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Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador
Characterisation of 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 Ecu...
Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Cold Spring Harbor Laboratory
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8043474/ https://www.ncbi.nlm.nih.gov/pubmed/33851177 http://dx.doi.org/10.1101/2021.03.31.21254685 |
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author | Gutierrez, Bernardo Márquez, Sully Prado-Vivar, Belén Becerra-Wong, Mónica Guadalupe, Juan José da Silva Candido, Darlan Fernandez-Cadena, Juan Carlos Morey-Leon, Gabriel Armas-Gonzalez, Rubén 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 Brünink, Sebastian Kühne, Arne Patiño, Leandro Carrazco-Montalvo, Andrés Mestanza, Orson Zurita, Jeannete Sevillano, Gabriela du Plessis, Louis McCrone, John T. Coloma, Josefina Trueba, Gabriel Barragán, Verónica Rojas-Silva, Patricio Grunauer, Michelle Kraemer, Moritz U.G. Faria, Nuno R. Escalera-Zamudio, Marina Pybus, Oliver G. Cárdenas, Paúl |
author_facet | Gutierrez, Bernardo Márquez, Sully Prado-Vivar, Belén Becerra-Wong, Mónica Guadalupe, Juan José da Silva Candido, Darlan Fernandez-Cadena, Juan Carlos Morey-Leon, Gabriel Armas-Gonzalez, Rubén 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 Brünink, Sebastian Kühne, Arne Patiño, Leandro Carrazco-Montalvo, Andrés Mestanza, Orson Zurita, Jeannete Sevillano, Gabriela du Plessis, Louis McCrone, John T. Coloma, Josefina Trueba, Gabriel Barragán, Verónica Rojas-Silva, Patricio Grunauer, Michelle Kraemer, Moritz U.G. Faria, Nuno R. Escalera-Zamudio, Marina Pybus, Oliver G. Cárdenas, Paúl |
author_sort | Gutierrez, Bernardo |
collection | PubMed |
description | Characterisation of 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 COVID-19 pandemic. We generate and analyse 160 whole genome sequences sampled from all provinces of Ecuador in 2020. Molecular clock and phylgeographic 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 (NPIs), with differential degrees of persistence and national dissemination. |
format | Online Article Text |
id | pubmed-8043474 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Cold Spring Harbor Laboratory |
record_format | MEDLINE/PubMed |
spelling | pubmed-80434742021-04-14 Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador Gutierrez, Bernardo Márquez, Sully Prado-Vivar, Belén Becerra-Wong, Mónica Guadalupe, Juan José da Silva Candido, Darlan Fernandez-Cadena, Juan Carlos Morey-Leon, Gabriel Armas-Gonzalez, Rubén 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 Brünink, Sebastian Kühne, Arne Patiño, Leandro Carrazco-Montalvo, Andrés Mestanza, Orson Zurita, Jeannete Sevillano, Gabriela du Plessis, Louis McCrone, John T. Coloma, Josefina Trueba, Gabriel Barragán, Verónica Rojas-Silva, Patricio Grunauer, Michelle Kraemer, Moritz U.G. Faria, Nuno R. Escalera-Zamudio, Marina Pybus, Oliver G. Cárdenas, Paúl medRxiv Article Characterisation of 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 COVID-19 pandemic. We generate and analyse 160 whole genome sequences sampled from all provinces of Ecuador in 2020. Molecular clock and phylgeographic 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 (NPIs), with differential degrees of persistence and national dissemination. Cold Spring Harbor Laboratory 2021-04-05 /pmc/articles/PMC8043474/ /pubmed/33851177 http://dx.doi.org/10.1101/2021.03.31.21254685 Text en https://creativecommons.org/licenses/by-nc-nd/4.0/This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License (https://creativecommons.org/licenses/by-nc-nd/4.0/) , which allows reusers to copy and distribute the material in any medium or format in unadapted form only, for noncommercial purposes only, and only so long as attribution is given to the creator. |
spellingShingle | Article Gutierrez, Bernardo Márquez, Sully Prado-Vivar, Belén Becerra-Wong, Mónica Guadalupe, Juan José da Silva Candido, Darlan Fernandez-Cadena, Juan Carlos Morey-Leon, Gabriel Armas-Gonzalez, Rubén 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 Brünink, Sebastian Kühne, Arne Patiño, Leandro Carrazco-Montalvo, Andrés Mestanza, Orson Zurita, Jeannete Sevillano, Gabriela du Plessis, Louis McCrone, John T. Coloma, Josefina Trueba, Gabriel Barragán, Verónica Rojas-Silva, Patricio Grunauer, Michelle Kraemer, Moritz U.G. Faria, Nuno R. Escalera-Zamudio, Marina Pybus, Oliver G. Cárdenas, Paúl Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador |
title | Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador |
title_full | Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador |
title_fullStr | Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador |
title_full_unstemmed | Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador |
title_short | Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador |
title_sort | genomic epidemiology of sars-cov-2 transmission lineages in ecuador |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8043474/ https://www.ncbi.nlm.nih.gov/pubmed/33851177 http://dx.doi.org/10.1101/2021.03.31.21254685 |
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