{"id":7712,"date":"2020-06-22T12:01:22","date_gmt":"2020-06-22T19:01:22","guid":{"rendered":"https:\/\/depts.washington.edu\/pandemicalliance\/?p=7712"},"modified":"2021-03-26T12:02:01","modified_gmt":"2021-03-26T19:02:01","slug":"high-density-amplicon-sequencing-identifies-community-spread-and-ongoing-evolution-of-sars-cov-2-in-the-southern-united-states","status":"publish","type":"post","link":"https:\/\/depts.washington.edu\/pandemicalliance\/2020\/06\/22\/high-density-amplicon-sequencing-identifies-community-spread-and-ongoing-evolution-of-sars-cov-2-in-the-southern-united-states\/","title":{"rendered":"High-Density Amplicon Sequencing Identifies Community Spread and Ongoing Evolution of SARS-CoV-2 in the Southern United States"},"content":{"rendered":"<ul>\n<li data-leveltext=\"\uf0b7\" data-font=\"Symbol\" data-listid=\"34\" data-aria-posinset=\"2019\" data-aria-level=\"1\"><i><span data-contrast=\"none\">[pre-print, not peer reviewed]<\/span><\/i><span data-contrast=\"auto\">\u00a0<\/span><span data-contrast=\"auto\">McNamara et al.\u00a0<\/span><span data-contrast=\"auto\">demonstrated SARS-CoV-2 evolution in a suburban Southern US region using high-density amplicon sequencing of 175 symptomatic cases. The presence of spike D614G variant,<\/span><span data-contrast=\"auto\">\u00a0<\/span><span data-contrast=\"auto\">a mutation implicated in higher pathogenicity of the virus, was observed among 57% of strains and\u00a0<\/span><span data-contrast=\"auto\">was\u00a0<\/span><span data-contrast=\"auto\">associated with a higher genome copy number (p&lt;0.002).\u00a0<\/span><span data-ccp-props=\"{&quot;134233279&quot;:true,&quot;201341983&quot;:0,&quot;335559739&quot;:160,&quot;335559740&quot;:259}\">\u00a0<\/span><\/li>\n<li data-leveltext=\"\uf0b7\" data-font=\"Symbol\" data-listid=\"34\" data-aria-posinset=\"2019\" data-aria-level=\"1\"><span data-contrast=\"auto\">The single nucleotide variant pattern is consistent with the idea that SARS-CoV-2 was introduced into North Carolina by travelers from the continental US.<\/span><span data-contrast=\"auto\">\u00a0<\/span><span data-contrast=\"auto\">No strain had mutations in the target sites used in common diagnostic assays.<\/span><span data-ccp-props=\"{&quot;134233279&quot;:true,&quot;201341983&quot;:0,&quot;335559739&quot;:160,&quot;335559740&quot;:259}\">\u00a0<\/span><\/li>\n<\/ul>\n<p><i><span data-contrast=\"none\">McNamara et al. (June 19, 2020). High-Density Amplicon Sequencing Identifies Community Spread and Ongoing Evolution of SARS-CoV-2 in the Southern United States. Preprint downloaded June 22 from\u00a0<\/span><\/i><a href=\"https:\/\/doi.org\/10.1101\/2020.06.19.161141\"><span data-contrast=\"none\">https:\/\/doi.org\/10.1101\/2020.06.19.161141<\/span><\/a><span data-ccp-props=\"{&quot;201341983&quot;:0,&quot;335559685&quot;:720,&quot;335559739&quot;:160,&quot;335559740&quot;:259}\">\u00a0<\/span><\/p>\n","protected":false},"excerpt":{"rendered":"<p>[pre-print, not peer reviewed]\u00a0McNamara et al.\u00a0demonstrated SARS-CoV-2 evolution in a suburban Southern US region using high-density amplicon sequencing of 175 symptomatic cases. The presence of spike D614G variant,\u00a0a mutation implicated in higher pathogenicity of the virus, was observed among 57% of strains and\u00a0was\u00a0associated with a higher genome copy number (p&lt;0.002).\u00a0\u00a0 The single nucleotide variant pattern&#8230;<\/p>\n<div><a class=\"more\" href=\"https:\/\/depts.washington.edu\/pandemicalliance\/2020\/06\/22\/high-density-amplicon-sequencing-identifies-community-spread-and-ongoing-evolution-of-sars-cov-2-in-the-southern-united-states\/\">Read more<\/a><\/div>\n","protected":false},"author":8,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"footnotes":"","_links_to":"","_links_to_target":""},"categories":[6],"tags":[],"topic":[21],"class_list":["post-7712","post","type-post","status-publish","format-standard","hentry","category-article-summary","topic-transmission"],"_links":{"self":[{"href":"https:\/\/depts.washington.edu\/pandemicalliance\/wp-json\/wp\/v2\/posts\/7712","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/depts.washington.edu\/pandemicalliance\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/depts.washington.edu\/pandemicalliance\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/depts.washington.edu\/pandemicalliance\/wp-json\/wp\/v2\/users\/8"}],"replies":[{"embeddable":true,"href":"https:\/\/depts.washington.edu\/pandemicalliance\/wp-json\/wp\/v2\/comments?post=7712"}],"version-history":[{"count":1,"href":"https:\/\/depts.washington.edu\/pandemicalliance\/wp-json\/wp\/v2\/posts\/7712\/revisions"}],"predecessor-version":[{"id":7713,"href":"https:\/\/depts.washington.edu\/pandemicalliance\/wp-json\/wp\/v2\/posts\/7712\/revisions\/7713"}],"wp:attachment":[{"href":"https:\/\/depts.washington.edu\/pandemicalliance\/wp-json\/wp\/v2\/media?parent=7712"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/depts.washington.edu\/pandemicalliance\/wp-json\/wp\/v2\/categories?post=7712"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/depts.washington.edu\/pandemicalliance\/wp-json\/wp\/v2\/tags?post=7712"},{"taxonomy":"topic","embeddable":true,"href":"https:\/\/depts.washington.edu\/pandemicalliance\/wp-json\/wp\/v2\/topic?post=7712"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}