Abstract
The genomic sequences of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) worldwide are publicly available and are derived from studies due to the increase in the number of cases. The importance of study of mutations is related to the possible virulence and diagnosis of SARS-CoV-2. To identify circulating mutations present in SARS-CoV-2 genomic sequences in Mexico, Belize, and Guatemala to find out if the same strain spread to the south, and analyze the specificity of the primers used for diagnosis in these samples. Twenty three complete SARS-CoV-2 genomic sequences, available in the GISAID database from May 8 to September 11, 2020 were analyzed and aligned versus the genomic sequence reported in Wuhan, China (NC_045512.2), using Clustal Omega. Open reading frames were translated using the ExPASy Translate Tool and UCSF Chimera (v.1.12) for amino acid substitutions analysis. Finally, the sequences were aligned versus primers used in the diagnosis of COVID-19. One hundred and eighty seven distinct variants were identified, of which 102 are missense, 66 synonymous and 19 noncoding. P4715L and P5828L substitutions in replicase polyprotein were found, as well as D614G in spike protein and L84S in ORF8 in Mexico, Belize, and Guatemala. The primers design by CDC of United States showed a positive E value. The genomic sequences of SARS-CoV-2 in Mexico, Belize, and Guatemala present similar mutations related to a virulent strain of greater infectivity, which could mean a greater capacity for inclusion in the host genome and be related to an increased spread of the virus in these countries, furthermore, its diagnosis would be affected.
Keywords: SARS coronavirus; genetic variation; mutations.
【저자키워드】 mutations, Genetic variation, SARS Coronavirus, 【초록키워드】 SARS-CoV-2, coronavirus, Mutation, Genetic, mutations, variant, Diagnosis, severe acute respiratory syndrome Coronavirus, virus, Spike protein, Spread, specificity, CDC, ORF8, Genetic variation, Wuhan, substitutions, D614G, United States, SARS Coronavirus, virulence, Amino acid, GISAID database, Open reading frame, Analysis, Missense, open reading frames, acute respiratory syndrome, UCSF Chimera, acute respiratory syndrome coronavirus, acute respiratory syndrome coronavirus 2, sequences, sequence, SARS-CoV-2 genomic sequences, Substitution, South, circulating, primer, positive, Primers, host genome, virulent, polyprotein, genomic sequence, amino acid substitution, Complete, synonymous, Wuhan, China, Seven, ExPASY, NC_045512.2, Belize, Clustal Omega, greater, analyzed, identify, affected, spread to, reported, United State, increase in, translated, aligned, diagnosis of COVID-19, diagnosis of SARS-CoV-2, for inclusion, SARS-CoV-2 genomic sequence, 【제목키워드】 Diagnosis, Region, SARS-CoV-2 mutation,