학술논문
Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador
Document Type
Report
Author
Gutierrez, Bernardo; Marquez, Sully; Prado-Vivar, Belen; Becerra-Wong, Monica; Guadalupe, Juan Jose; Candido, Darlan Da Silva; Fernandez-Cadena, Juan Carlos; Morey-Leon, Gabriel; Armas-Gonzalez, Ruben; Andrade-Molina, Derly Madeleiny; Bruno, Alfredo; De Mora, Domenica; Olmedo, Maritza; Portugal, Denisse; Gonzalez, Manuel; Orlando, Alberto; Drexler, Jan Felix; Moreira-Soto, Andres; Sander, Anna-Lena; Brunink, Sebastian; Kuhne, Arne; Patino, Leandro; Carrazco-Montalvo, Andres; Mestanza, Orson; Zurita, Jeannete; Sevillano, Gabriela; Plessis, Louis Du; McCrone, John T.; Coloma, Josefina; Trueba, Gabriel; Barragan, Veronica; Rojas-Silva, Patricio; Grunauer, Michelle; Kraemer, Moritz U.G.; Faria, Nuno R.; Escalera-Zamudio, Marina; Pybus, Oliver G.; Cardenas, Paul
Source
Virus Evolution. November, 2021, Vol. 7 Issue 2, p1b, p12 p.
Subject
Language
English
Abstract
Characterisation of severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) genetic diversity through space and time can reveal trends in virus importation and domestic circulation and permit the exploration of questions regarding the early transmission dynamics. Here, we present a detailed description of SARS-CoV-2 genomic epidemiology in Ecuador, one of the hardest hit countries during the early stages of the coronavirus-19 pandemic. We generated and analysed 160 whole genome sequences sampled from all provinces of Ecuador in 2020. Molecular clock and phylogeographic analysis of these sequences in the context of global SARS-CoV-2 diversity enable us to identify and characterise individual transmission lineages within Ecuador, explore their spatiotemporal distributions, and consider their introduction and domestic circulation. Our results reveal a pattern of multiple international importations across the country, with apparent differences between key provinces. Transmission lineages were mostly introduced before the implementation of non-pharmaceutical interventions, with differential degrees of persistence and national dissemination. Key words: SARS-CoV-2; phylogenetics; molecular epidemiology; phylogeography; transmission lineages.
1. Introduction The rapid generation of substantial numbers of virus genomic sequences during the coronavirus-19 (COVID-19) pandemic is without precedent. Laboratories and institutes around the world produced and shared over [...]
1. Introduction The rapid generation of substantial numbers of virus genomic sequences during the coronavirus-19 (COVID-19) pandemic is without precedent. Laboratories and institutes around the world produced and shared over [...]