Genomic surveillance of the Lambda SARS‐CoV‐2 variant in a global phylogenetic context

The massive sequencing of severe acute respiratory syndrome coronavirus 2 (SARS‐CoV‐2) and global genomic surveillance strategies allowed the detection of many variants of concern and interest. The variant of interest Lambda (C.37), which originated in South America, has been the most prevalent in P...

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Published in:Journal of medical virology 2022-10, Vol.94 (10), p.4689-4695
Main Authors: Mestanza, Orson, Lizarraga, Wendy, Padilla‐Rojas, Carlos, Jimenez‐Vasquez, Víctor, Hurtado, Verónica, Molina, Iris S., Barcena, Luis, Acedo, Steve, Nuñez, Alicia, Gordillo, Sara, Sevilla, Nieves, Medrano, Princesa, Bailon, Henri, Cáceres, Omar, Galarza, Marco, Rojas‐Serrano, Nancy, Vargas‐Herrera, Natalia, Lope‐Pari, Priscila, Huayra, Joseph, Araujo‐Castillo, Roger V., Solari, Lely
Format: Article
Language:English
Subjects:
Coronaviruses
Epidemiology
genomic surveillance
Genomics
lambda
local outbreaks
Mutation
Pandemics
Phylogenetics
Phylogeny
SARS‐CoV‐2
Severe acute respiratory syndrome
Severe acute respiratory syndrome coronavirus 2
Spike mutations
Surveillance
Viral diseases
Virology
Viruses
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Summary:The massive sequencing of severe acute respiratory syndrome coronavirus 2 (SARS‐CoV‐2) and global genomic surveillance strategies allowed the detection of many variants of concern and interest. The variant of interest Lambda (C.37), which originated in South America, has been the most prevalent in Peru and Chile, but its dispersion in other continents still remains unknown. The current study aims to determine the phylogenetic relationship among C.37 isolates worldwide, focusing on spike mutations to understand the spread of Lambda in pandemics. A total of 7441 sequences identified as C.37 were downloaded from the GISAID database; local analysis was carried out to identify spike mutations and phylogenetic analysis was carried out to determine the rate of spread of the virus. Our results showed some spike mutations of Lambda that allowed us to detect small local outbreaks in different countries that occurred in the past and identify several clades that have not yet been designated. Although the lineage C.37 is not epidemiologically relevant in Europe or North America, the endemic behavior of this variant in Peru had a major impact on the second SARS‐CoV‐2 wave.
ISSN:0146-6615
1096-9071
DOI:10.1002/jmv.27889