Assessment of Mutations Associated With Genomic Variants of SARS-CoV-2: RT-qPCR as a Rapid and Affordable Tool to Monitoring Known Circulating Variants in Chile, 2021

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dc.article.number841073
dc.catalogadoraba
dc.contributor.authorAngulo, J.
dc.contributor.authorMartinez Valdebenito, C.
dc.contributor.authorPardo Roa, C.
dc.contributor.authorAlmonacid, L. I.
dc.contributor.authorFuentes Luppichini, E.
dc.contributor.authorContreras, A. M.
dc.contributor.authorMaldonado, C.
dc.contributor.authorLe Corre, N.
dc.contributor.authorMelo Ledermann, Francisco Javier
dc.contributor.authorMedina, R. A.
dc.contributor.authorFerrés, M.
dc.date.accessioned2025-02-05T19:21:53Z
dc.date.available2025-02-05T19:21:53Z
dc.date.issued2022
dc.description.abstractSince the first report of SARS-CoV-2 infection in humans, the virus has mutated to develop new viral variants with higher infection rates and more resistance to neutralization by antibodies elicited after natural SARS-CoV-2 infection or by vaccines. Therefore, rapid identification of viral variants circulating in the population is crucial for epidemiological assessment and efforts to contain the resurgence of the pandemic. Between January and November 2021, we performed a large variant RT-qPCR-based screening of mutations in the spike protein of 1851 SARS-CoV-2-positive samples derived from outpatients from the UC-Christus Health Network in Chile. In a portion of samples (n = 636), we validated our RT-qPCR-pipeline by WGS, obtaining a 99.2% concordance. Our results indicate that from January to March 2021 there was a dominance of non-identifiable variants by the RT-qPCR-based screening; however, throughout WGS we were able to identify the Lambda (C.37) variant of interest (VOI). From March to July, we observed the rapid emergence of mutations associated with the Gamma variant (P.1), which was quickly replaced by the appearance of a combination of samples harboring mutations associated with the Delta variant (B.1.617.2), which predominated until the end of the study. Our results highlight the applicability of cost-effective RT-qPCR-based screening of mutations associated with known variants of concern (VOC), VOI and variants under monitoring (VUM) of SARS-CoV-2, being a rapid and reliable tool that complements WGS-based surveillance.
dc.fuente.origenSIPA
dc.identifier.doi10.3389/fmed.2022.841073
dc.identifier.eissn2296-858X
dc.identifier.scopusid2-s2.0-85126704690
dc.identifier.urihttps://doi.org/10.3389/fmed.2022.841073
dc.identifier.urihttps://repositorio.uc.cl/handle/11534/102157
dc.identifier.wosidWOS:000770804000001
dc.information.autorucFacultad de Ciencias Biológicas; Melo Ledermann, Francisco Javier; 0000-0002-0424-5991; 82342
dc.language.isoen
dc.nota.accesocontenido completo
dc.pagina.final7
dc.pagina.inicio1
dc.revistaFrontiers in Medicine
dc.rightsacceso abierto
dc.rights.licenseAttribution 4.0 International
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/
dc.subjectSARS-CoV-2
dc.subjectVariants of concern (VOCs)
dc.subjectVariants of interest
dc.subjectVariants under monitoring
dc.subjectRT-qPCR-based surveillance
dc.subject.ddc570
dc.subject.deweyBiologíaes_ES
dc.subject.ods03 Good health and well-being
dc.subject.odspa03 Salud y bienestar
dc.titleAssessment of Mutations Associated With Genomic Variants of SARS-CoV-2: RT-qPCR as a Rapid and Affordable Tool to Monitoring Known Circulating Variants in Chile, 2021
dc.typeartículo
dc.volumen9
sipa.codpersvinculados82342
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