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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,...

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Detalles Bibliográficos
Autores principales: 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
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
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
Descripción
Sumario: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.