biostudies-literatureUnknown7(11)Barona-Gomez FConsejo Nacional de Ciencia y TecnologíaNewton FundUnderstanding the evolution of the SARS-CoV-2 virus in various regions of the world during the Covid-19 pandemic is essential to help mitigate the effects of this devastating disease. We describe the phylogenomic and population genetic patterns of the virus in Mexico during the pre-vaccination stage, including asymptomatic carriers. A real-time quantitative PCR screening and phylogenomic reconstructions directed at sequence/structure analysis of the spike glycoprotein revealed mutation of concern E484K in genomes from central Mexico, in addition to the nationwide prevalence of the imported variant 20C/S:452R (B.1.427/9). Overall, the detected variants in Mexico show spike protein mutations in the N-terminal domain (i.e. R190M), in the receptor-binding motif (i.e. T478K, E484K), within the Microbial genomicshttps://www.ebi.ac.uk/biostudies/studies/S-EPMC8743546biostudies-literaturePhylogenomics and population genomics of SARS-CoV-2 in Mexico during the pre-vaccination stage reveals variants of interest B.1.1.28.4 and B.1.1.222 or B.1.1.519 and the nucleocapsid mutation S194L associated with symptoms.PMC8743546180631313075CATEDRASCruz-Perez AGarcia-Sepulveda CAPlisson FGarcia-Gonzalez OPPerez-Abreu RDiaz-Valenzuela ECibrian-Jaramillo ASanchez-Flores AVega-Magana NDelaye LBernal-Silva SMunoz-Valle JFComas-Garcia ABarona-Gomez FDiaz-Sanchez MValencia-Valdespino FJfalsePhylogenomics and population genomics of SARS-CoV-2 in Mexico during the pre-vaccination stage reveals variants of interest B.1.1.28.4 and B.1.1.222 or B.1.1.519 and the nucleocapsid mutation S194L associated with symptoms.Understanding the evolution of the SARS-CoV-2 virus in various regions of the world during the Covid-19 pandemic is essential to help mitigate the effects of this devastating disease. We describe the phylogenomic and population genetic patterns of the virus in Mexico during the pre-vaccination stage, including asymptomatic carriers. A real-time quantitative PCR screening and phylogenomic reconstructions directed at sequence/structure analysis of the spike glycoprotein revealed mutation of concern E484K in genomes from central Mexico, in addition to the nationwide prevalence of the imported variant 20C/S:452R (B.1.427/9). Overall, the detected variants in Mexico show spike protein mutations in the N-terminal domain (i.e. R190M), in the receptor-binding motif (i.e. T478K, E484K), within the 2021-01-01T00:00:00Z2021 Nov2026-05-08T03:26:49.324Z2022-02-11T15:07:42.104ZS-EPMC87435463484628310.1099/mgen.0.000684