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Sequencing identifies multiple early introductions of SARS-CoV-2 to the New York City region.

ABSTRACT: Effective public response to a pandemic relies upon accurate measurement of the extent and dynamics of an outbreak. Viral genome sequencing has emerged as a powerful approach to link seemingly unrelated cases, and large-scale sequencing surveillance can inform on critical epidemiological parameters. Here, we report the analysis of 864 SARS-CoV-2 sequences from cases in the New York City metropolitan area during the COVID-19 outbreak in spring 2020. The majority of cases had no recent travel history or known exposure, and genetically linked cases were spread throughout the region. Comparison to global viral sequences showed that early transmission was most linked to cases from Europe. Our data are consistent with numerous seeds from multiple sources and a prolonged period of unrecognized community spreading. This work highlights the complementary role of genomic surveillance in addition to traditional epidemiological indicators.

SUBMITTER: Maurano MT 

PROVIDER: S-EPMC7706732 | biostudies-literature | 2020 Dec

REPOSITORIES: biostudies-literature

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Sequencing identifies multiple early introductions of SARS-CoV-2 to the New York City region.

Maurano Matthew T MT   Ramaswami Sitharam S   Zappile Paul P   Dimartino Dacia D   Boytard Ludovic L   Ribeiro-Dos-Santos André M AM   Vulpescu Nicholas A NA   Westby Gael G   Shen Guomiao G   Feng Xiaojun X   Hogan Megan S MS   Ragonnet-Cronin Manon M   Geidelberg Lily L   Marier Christian C   Meyn Peter P   Zhang Yutong Y   Cadley John J   Ordoñez Raquel R   Luther Raven R   Huang Emily E   Guzman Emily E   Arguelles-Grande Carolina C   Argyropoulos Kimon V KV   Black Margaret M   Serrano Antonio A   Call Melissa E ME   Kim Min Jae MJ   Belovarac Brendan B   Gindin Tatyana T   Lytle Andrew A   Pinnell Jared J   Vougiouklakis Theodore T   Chen John J   Lin Lawrence H LH   Rapkiewicz Amy A   Raabe Vanessa V   Samanovic Marie I MI   Jour George G   Osman Iman I   Aguero-Rosenfeld Maria M   Mulligan Mark J MJ   Volz Erik M EM   Cotzia Paolo P   Snuderl Matija M   Heguy Adriana A  

Genome research 20201022 12

Effective public response to a pandemic relies upon accurate measurement of the extent and dynamics of an outbreak. Viral genome sequencing has emerged as a powerful approach to link seemingly unrelated cases, and large-scale sequencing surveillance can inform on critical epidemiological parameters. Here, we report the analysis of 864 SARS-CoV-2 sequences from cases in the New York City metropolitan area during the COVID-19 outbreak in spring 2020. The majority of cases had no recent travel hist  ...[more]

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