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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| Formato: | Articulo |
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2023
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| Acceso en línea: | http://sedici.unlp.edu.ar/handle/10915/153022 |
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I19-R120-10915-1530222023-05-16T04:07:04Z http://sedici.unlp.edu.ar/handle/10915/153022 issn:1999-4915 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 Toro, Rosana Proyecto PAIS Working Group 2023 2023-05-15T18:04:31Z en Biología Ciencias Médicas SARS-CoV-2 Omicron Variants Evolution South America Dynamics BA.1 BA.2 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, 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. La lista completa de autores que integran el documento puede consultarse en el archivo. Facultad de Ciencias Exactas Articulo Articulo http://creativecommons.org/licenses/by/4.0/ Creative Commons Attribution 4.0 International (CC BY 4.0) application/pdf |
| institution |
Universidad Nacional de La Plata |
| institution_str |
I-19 |
| repository_str |
R-120 |
| collection |
SEDICI (UNLP) |
| language |
Inglés |
| topic |
Biología Ciencias Médicas SARS-CoV-2 Omicron Variants Evolution South America Dynamics BA.1 BA.2 BA.4 BA.5 |
| spellingShingle |
Biología Ciencias Médicas SARS-CoV-2 Omicron Variants Evolution South America Dynamics BA.1 BA.2 BA.4 BA.5 Toro, Rosana Proyecto PAIS Working Group 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_facet |
Biología Ciencias Médicas SARS-CoV-2 Omicron Variants Evolution South America Dynamics BA.1 BA.2 BA.4 BA.5 |
| 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 |
Articulo Articulo |
| author |
Toro, Rosana Proyecto PAIS Working Group |
| author_facet |
Toro, Rosana Proyecto PAIS Working Group |
| author_sort |
Toro, Rosana |
| 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_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_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_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 |
| publishDate |
2023 |
| url |
http://sedici.unlp.edu.ar/handle/10915/153022 |
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