Genomic surveillance reveals dynamic shifts in the connectivity of COVID-19 epidemics

The maturation of genomic surveillance in the past decade has enabled tracking of the emergence and spread of epidemics at an unprecedented level. During the COVID-19 pandemic, for example, genomic data revealed that local epidemics varied considerably in the frequency of severe acute respiratory sy...

Full description

Saved in:

Bibliographic Details
Published in:	Cell Vol. 186; no. 26; p. 5690
Main Authors:	Matteson, Nathaniel L, Hassler, Gabriel W, Kurzban, Ezra, Schwab, Madison A, Perkins, Sarah A, Gangavarapu, Karthik, Levy, Joshua I, Parker, Edyth, Pride, David, Hakim, Abbas, De Hoff, Peter, Cheung, Willi, Castro-Martinez, Anelizze, Rivera, Andrea, Veder, Anthony, Rivera, Ariana, Wauer, Cassandra, Holmes, Jacqueline, Wilson, Jedediah, Ngo, Shayla N, Plascencia, Ashley, Lawrence, Elijah S, Smoot, Elizabeth W, Eisner, Emily R, Tsai, Rebecca, Chacón, Marisol, Baer, Nathan A, Seaver, Phoebe, Salido, Rodolfo A, Aigner, Stefan, Ngo, Toan T, Barber, Tom, Ostrander, Tyler, Fielding-Miller, Rebecca, Simmons, Elizabeth H, Zazueta, Oscar E, Serafin-Higuera, Idanya, Sanchez-Alavez, Manuel, Moreno-Camacho, Jose L, García-Gil, Abraham, Murphy Schafer, Ashleigh R, McDonald, Eric, Corrigan, Jeremy, Malone, John D, Stous, Sarah, Shah, Seema, Moshiri, Niema, Weiss, Alana, Anderson, Catelyn, Aceves, Christine M, Spencer, Emily G, Hufbauer, Emory C, Lee, Justin J, King, Alison J, Ramesh, Karthik S, Nguyen, Kelly N, Saucedo, Kieran, Robles-Sikisaka, Refugio, Fisch, Kathleen M, Gonias, Steven L, Birmingham, Amanda, McDonald, Daniel, Karthikeyan, Smruthi, Martin, Natasha K, Schooley, Robert T, Negrete, Agustin J, Reyna, Horacio J, Chavez, Jose R, Garcia, Maria L, Cornejo-Bravo, Jose M, Becker, David, Isaksson, Magnus, Washington, Nicole L, Lee, William, Garfein, Richard S, Luna-Ruiz Esparza, Marco A, Alcántar-Fernández, Jonathan, Henson, Benjamin, Jepsen, Kristen, Olivares-Flores, Beatriz, Barrera-Badillo, Gisela, Lopez-Martínez, Irma, Ramírez-González, José E, Flores-León, Rita, Kingsmore, Stephen F, Sanders, Alison, Pradenas, Allorah, White, Benjamin, Matthews, Gary, Hale, Matt, McLawhon, Ronald W, Reed, Sharon L, Winbush, Terri, McHardy, Ian H, Fielding, Russel A, Nicholson, Laura, Quigley, Michael M, Harding, Aaron, Mendoza, Art, Bakhtar, Omid
Format:	Journal Article
Language:	English
Published:	United States 21-12-2023
Subjects:	COVID-19 - epidemiology COVID-19 - transmission COVID-19 - virology Genomics Geography Humans Infection Control Pandemics - prevention & control Public Health SARS-CoV-2 - genetics COVID-19 SARS-CoV-2 mobility genomic epidemiology travel restrictions phylogenetics viral sequencing
Online Access:	Get more information
Tags:	Add Tag No Tags, Be the first to tag this record!

Description
Summary:	The maturation of genomic surveillance in the past decade has enabled tracking of the emergence and spread of epidemics at an unprecedented level. During the COVID-19 pandemic, for example, genomic data revealed that local epidemics varied considerably in the frequency of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) lineage importation and persistence, likely due to a combination of COVID-19 restrictions and changing connectivity. Here, we show that local COVID-19 epidemics are driven by regional transmission, including across international boundaries, but can become increasingly connected to distant locations following the relaxation of public health interventions. By integrating genomic, mobility, and epidemiological data, we find abundant transmission occurring between both adjacent and distant locations, supported by dynamic mobility patterns. We find that changing connectivity significantly influences local COVID-19 incidence. Our findings demonstrate a complex meaning of "local" when investigating connected epidemics and emphasize the importance of collaborative interventions for pandemic prevention and mitigation.
ISSN:	1097-4172
DOI:	10.1016/j.cell.2023.11.024