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Emergence and rapid transmission of SARS-CoV-2 B.1.1.7 in the United States.
Washington, Nicole L; Gangavarapu, Karthik; Zeller, Mark; Bolze, Alexandre; Cirulli, Elizabeth T; Schiabor Barrett, Kelly M; Larsen, Brendan B; Anderson, Catelyn; White, Simon; Cassens, Tyler; Jacobs, Sharoni; Levan, Geraint; Nguyen, Jason; Ramirez, Jimmy M; Rivera-Garcia, Charlotte; Sandoval, Efren; Wang, Xueqing; Wong, David; Spencer, Emily; Robles-Sikisaka, Refugio; Kurzban, Ezra; Hughes, Laura D; Deng, Xianding; Wang, Candace; Servellita, Venice; Valentine, Holly; De Hoff, Peter; Seaver, Phoebe; Sathe, Shashank; Gietzen, Kimberly; Sickler, Brad; Antico, Jay; Hoon, Kelly; Liu, Jingtao; Harding, Aaron; Bakhtar, Omid; Basler, Tracy; Austin, Brett; MacCannell, Duncan; Isaksson, Magnus; Febbo, Phillip G; Becker, David; Laurent, Marc; McDonald, Eric; Yeo, Gene W; Knight, Rob; Laurent, Louise C; de Feo, Eileen; Worobey, Michael; Chiu, Charles Y.
  • Washington NL; Helix, San Mateo, CA 94401, USA. Electronic address: nicole.washington@helix.com.
  • Gangavarapu K; Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA 92037, USA. Electronic address: gkarthik@scripps.edu.
  • Zeller M; Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA 92037, USA.
  • Bolze A; Helix, San Mateo, CA 94401, USA.
  • Cirulli ET; Helix, San Mateo, CA 94401, USA.
  • Schiabor Barrett KM; Helix, San Mateo, CA 94401, USA.
  • Larsen BB; Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721, USA.
  • Anderson C; Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA 92037, USA.
  • White S; Helix, San Mateo, CA 94401, USA.
  • Cassens T; Helix, San Mateo, CA 94401, USA.
  • Jacobs S; Helix, San Mateo, CA 94401, USA.
  • Levan G; Helix, San Mateo, CA 94401, USA.
  • Nguyen J; Helix, San Mateo, CA 94401, USA.
  • Ramirez JM; Helix, San Mateo, CA 94401, USA.
  • Rivera-Garcia C; Helix, San Mateo, CA 94401, USA.
  • Sandoval E; Helix, San Mateo, CA 94401, USA.
  • Wang X; Helix, San Mateo, CA 94401, USA.
  • Wong D; Helix, San Mateo, CA 94401, USA.
  • Spencer E; Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA 92037, USA.
  • Robles-Sikisaka R; Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA 92037, USA.
  • Kurzban E; Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA 92037, USA.
  • Hughes LD; Department of Integrative, Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92122, USA.
  • Deng X; Department of Laboratory Medicine, University of California, San Francisco, San Francisco, CA 94158, USA.
  • Wang C; Department of Laboratory Medicine, University of California, San Francisco, San Francisco, CA 94158, USA.
  • Servellita V; Department of Laboratory Medicine, University of California, San Francisco, San Francisco, CA 94158, USA.
  • Valentine H; University of California, San Diego, San Diego, CA 92093, USA.
  • De Hoff P; University of California, San Diego, San Diego, CA 92093, USA.
  • Seaver P; University of California, San Diego, San Diego, CA 92093, USA.
  • Sathe S; University of California, San Diego, San Diego, CA 92093, USA.
  • Gietzen K; Illumina, San Diego, CA 92122, USA.
  • Sickler B; Illumina, San Diego, CA 92122, USA.
  • Antico J; Illumina, San Diego, CA 92122, USA.
  • Hoon K; Illumina, San Diego, CA 92122, USA.
  • Liu J; Illumina, San Diego, CA 92122, USA.
  • Harding A; Sharp Healthcare, San Diego, CA 92111, USA.
  • Bakhtar O; Sharp Healthcare, San Diego, CA 92111, USA.
  • Basler T; San Diego County Health and Human Services Agency, San Diego, CA 92101, USA.
  • Austin B; San Diego County Health and Human Services Agency, San Diego, CA 92101, USA.
  • MacCannell D; Office of Advanced Molecular Detection, Centers for Disease Control and Prevention, Atlanta, GA 30329, USA.
  • Isaksson M; Helix, San Mateo, CA 94401, USA.
  • Febbo PG; Illumina, San Diego, CA 92122, USA.
  • Becker D; Helix, San Mateo, CA 94401, USA.
  • Laurent M; Helix, San Mateo, CA 94401, USA.
  • McDonald E; San Diego County Health and Human Services Agency, San Diego, CA 92101, USA.
  • Yeo GW; University of California, San Diego, San Diego, CA 92093, USA.
  • Knight R; University of California, San Diego, San Diego, CA 92093, USA.
  • Laurent LC; University of California, San Diego, San Diego, CA 92093, USA.
  • de Feo E; Illumina, San Diego, CA 92122, USA.
  • Worobey M; Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721, USA.
  • Chiu CY; Department of Laboratory Medicine, University of California, San Francisco, San Francisco, CA 94158, USA; Innovative Genomics Institute, Berkeley, CA 94720, USA.
Cell ; 184(10): 2587-2594.e7, 2021 05 13.
Article in English | MEDLINE | ID: covidwho-1157175
ABSTRACT
The highly transmissible B.1.1.7 variant of SARS-CoV-2, first identified in the United Kingdom, has gained a foothold across the world. Using S gene target failure (SGTF) and SARS-CoV-2 genomic sequencing, we investigated the prevalence and dynamics of this variant in the United States (US), tracking it back to its early emergence. We found that, while the fraction of B.1.1.7 varied by state, the variant increased at a logistic rate with a roughly weekly doubling rate and an increased transmission of 40%-50%. We revealed several independent introductions of B.1.1.7 into the US as early as late November 2020, with community transmission spreading it to most states within months. We show that the US is on a similar trajectory as other countries where B.1.1.7 became dominant, requiring immediate and decisive action to minimize COVID-19 morbidity and mortality.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 / Models, Biological Type of study: Observational study / Prognostic study Topics: Variants Limits: Female / Humans / Male Country/Region as subject: North America Language: English Journal: Cell Year: 2021 Document Type: Article

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Full text: Available Collection: International databases Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 / Models, Biological Type of study: Observational study / Prognostic study Topics: Variants Limits: Female / Humans / Male Country/Region as subject: North America Language: English Journal: Cell Year: 2021 Document Type: Article