mark
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Article Info
Journal
Nature genetics
Abbr.
Nat Genet
ISSN
1546-1718
DOI
10.1038/ng.705
Published
2010-12-00
Epub
2010-00-31
Pages
1140-3
Language
English
Region
United States
NLM ID
9216904
PMCID
PMC2999892
Subset
IM
Grants
NIAID NIH HHS · AI065359 · United States
Wellcome Trust · United Kingdom
NIAID NIH HHS · U54 AI065359 · United States
Science Foundation Ireland · 05/FE1/B882 · Ireland
NIAID NIH HHS · N01 AI030071 · United States
External Links
PubMed source DOI: 10.1038/ng.705 PMC Full Text View journal details
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