Phylodynamic of SARS-CoV-2 During the Second Wave of COVID-19 in Peru

Overview

Journal Nat Commun

Specialty Biology

Date 2023 Jun 15

PMID 37322028

Authors

Santiago Justo Arevalo

Carmen Sofia Uribe Calampa

Cinthy Jimenez Silva

Mauro Quinones Aguilar

Remco Bouckaert

Joao Renato Rebello Pinho

Affiliations

Soon will be listed here.

Abstract

At over 0.6% of the population, Peru has one of the highest SARS-CoV-2 mortality rate in the world. Much effort to sequence genomes has been done in this country since mid-2020. However, an adequate analysis of the dynamics of the variants of concern and interest (VOCIs) is missing. We investigated the dynamics of the COVID-19 pandemic in Peru with a focus on the second wave, which had the greatest case fatality rate. The second wave in Peru was dominated by Lambda and Gamma. Analysis of the origin of Lambda shows that it most likely emerged in Peru before the second wave (June-November, 2020). After its emergence it reached Argentina and Chile from Peru where it was locally transmitted. During the second wave in Peru, we identify the coexistence of two Lambda and three Gamma sublineages. Lambda sublineages emerged in the center of Peru whereas the Gamma sublineages more likely originated in the north-east and mid-east. Importantly, it is observed that the center of Peru played a prominent role in transmitting SARS-CoV-2 to other regions within Peru.

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Phylodynamic of SARS-CoV-2 during the second wave of COVID-19 in Peru.

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