Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity

被引：375

作者：

Morelli, Giovanna ^{[2
]}

Song, Yajun ^{[1
,3
]}

Mazzoni, Camila J. ^{[2
,3
]}

Eppinger, Mark ^{[4
]}

Roumagnac, Philippe ^{[2
,5
]}

Wagner, David M. ^{[6
]}

Feldkamp, Mirjam ^{[2
]}

Kusecek, Barica ^{[2
]}

Vogler, Amy J. ^{[6
]}

Li, Yanjun ^{[1
]}

Cui, Yujun ^{[1
]}

Thomson, Nicholas R. ^{[7
]}

Jombart, Thibaut ^{[8
]}

Leblois, Raphael ^{[9
]}

Lichtner, Peter ^{[10
]}

Rahalison, Lila ^{[11
]}

Petersen, Jeannine M. ^{[12
]}

Balloux, Francois ^{[8
]}

Keim, Paul ^{[13
]}

Wirth, Thierry ^{[9
]}

Ravel, Jacques ^{[4
]}

Yang, Ruifu ^{[1
]}

Carniel, Elisabeth ^{[14
]}

Achtman, Mark ^{[2
,3
,15
]}

机构：

[1] Beijing Inst Microbiol & Epidemiol, State Key Lab Pathogen & Biosecur, Beijing, Peoples R China

[2] Max Planck Inst Infekt Biol, Dept Mol Biol, Berlin, Germany

[3] Univ Coll Cork, Environm Res Inst, Cork, Ireland

[4] Univ Maryland, Sch Med, Inst Genome Sci, Baltimore, MD 21201 USA

[5] Ctr Cooprat Int Rech Agron Dev, Mixte Res Unit Biol & Genet Plant Pathogen Intera, Montpellier, France

[6] No Arizona Univ, Dept Biol Sci, Flagstaff, AZ 86011 USA

[7] Wellcome Trust Sanger Inst, Cambridge, England

[8] Univ London Imperial Coll Sci Technol & Med, Fac Med, MRC, Ctr Outbreak Anal & Modeling, London, England

[9] Museum Natl Hist Nat, CNRS, Ecole Prat Hautes Etud, Dept Systemat & Evolut,UMR 7205, Paris, France

[10] German Res Ctr Environm Hlth, Inst Human Genet, Neuherberg, Germany

[11] Inst Pasteur Madagascar, Unite Peste, Antananarivo, Madagascar

[12] Ctr Dis Control & Prevent, Div Vector Borne Infect Dis, Ft Collins, CO USA

[13] Translat Genom Res Inst, Pathogen Genom Div, Phoenix, AZ USA

[14] Inst Pasteur, Yersinia Res Unit, Paris, France

[15] Univ Coll Cork, Dept Microbiol, Cork, Ireland

来源：

NATURE GENETICS | 2010年 / 42卷 / 12期

基金：

爱尔兰科学基金会; 英国惠康基金;

关键词：

EVOLUTION; INSIGHTS; STRAIN; PHYLOGEOGRAPHY; DYNAMICS; SPREAD; PLAGUE;

D O I：

10.1038/ng.705

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

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.

引用

页码：1140 / +

页数：5

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