Phylogenetic analysis of SARS-CoV-2 viruses circulating in the South American region: Genetic relations and vaccine strain match

Perbolianachis, Paula; Ferla, Diego; Arce, Rodrigo; Ferreiro, Irene; Costábile, Alicia; Paz, Mercedes; Simón, Diego; Moreno, Pilar; Cristina, Juan

doi:10.1016/j.virusres.2022.198688

Cited by 1 publication

(3 citation statements)

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“…Previous studies have reported similar results with sublineages of other VOCs in the region, where the circulation of these sublineages in diverse regions of the continent has favored the acquisition of different genomic characteristics which might affect the molecular diagnosis such as the emergence of new lineages [3,4]. Furthermore, genetic variation, especially in the amino acids, might generate impacts on public health [3]. Herein, we found unique and shared mutations by sublineage and country (Figure 2), most of which are found in the spike gene.…”

Section: Discussionsupporting

confidence: 65%

“…The genomic landscape of Omicron in South America provides mutational and phylogenetic information about circulating lineages. Previous studies have reported similar results with sublineages of other VOCs in the region, where the circulation of these sublineages in diverse regions of the continent has favored the acquisition of different genomic characteristics which might affect the molecular diagnosis such as the emergence of new lineages [3,4]. Furthermore, genetic variation, especially in the amino acids, might generate impacts on public health [3].…”

Section: Discussionsupporting

confidence: 64%

“…Additionally, together with public data, it allows for characterizing and dating different lineages that impact public health and/or can modulate the spread of the virus. Particularly with variants of concern (VOCs), which have higher transmissibility and virulence rates [1,2], genomic surveillance has provided insight into the genomic characteristics and global diversity of these variants [3,4].…”

Section: Introductionmentioning

confidence: 99%

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Genomic Diversity of SARS-CoV-2 Omicron Variant in South American Countries

Luna

Muñoz

Ramírez

et al. 2022

Viruses

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Genomic surveillance of SARS-CoV-2 is one of the tools that provide genomic information on circulating variants. Given the recent emergence of the Omicron (B.1.1.529) variant, this tool has provided data about this lineage’s genomic and epidemiological characteristics. However, in South America, this variant’s arrival and genomic diversity are scarcely known. Therefore, this study determined the genomic diversity and phylogenetic relationships of 21,615 Omicron genomes available in public databases. We found that in South America, BA.1 (n = 15,449, 71%) and BA.1.1 (n = 6257, 29%) are the dominant sublineages, with several mutations that favor transmission and antibody evasion. In addition, these lineages showed cryptic transmission arriving on the continent in late September 2021. This event may have contributed to the dispersal of Omicron sublineages and the acquisition of new mutations. Considering the genomic and epidemiological characteristics of these lineages, especially those with a high number of mutations in their genome, it is important to conduct studies and surveillance on the dynamics of these lineages to identify the mechanisms of mutation acquisition and their impact on public health.

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Section: Discussionsupporting

confidence: 65%