Phylogenetic analysis of SARS-CoV-2 in the first few months since its emergence.
J Med Virol
; 93(3): 1722-1731, 2021 03.
Article
en En
| MEDLINE
| ID: mdl-32966646
ABSTRACT
During the first few months of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) evolution in a new host, contrasting hypotheses have been proposed about the way the virus has evolved and diversified worldwide. The aim of this study was to perform a comprehensive evolutionary analysis to describe the human outbreak and the evolutionary rate of different genomic regions of SARS-CoV-2. The molecular evolution in nine genomic regions of SARS-CoV-2 was analyzed using three different approaches phylogenetic signal assessment, emergence of amino acid substitutions, and Bayesian evolutionary rate estimation in eight successive fortnights since the virus emergence. All observed phylogenetic signals were very low and tree topologies were in agreement with those signals. However, after 4 months of evolution, it was possible to identify regions revealing an incipient viral lineage formation, despite the low phylogenetic signal since fortnight 3. Finally, the SARS-CoV-2 evolutionary rate for regions nsp3 and S, the ones presenting greater variability, was estimated as 1.37 × 10-3 and 2.19 × 10-3 substitution/site/year, respectively. In conclusion, results from this study about the variable diversity of crucial viral regions and determination of the evolutionary rate are consequently decisive to understand essential features of viral emergence. In turn, findings may allow the first-time characterization of the evolutionary rate of S protein, crucial for vaccine development.
Palabras clave
Texto completo:
1
Banco de datos:
MEDLINE
Asunto principal:
Evolución Molecular
/
Evolución Biológica
/
Glicoproteína de la Espiga del Coronavirus
/
Proteasas Similares a la Papaína de Coronavirus
/
SARS-CoV-2
Tipo de estudio:
Prognostic_studies
Límite:
Animals
/
Humans
Idioma:
En
Revista:
J Med Virol
Año:
2021
Tipo del documento:
Article
País de afiliación:
Argentina