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Cryptic transmission of SARS-CoV-2 in Washington state.
Bedford, Trevor; Greninger, Alexander L; Roychoudhury, Pavitra; Starita, Lea M; Famulare, Michael; Huang, Meei-Li; Nalla, Arun; Pepper, Gregory; Reinhardt, Adam; Xie, Hong; Shrestha, Lasata; Nguyen, Truong N; Adler, Amanda; Brandstetter, Elisabeth; Cho, Shari; Giroux, Danielle; Han, Peter D; Fay, Kairsten; Frazar, Chris D; Ilcisin, Misja; Lacombe, Kirsten; Lee, Jover; Kiavand, Anahita; Richardson, Matthew; Sibley, Thomas R; Truong, Melissa; Wolf, Caitlin R; Nickerson, Deborah A; Rieder, Mark J; Englund, Janet A; Hadfield, James; Hodcroft, Emma B; Huddleston, John; Moncla, Louise H; Müller, Nicola F; Neher, Richard A; Deng, Xianding; Gu, Wei; Federman, Scot; Chiu, Charles; Duchin, Jeffrey S; Gautom, Romesh; Melly, Geoff; Hiatt, Brian; Dykema, Philip; Lindquist, Scott; Queen, Krista; Tao, Ying; Uehara, Anna; Tong, Suxiang.
  • Bedford T; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA. tbedford@fredhutch.org.
  • Greninger AL; Brotman Baty Institute for Precision Medicine, Seattle, WA, USA.
  • Roychoudhury P; Department of Genome Sciences, University of Washington, Seattle, WA, USA.
  • Starita LM; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
  • Famulare M; Department of Laboratory Medicine and Pathology, University of Washington, Seattle, WA, USA.
  • Huang ML; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
  • Nalla A; Department of Laboratory Medicine and Pathology, University of Washington, Seattle, WA, USA.
  • Pepper G; Brotman Baty Institute for Precision Medicine, Seattle, WA, USA.
  • Reinhardt A; Department of Genome Sciences, University of Washington, Seattle, WA, USA.
  • Xie H; Institute for Disease Modeling, Bellevue, WA, USA.
  • Shrestha L; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
  • Nguyen TN; Department of Laboratory Medicine and Pathology, University of Washington, Seattle, WA, USA.
  • Adler A; Department of Laboratory Medicine and Pathology, University of Washington, Seattle, WA, USA.
  • Brandstetter E; Department of Laboratory Medicine and Pathology, University of Washington, Seattle, WA, USA.
  • Cho S; Department of Laboratory Medicine and Pathology, University of Washington, Seattle, WA, USA.
  • Giroux D; Department of Laboratory Medicine and Pathology, University of Washington, Seattle, WA, USA.
  • Han PD; Department of Laboratory Medicine and Pathology, University of Washington, Seattle, WA, USA.
  • Fay K; Department of Laboratory Medicine and Pathology, University of Washington, Seattle, WA, USA.
  • Frazar CD; Division of Infectious Disease, Seattle Children's Hospital, Seattle, WA, USA.
  • Ilcisin M; Department of Medicine, Division of Allergy and Infectious Diseases, University of Washington, Seattle, WA, USA.
  • Lacombe K; Brotman Baty Institute for Precision Medicine, Seattle, WA, USA.
  • Lee J; Department of Genome Sciences, University of Washington, Seattle, WA, USA.
  • Kiavand A; Department of Genome Sciences, University of Washington, Seattle, WA, USA.
  • Richardson M; Brotman Baty Institute for Precision Medicine, Seattle, WA, USA.
  • Sibley TR; Department of Genome Sciences, University of Washington, Seattle, WA, USA.
  • Truong M; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
  • Wolf CR; Department of Genome Sciences, University of Washington, Seattle, WA, USA.
  • Nickerson DA; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
  • Rieder MJ; Division of Infectious Disease, Seattle Children's Hospital, Seattle, WA, USA.
  • Englund JA; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
  • Hadfield J; Department of Genome Sciences, University of Washington, Seattle, WA, USA.
  • Hodcroft EB; Department of Genome Sciences, University of Washington, Seattle, WA, USA.
  • Huddleston J; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
  • Moncla LH; Brotman Baty Institute for Precision Medicine, Seattle, WA, USA.
  • Müller NF; Department of Genome Sciences, University of Washington, Seattle, WA, USA.
  • Neher RA; Department of Medicine, Division of Allergy and Infectious Diseases, University of Washington, Seattle, WA, USA.
  • Deng X; Brotman Baty Institute for Precision Medicine, Seattle, WA, USA.
  • Gu W; Department of Genome Sciences, University of Washington, Seattle, WA, USA.
  • Federman S; Brotman Baty Institute for Precision Medicine, Seattle, WA, USA.
  • Chiu C; Department of Genome Sciences, University of Washington, Seattle, WA, USA.
  • Duchin JS; Brotman Baty Institute for Precision Medicine, Seattle, WA, USA.
  • Gautom R; Division of Infectious Disease, Seattle Children's Hospital, Seattle, WA, USA.
  • Melly G; Department of Pediatrics, University of Washington, Seattle, WA, USA.
  • Dykema P; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
  • Lindquist S; Biozentrum, University of Basel, Basel, Switzerland.
  • Queen K; Swiss Institute of Bioinformatics, Lausanne, Switzerland.
  • Tao Y; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
  • Uehara A; Molecular and Cellular Biology Program, University of Washington, Seattle, WA, USA.
  • Tong S; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
Science ; 370(6516): 571-575, 2020 10 30.
Article in English | MEDLINE | ID: covidwho-760213
Preprint
This scientific journal article is probably based on a previously available preprint. It has been identified through a machine matching algorithm, human confirmation is still pending.
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ABSTRACT
After its emergence in Wuhan, China, in late November or early December 2019, the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus rapidly spread globally. Genome sequencing of SARS-CoV-2 allows the reconstruction of its transmission history, although this is contingent on sampling. We analyzed 453 SARS-CoV-2 genomes collected between 20 February and 15 March 2020 from infected patients in Washington state in the United States. We find that most SARS-CoV-2 infections sampled during this time derive from a single introduction in late January or early February 2020, which subsequently spread locally before active community surveillance was implemented.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: Pneumonia, Viral / Genome, Viral / Coronavirus Infections / Betacoronavirus Type of study: Observational study / Prognostic study / Randomized controlled trials Limits: Humans Country/Region as subject: North America Language: English Journal: Science Year: 2020 Document Type: Article Affiliation country: Science.abc0523

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Full text: Available Collection: International databases Database: MEDLINE Main subject: Pneumonia, Viral / Genome, Viral / Coronavirus Infections / Betacoronavirus Type of study: Observational study / Prognostic study / Randomized controlled trials Limits: Humans Country/Region as subject: North America Language: English Journal: Science Year: 2020 Document Type: Article Affiliation country: Science.abc0523