A SARS-CoV-2 mutant from B.1.258 lineage with ∆H69/∆V70 deletion in the Spike protein circulating in Central Europe in the fall 2020.
Virus Genes
; 57(6): 556-560, 2021 Dec.
Article
en En
| MEDLINE
| ID: mdl-34448987
ABSTRACT
SARS-CoV-2 mutants carrying the ∆H69/∆V70 deletion in the amino-terminal domain of the Spike protein emerged independently in at least six lineages of the virus (namely, B.1.1.7, B.1.1.298, B.1.160, B.1.177, B.1.258, B.1.375). We analyzed SARS-CoV-2 samples collected from various regions of Slovakia between November and December 2020 that were presumed to contain B.1.1.7 variant due to drop-out of the Spike gene target in an RT-qPCR test caused by this deletion. Sequencing of these samples revealed that although in some cases the samples were indeed confirmed as B.1.1.7, a substantial fraction of samples contained another ∆H69/∆V70 carrying mutant belonging to the lineage B.1.258, which has been circulating in Central Europe since August 2020, long before the import of B.1.1.7. Phylogenetic analysis shows that the early sublineage of B.1.258 acquired the N439K substitution in the receptor-binding domain (RBD) of the Spike protein and, later on, also the deletion ∆H69/∆V70 in the Spike N-terminal domain (NTD). This variant was particularly common in several European countries including the Czech Republic and Slovakia but has been quickly replaced by B.1.1.7 early in 2021.
Palabras clave
Texto completo:
1
Banco de datos:
MEDLINE
Asunto principal:
Filogenia
/
Eliminación de Secuencia
/
Glicoproteína de la Espiga del Coronavirus
/
SARS-CoV-2
/
COVID-19
Límite:
Humans
País/Región como asunto:
Europa
Idioma:
En
Revista:
Virus Genes
Asunto de la revista:
BIOLOGIA MOLECULAR
/
VIROLOGIA
Año:
2021
Tipo del documento:
Article