Genomic epidemiology reveals multiple introductions of Zika virus into the United States

被引：239

作者：

Grubaugh, Nathan D. ^{[1
]}

Ladner, Jason T. ^{[2
]}

Kraemer, Moritz U. G. ^{[3
,4
,5
]}

Dudas, Gytis ^{[6
]}

Tan, Amanda L. ^{[7
]}

Gangavarapu, Karthik

Wiley, Michael R. ^{[2
,8
]}

White, Stephen ^{[9
]}

Theze, Julien ^{[3
]}

Magnani, Diogo M. ^{[10
]}

Prieto, Karla ^{[2
,8
]}

Reyes, Daniel ^{[2
,11
]}

Bingham, Andrea M. ^{[12
]}

Paul, Lauren M. ^{[7
]}

Robles-Sikisaka, Refugio ^{[1
]}

Oliveira, Glenn ^{[13
]}

Pronty, Darryl ^{[9
]}

Barcellona, Carolyn M.

Metsky, Hayden C. ^{[14
]}

Baniecki, Mary Lynn ^{[14
]}

Barnes, Kayla G. ^{[14
]}

Chak, Bridget ^{[14
]}

Freije, Catherine A. ^{[14
]}

Gladden-Young, Adrianne ^{[14
]}

Gnirke, Andreas ^{[14
]}

Luo, Cynthia ^{[14
]}

MacInnis, Bronwyn ^{[14
]}

Matranga, Christian B. ^{[14
]}

Park, Daniel J. ^{[14
]}

Qu, James ^{[14
]}

Schaffner, Stephen F. ^{[14
]}

Tomkins-Tinch, Christopher ^{[14
]}

West, Kendra L. ^{[14
]}

Winnicki, Sarah M. ^{[14
]}

Wohl, Shirlee ^{[14
]}

Yozwiak, Nathan L. ^{[14
]}

Quick, Joshua ^{[15
]}

Fauver, Joseph R. ^{[16
]}

Khan, Kamran ^{[17
,18
]}

Brent, Shannon E. ^{[17
]}

Reiner, Robert C., Jr. ^{[19
]}

Lichtenberger, Paola N. ^{[20
]}

Ricciardi, Michael J. ^{[10
]}

Bailey, Varian K. ^{[10
]}

Watkins, David I. ^{[10
]}

Cone, Marshall R. ^{[21
]}

Kopp, Edgar W. ^{[21
]}

Hogan, Kelly N. ^{[21
]}

Cannons, Andrew C. ^{[21
]}

Jean, Reynald ^{[22
]}

机构：

[1] Scripps Res Inst, Dept Immunol & Microbial Sci, La Jolla, CA 92037 USA

[2] US Army Med Res Inst Infect Dis, Ctr Genome Sci, Ft Detrick, MD 21702 USA

[3] Univ Oxford, Dept Zool, Oxford OX1 3PS, England

[4] Boston Childrens Hosp, Boston, MA 02115 USA

[5] Harbor Med Sch, Boston, MA 02115 USA

[6] Fred Hutchinson Canc Res Ctr, Vaccine & Infect Dis Div, 1124 Columbia St, Seattle, WA 98109 USA

[7] Florida Gulf Coast Univ, Coll Arts & Sci, Dept Biol Sci, Ft Myers, FL 33965 USA

[8] Univ Nebraska Med Ctr, Coll Publ Hlth, Omaha, NE 68198 USA

[9] Florida Dept Hlth, Bur Publ Hlth Labs, Div Dis Control & Hlth Protect, Miami, FL 33125 USA

[10] Univ Miami, Miller Sch Med, Dept Pathol, Miami, FL 33136 USA

[11] Univ Nebraska Med Ctr, Dept Pathol & Microbiol, Omaha, NE 68198 USA

[12] Florida Dept Hlth, Bur Epidemiol, Div Dis Control & Hlth Protect, Tallahassee, FL 32399 USA

[13] Scripps Translat Sci Inst, La Jolla, CA 92037 USA

[14] Broad Inst & Harvard, Cambridge, MA 02142 USA

[15] Univ Birmingham, Inst Microbiol & Infect, Birmingham B15 2TT, W Midlands, England

[16] Colorado State Univ, Dept Microbiol Immunol & Pathol, Ft Collins, CO 80523 USA

[17] St Michaels Hosp, Li Ka Shing Knowledge Inst, Toronto, ON M5B 1T8, Canada

[18] Univ Toronto, Dept Med, Div Infect Dis, Toronto, ON M5S 1A8, Canada

[19] Univ Washington, Inst Hlth Metr & Evaluat, Seattle, WA 98121 USA

[20] Univ Miami, Miller Sch Med, Div Infect Dis, Miami, FL 33136 USA

[21] Florida Dept Hlth, Bur Publ Hlth Labs, Div Dis Control & Hlth Protect, Tampa, FL 33612 USA

[22] Florida Dept Hlth Miami Dade Cty, Miami, FL 33125 USA

[23] Natl Ctr Atmospher Res, Boulder, CO 80307 USA

[24] Tulane Univ, Sch Med, Dept Microbiol & Immunol, 1430 Tulane Ave, New Orleans, LA 70112 USA

[25] Miami Dade Cty Mosquito Control, Miami, FL 33178 USA

[26] Univ Florida, Dept Biol, Gainesville, FL 32610 USA

[27] Univ Florida, Emerging Pathogens Inst, Gainesville, FL USA

[28] Univ Edinburgh, Inst Evolutionary Biol, Edinburgh EH9 3FL, Midlothian, Scotland

[29] NIH, Fogarty Int Ctr, Bldg 10, Bethesda, MD 20892 USA

[30] Harvard Univ, Dept Organism & Evolutionary Biol, Ctr Syst Biol, Cambridge, MA 02138 USA

[31] Harvard Univ, Harvard TH Chan Sch Publ Hlth, Dept Immunol & Infect Dis, Boston, MA 02115 USA

[32] Howard Hughes Med Inst, Chevy Chase, MD 20815 USA

[33] Scripps Res Inst, Dept Integrat Struct & Computat Biol, La Jolla, CA 92037 USA

来源：

NATURE | 2017年 / 546卷 / 7658期

关键词：

MAXIMUM-LIKELIHOOD; AEDES-AEGYPTI; SEQUENCE DATA; TRANSMISSION; AMERICA; DENGUE; INFECTION; OUTBREAK; FLORIDA; SPREAD;

D O I：

10.1038/nature22400

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Zika virus (ZIKV) is causing an unprecedented epidemic linked to severe congenital abnormalities(1,2). In July 2016, mosquito-borne ZIKV transmission was reported in the continental United States; since then, hundreds of locally acquired infections have been reported in Florida(3,4). To gain insights into the timing, source, and likely route(s) of ZIKV introduction, we tracked the virus from its first detection in Florida by sequencing ZIKV genomes from infected patients and Aedes aegypti mosquitoes. We show that at least 4 introductions, but potentially as many as 40, contributed to the outbreak in Florida and that local transmission is likely to have started in the spring of 2016-several months before its initial detection. By analysing surveillance and genetic data, we show that ZIKV moved among transmission zones in Miami. Our analyses show that most introductions were linked to the Caribbean, a finding corroborated by the high incidence rates and traffic volumes from the region into the Miami area. Our study provides an understanding of how ZIKV initiates transmission in new regions.

引用

页码：401 / +

页数：20

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