Author: 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, Jeff; Gautom, Romesh; Melly, Geoff; Hiatt, Brian; Dykema, Philip; Lindquist, Scott; Queen, Krista; Tao, Ying; Uehara, Anna; Tong, Suxiang; MacCannell, Duncan; Armstrong, Gregory L.; Baird, Geoffrey S.; Chu, Helen Y.; Shendure, Jay; Jerome, Keith R.
Title: Cryptic transmission of SARS-CoV-2 in Washington State Cord-id: wb19vqv3 Document date: 2020_4_16
ID: wb19vqv3
Snippet: Following its emergence in Wuhan, China, in late November or early December 2019, the SARS-CoV-2 virus has rapidly spread throughout the world. Genome sequencing of SARS-CoV-2 strains allows for the reconstruction of transmission history connecting these infections. Here, we analyze 346 SARS-CoV-2 genomes from samples collected between 20 February and 15 March 2020 from infected patients in Washington State, USA. We found that the large majority of SARS-CoV-2 infections sampled during this time
Document: Following its emergence in Wuhan, China, in late November or early December 2019, the SARS-CoV-2 virus has rapidly spread throughout the world. Genome sequencing of SARS-CoV-2 strains allows for the reconstruction of transmission history connecting these infections. Here, we analyze 346 SARS-CoV-2 genomes from samples collected between 20 February and 15 March 2020 from infected patients in Washington State, USA. We found that the large majority of SARS-CoV-2 infections sampled during this time frame appeared to have derived from a single introduction event into the state in late January or early February 2020 and subsequent local spread, indicating cryptic spread of COVID-19 before active community surveillance was implemented. We estimate a common ancestor of this outbreak clade as occurring between 18 January and 9 February 2020. From genomic data, we estimate an exponential doubling between 2.4 and 5.1 days. These results highlight the need for large-scale community surveillance for SARS-CoV-2 and the power of pathogen genomics to inform epidemiological understanding.
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