Cost-effective method to perform SARS-CoV-2 variant surveillance: detection of Alpha, Gamma, Lambda, Delta, Epsilon, and Zeta in Argentina

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dc.citation.volume8
dc.creatorProyecto Argentino Interinstitucional de genómica de SARS-CoV-2
dc.creatorPosner, Victoria María
dc.creatorVillanova, Gabriela Vanina
dc.creatorAcosta, Julián
dc.creatorCavatorta, Ana Laura
dc.date.accessioned2022-04-12T15:26:17Z
dc.date.available2022-04-12T15:26:17Z
dc.date.issued2021-12-10
dc.descriptionSARS-CoV-2 variants with concerning characteristics have emerged since the end of 2020. Surveillance of SARS-CoV-2 variants was performed on a total of 4,851 samples from the capital city and 10 provinces of Argentina, during 51 epidemiological weeks (EWs) that covered the end of the first wave and the ongoing second wave of the COVID-19 pandemic in the country (EW 44/2020 to EW 41/2021). The surveillance strategy was mainly based on Sanger sequencing of a Spike coding region that allows the identification of signature mutations associated with variants. In addition, whole-genome sequences were obtained from 637 samples. The main variants found were Gamma and Lambda, and to a lesser extent, Alpha, Zeta, and Epsilon, and more recently, Delta. Whereas, Gamma dominated in different regions of the country, both Gamma and Lambda prevailed in the most populated area, the metropolitan region of Buenos Aires. The lineages that circulated on the first wave were replaced by emergent variants in a term of a few weeks. At the end of the ongoing second wave, Delta began to be detected, replacing Gamma and Lambda. This scenario is consistent with the Latin American variant landscape, so far characterized by a concurrent increase in Delta circulation and a stabilization in the number of cases. The cost-effective surveillance protocol presented here allowed for a rapid response in a resource-limited setting, added information on the expansion of Lambda in South America, and contributed to the implementation of public health measures to control the disease spread in Argentina.es
dc.description.filFil: Posner, Victoria María. Universidad Nacional de Rosario.Facultad de Ciencias Bioquímicas y Farmacéuticas. Laboratorio Mixto de Biotecnología Acuática; Argentina.
dc.description.filFil: Villanova, Gabriela Vanina. Universidad Nacional de Rosario.Facultad de Ciencias Bioquímicas y Farmacéuticas. Laboratorio Mixto de Biotecnología Acuática; Argentina.
dc.description.filFil: Acosta, Julián. Universidad Nacional de Rosario. Facultad de Ciencias Bioquímicas y Farmacéuticas. Centro de Tecnología en Salud Pública; Argentina.
dc.description.filFil: Cavatorta, Ana Laura. Universidad Nacional de Rosario. Facultad de Ciencias Bioquímicas y Farmacéuticas. Centro de Tecnología en Salud Pública; Argentina.
dc.description.sponsorshipMinisterio de Ciencia, Tecnología e Innovación
dc.formatapplication/pdf
dc.identifier.issn2296-858X
dc.identifier.urihttp://hdl.handle.net/2133/23407
dc.language.isoenges
dc.publisherFrontiers Mediaes
dc.relation.publisherversionhttps://doi.org/10.3389/fmed.2021.755463
dc.relation.publisherversionhttps://www.frontiersin.org/articles/10.3389/fmed.2021.755463/full
dc.rightsopenAccesses
dc.rights.holderProyecto Argentino Interinstitucional de genómica de SARS-CoV-2es
dc.rights.holderPosner, Victoria Maríaes
dc.rights.holderVillanova, Gabriela Vaninaes
dc.rights.holderAcosta, Juliánes
dc.rights.holderCavatorta, Ana Lauraes
dc.rights.textAttribution 4.0 International (CC BY 4.0)es
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/*
dc.subjectSARS-CoV-2es
dc.subjectVariantses
dc.subjectSouth Americaes
dc.subjectSurveillancees
dc.subjectSpike sequenceses
dc.titleCost-effective method to perform SARS-CoV-2 variant surveillance: detection of Alpha, Gamma, Lambda, Delta, Epsilon, and Zeta in Argentinaes
dc.typepublishedVersion
dc.typearticle
dc.typeartículo
dc.type.collectionarticulo
dc.type.versionpublishedVersion

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(FBIOyF) Departamento de Microbiología - Artículos
Colección Especial Coronavirus COVID-19