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Omicron Waves in Argentina: Dynamics of SARS-CoV-2 Lineages BA.1, BA.2 and the Emerging BA.2.12.1 and BA.4/BA.5
The COVID-19 pandemic has lately been driven by Omicron. This work aimed to study the dynamics of SARS-CoV-2 Omicron lineages during the third and fourth waves of COVID-19 in Argentina. Molecular surveillance was performed on 3431 samples from Argentina, between EW44/2021 and EW31/2022. Sequencing,...
Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9965068/ https://www.ncbi.nlm.nih.gov/pubmed/36851525 http://dx.doi.org/10.3390/v15020312 |
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author | Torres, Carolina Nabaes Jodar, Mercedes Acuña, Dolores Montaño, Romina Micaela Zambrana Culasso, Andrés Carlos Alberto Amadio, Ariel Fernando Aulicino, Paula Ceballos, Santiago Cacciabue, Marco Debat, Humberto Dus Santos, María José Eberhardt, María Florencia Espul, Carlos Fay, Fabián Fernández, María Ailén Fernández, Franco Muñoz, Juan Manuel Fernandez Ferrini, Florencia Gallego, Fernando Giri, Adriana Angélica Cerri, Agustina Bolatti, Elisa Gismondi, María Ines Goya, Stephanie Gramundi, Iván Irazoqui, José Matías König, Guido Alberto Leiva, Viviana Lucero, Horacio Marquez, Nathalie Nardi, Cristina Ortiz, Belén Pianciola, Luis Pintos, Carolina Beatriz Puebla, Andrea Fabiana Rastellini, Carolina Victoria Rojas, Alejandro Ezequiel Sfalcin, Javier Suárez, Ariel Tittarelli, Estefanía Toro, Rosana Villanova, Gabriela Vanina Ziehm, María Cecilia Zimmermann, María Carla Zunino, Sebastián Valinotto, Laura Viegas, Mariana |
author_facet | Torres, Carolina Nabaes Jodar, Mercedes Acuña, Dolores Montaño, Romina Micaela Zambrana Culasso, Andrés Carlos Alberto Amadio, Ariel Fernando Aulicino, Paula Ceballos, Santiago Cacciabue, Marco Debat, Humberto Dus Santos, María José Eberhardt, María Florencia Espul, Carlos Fay, Fabián Fernández, María Ailén Fernández, Franco Muñoz, Juan Manuel Fernandez Ferrini, Florencia Gallego, Fernando Giri, Adriana Angélica Cerri, Agustina Bolatti, Elisa Gismondi, María Ines Goya, Stephanie Gramundi, Iván Irazoqui, José Matías König, Guido Alberto Leiva, Viviana Lucero, Horacio Marquez, Nathalie Nardi, Cristina Ortiz, Belén Pianciola, Luis Pintos, Carolina Beatriz Puebla, Andrea Fabiana Rastellini, Carolina Victoria Rojas, Alejandro Ezequiel Sfalcin, Javier Suárez, Ariel Tittarelli, Estefanía Toro, Rosana Villanova, Gabriela Vanina Ziehm, María Cecilia Zimmermann, María Carla Zunino, Sebastián Valinotto, Laura Viegas, Mariana |
author_sort | Torres, Carolina |
collection | PubMed |
description | The COVID-19 pandemic has lately been driven by Omicron. This work aimed to study the dynamics of SARS-CoV-2 Omicron lineages during the third and fourth waves of COVID-19 in Argentina. Molecular surveillance was performed on 3431 samples from Argentina, between EW44/2021 and EW31/2022. Sequencing, phylogenetic and phylodynamic analyses were performed. A differential dynamic between the Omicron waves was found. The third wave was associated with lineage BA.1, characterized by a high number of cases, very fast displacement of Delta, doubling times of 3.3 days and a low level of lineage diversity and clustering. In contrast, the fourth wave was longer but associated with a lower number of cases, initially caused by BA.2, and later by BA.4/BA.5, with doubling times of about 10 days. Several BA.2 and BA.4/BA.5 sublineages and introductions were detected, although very few clusters with a constrained geographical distribution were observed, suggesting limited transmission chains. The differential dynamic could be due to waning immunity and an increase in population gatherings in the BA.1 wave, and a boosted population (for vaccination or recent prior immunity for BA.1 infection) in the wave caused by BA2/BA.4/BA.5, which may have limited the establishment of the new lineages. |
format | Online Article Text |
