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Dispersal dynamics of SARS-CoV-2 lineages during the first epidemic wave in New York City.
Dellicour, Simon; Hong, Samuel L; Vrancken, Bram; Chaillon, Antoine; Gill, Mandev S; Maurano, Matthew T; Ramaswami, Sitharam; Zappile, Paul; Marier, Christian; Harkins, Gordon W; Baele, Guy; Duerr, Ralf; Heguy, Adriana.
  • Dellicour S; Spatial Epidemiology Lab (SpELL), Université Libre de Bruxelles, Bruxelles, Belgium.
  • Hong SL; Department of Microbiology, Immunology and Transplantation, Rega Institute, Laboratory for Clinical and Epidemiological Virology, KU Leuven, University of Leuven, Leuven, Belgium.
  • Vrancken B; Department of Microbiology, Immunology and Transplantation, Rega Institute, Laboratory for Clinical and Epidemiological Virology, KU Leuven, University of Leuven, Leuven, Belgium.
  • Chaillon A; Department of Microbiology, Immunology and Transplantation, Rega Institute, Laboratory for Clinical and Epidemiological Virology, KU Leuven, University of Leuven, Leuven, Belgium.
  • Gill MS; Division of Infectious Diseases and Global Public Health, University of California San Diego, California, United States of America.
  • Maurano MT; Department of Microbiology, Immunology and Transplantation, Rega Institute, Laboratory for Clinical and Epidemiological Virology, KU Leuven, University of Leuven, Leuven, Belgium.
  • Ramaswami S; Department of Pathology, NYU Grossman School of Medicine, New York, New York, United States of America.
  • Zappile P; Institute for Systems Genetics, NYU Grossman School of Medicine, New York, New York, United States of America.
  • Marier C; Genome Technology Center, Office for Science and Research, NYU Langone Health, New York, New York, United States of America.
  • Harkins GW; Genome Technology Center, Office for Science and Research, NYU Langone Health, New York, New York, United States of America.
  • Baele G; Genome Technology Center, Office for Science and Research, NYU Langone Health, New York, New York, United States of America.
  • Duerr R; South African Medical Research Council Capacity Development Unit, South African National Bioinformatics Institute, University of the Western Cape, Bellville, South Africa.
  • Heguy A; Department of Microbiology, Immunology and Transplantation, Rega Institute, Laboratory for Clinical and Epidemiological Virology, KU Leuven, University of Leuven, Leuven, Belgium.
PLoS Pathog ; 17(5): e1009571, 2021 05.
Article in English | MEDLINE | ID: covidwho-1236598
ABSTRACT
During the first phase of the COVID-19 epidemic, New York City rapidly became the epicenter of the pandemic in the United States. While molecular phylogenetic analyses have previously highlighted multiple introductions and a period of cryptic community transmission within New York City, little is known about the circulation of SARS-CoV-2 within and among its boroughs. We here perform phylogeographic investigations to gain insights into the circulation of viral lineages during the first months of the New York City outbreak. Our analyses describe the dispersal dynamics of viral lineages at the state and city levels, illustrating that peripheral samples likely correspond to distinct dispersal events originating from the main metropolitan city areas. In line with the high prevalence recorded in this area, our results highlight the relatively important role of the borough of Queens as a transmission hub associated with higher local circulation and dispersal of viral lineages toward the surrounding boroughs.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 Type of study: Observational study / Randomized controlled trials Limits: Humans Country/Region as subject: North America Language: English Journal: PLoS Pathog Year: 2021 Document Type: Article Affiliation country: Journal.ppat.1009571

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Full text: Available Collection: International databases Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 Type of study: Observational study / Randomized controlled trials Limits: Humans Country/Region as subject: North America Language: English Journal: PLoS Pathog Year: 2021 Document Type: Article Affiliation country: Journal.ppat.1009571