Genomic surveillance reveals multiple introductions of SARS-CoV-2 into Northern California | Zendy

Xianding Deng | Zendy; Wei Gu | Zendy; Scot Federman | Zendy; Louis du Plessis | Zendy; Oliver G. Pybus | Zendy; Nuno R. Faria | Zendy; Candace Wang | Zendy; Guixia Yu | Zendy; Brian Bushnell | Zendy; ChaoYang Pan | Zendy; Hugo Guevara | Zendy; Alicia Sotomayor-González | Zendy; Kelsey C. Zorn | Zendy; Allan Gopez | Zendy; Venice Servellita | Zendy; Elaine Hsu | Zendy; Steve Miller | Zendy; Trevor Bedford | Zendy; Alexander L. Greninger | Zendy; Pavitra Roychoudhury | Zendy; Lea M. Starita | Zendy; Michael Famulare | Zendy; Helen Y. Chu | Zendy; Jay Shendure | Zendy; Keith R. Jerome | Zendy; Catelyn Anderson | Zendy; Karthik Gangavarapu | Zendy; Mark Zeller | Zendy; Emily Spencer | Zendy; Kristian G. Andersen | Zendy; Duncan MacCannell | Zendy; Clinton R. Paden | Zendy; Yan Li | Zendy; Jing Zhang | Zendy; Suxiang Tong | Zendy; Gregory L. Armstrong | Zendy; Scott Morrow | Zendy; Matthew Willis | Zendy; Bela T. Matyas | Zendy; Sundari Mase | Zendy; Olivia Kasirye | Zendy; Maggie Park | Zendy; Godfred Masinde | Zendy; Curtis Chan | Zendy; Alexander T. Yu | Zendy; Shua J. Chai | Zendy; Elsa Villarino | Zendy; Brandon Bonin | Zendy; Debra A. Wadford | Zendy; Charles Y. Chiu | Zendy

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Genomic surveillance reveals multiple introductions of SARS-CoV-2 into Northern California

Author(s) -

Xianding Deng,

Wei Gu,

Scot Federman,

Louis du Plessis,

Oliver G. Pybus,

Nuno R. Faria,

Candace Wang,

Guixia Yu,

Brian Bushnell,

ChaoYang Pan,

Hugo Guevara,

Alicia Sotomayor-González,

Kelsey C. Zorn,

Allan Gopez,

Venice Servellita,

Elaine Hsu,

Steve Miller,

Trevor Bedford,

Alexander L. Greninger,

Pavitra Roychoudhury,

Lea M. Starita,

Michael Famulare,

Helen Y. Chu,

Jay Shendure,

Keith R. Jerome,

Catelyn Anderson,

Karthik Gangavarapu,

Mark Zeller,

Emily Spencer,

Kristian G. Andersen,

Duncan MacCannell,

Clinton R. Paden,

Yan Li,

Jing Zhang,

Suxiang Tong,

Gregory L. Armstrong,

Scott Morrow,

Matthew Willis,

Bela T. Matyas,

Sundari Mase,

Olivia Kasirye,

Maggie Park,

Godfred Masinde,

Curtis Chan,

Alexander T. Yu,

Shua J. Chai,

Elsa Villarino,

Brandon Bonin,

Debra A. Wadford,

Charles Y. Chiu

Publication year - 2020

Publication title -

science

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 12.556

H-Index - 1186

eISSN - 1095-9203

pISSN - 0036-8075

DOI - 10.1126/science.abb9263

Subject(s) - covid-19 , biology , betacoronavirus , pandemic , sars virus , virology , geography , coronavirus infections , genetics , evolutionary biology , outbreak , medicine , infectious disease (medical specialty) , disease , pathology

The coronavirus disease 2019 (COVID-19) pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has spread globally, with >365,000 cases in California as of 17 July 2020. We investigated the genomic epidemiology of SARS-CoV-2 in Northern California from late January to mid-March 2020, using samples from 36 patients spanning nine counties and the Grand Princess cruise ship. Phylogenetic analyses revealed the cryptic introduction of at least seven different SARS-CoV-2 lineages into California, including epidemic WA1 strains associated with Washington state, with lack of a predominant lineage and limited transmission among communities. Lineages associated with outbreak clusters in two counties were defined by a single base substitution in the viral genome. These findings support contact tracing, social distancing, and travel restrictions to contain the spread of SARS-CoV-2 in California and other states.

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