id | pubmed-9965068 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-99650682023-02-26 Omicron Waves in Argentina: Dynamics of SARS-CoV-2 Lineages BA.1, BA.2 and the Emerging BA.2.12.1 and BA.4/BA.5 Torres, Carolina Nabaes Jodar, Mercedes Acuña, Dolores Montaño, Romina Micaela Zambrana Culasso, Andrés Carlos Alberto Amadio, Ariel Fernando Aulicino, Paula Ceballos, Santiago Cacciabue, Marco Debat, Humberto Dus Santos, María José Eberhardt, María Florencia Espul, Carlos Fay, Fabián Fernández, María Ailén Fernández, Franco Muñoz, Juan Manuel Fernandez Ferrini, Florencia Gallego, Fernando Giri, Adriana Angélica Cerri, Agustina Bolatti, Elisa Gismondi, María Ines Goya, Stephanie Gramundi, Iván Irazoqui, José Matías König, Guido Alberto Leiva, Viviana Lucero, Horacio Marquez, Nathalie Nardi, Cristina Ortiz, Belén Pianciola, Luis Pintos, Carolina Beatriz Puebla, Andrea Fabiana Rastellini, Carolina Victoria Rojas, Alejandro Ezequiel Sfalcin, Javier Suárez, Ariel Tittarelli, Estefanía Toro, Rosana Villanova, Gabriela Vanina Ziehm, María Cecilia Zimmermann, María Carla Zunino, Sebastián Valinotto, Laura Viegas, Mariana Viruses Article The COVID-19 pandemic has lately been driven by Omicron. This work aimed to study the dynamics of SARS-CoV-2 Omicron lineages during the third and fourth waves of COVID-19 in Argentina. Molecular surveillance was performed on 3431 samples from Argentina, between EW44/2021 and EW31/2022. Sequencing, phylogenetic and phylodynamic analyses were performed. A differential dynamic between the Omicron waves was found. The third wave was associated with lineage BA.1, characterized by a high number of cases, very fast displacement of Delta, doubling times of 3.3 days and a low level of lineage diversity and clustering. In contrast, the fourth wave was longer but associated with a lower number of cases, initially caused by BA.2, and later by BA.4/BA.5, with doubling times of about 10 days. Several BA.2 and BA.4/BA.5 sublineages and introductions were detected, although very few clusters with a constrained geographical distribution were observed, suggesting limited transmission chains. The differential dynamic could be due to waning immunity and an increase in population gatherings in the BA.1 wave, and a boosted population (for vaccination or recent prior immunity for BA.1 infection) in the wave caused by BA2/BA.4/BA.5, which may have limited the establishment of the new lineages. MDPI 2023-01-22 /pmc/articles/PMC9965068/ /pubmed/36851525 http://dx.doi.org/10.3390/v15020312 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Torres, Carolina Nabaes Jodar, Mercedes Acuña, Dolores Montaño, Romina Micaela Zambrana Culasso, Andrés Carlos Alberto Amadio, Ariel Fernando Aulicino, Paula Ceballos, Santiago Cacciabue, Marco Debat, Humberto Dus Santos, María José Eberhardt, María Florencia Espul, Carlos Fay, Fabián Fernández, María Ailén Fernández, Franco Muñoz, Juan Manuel Fernandez Ferrini, Florencia Gallego, Fernando Giri, Adriana Angélica Cerri, Agustina Bolatti, Elisa Gismondi, María Ines Goya, Stephanie Gramundi, Iván Irazoqui, José Matías König, Guido Alberto Leiva, Viviana Lucero, Horacio Marquez, Nathalie Nardi, Cristina Ortiz, Belén Pianciola, Luis Pintos, Carolina Beatriz Puebla, Andrea Fabiana Rastellini, Carolina Victoria Rojas, Alejandro Ezequiel Sfalcin, Javier Suárez, Ariel Tittarelli, Estefanía Toro, Rosana Villanova, Gabriela Vanina Ziehm, María Cecilia Zimmermann, María Carla Zunino, Sebastián Valinotto, Laura Viegas, Mariana Omicron Waves in Argentina: Dynamics of SARS-CoV-2 Lineages BA.1, BA.2 and the Emerging BA.2.12.1 and BA.4/BA.5 |
title | Omicron Waves in Argentina: Dynamics of SARS-CoV-2 Lineages BA.1, BA.2 and the Emerging BA.2.12.1 and BA.4/BA.5 |
title_full | Omicron Waves in Argentina: Dynamics of SARS-CoV-2 Lineages BA.1, BA.2 and the Emerging BA.2.12.1 and BA.4/BA.5 |
title_fullStr | Omicron Waves in Argentina: Dynamics of SARS-CoV-2 Lineages BA.1, BA.2 and the Emerging BA.2.12.1 and BA.4/BA.5 |
title_full_unstemmed | Omicron Waves in Argentina: Dynamics of SARS-CoV-2 Lineages BA.1, BA.2 and the Emerging BA.2.12.1 and BA.4/BA.5 |
title_short | Omicron Waves in Argentina: Dynamics of SARS-CoV-2 Lineages BA.1, BA.2 and the Emerging BA.2.12.1 and BA.4/BA.5 |
title_sort | omicron waves in argentina: dynamics of sars-cov-2 lineages ba.1, ba.2 and the emerging ba.2.12.1 and ba.4/ba.5 |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9965068/ https://www.ncbi.nlm.nih.gov/pubmed/36851525 http://dx.doi.org/10.3390/v15020312 |
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