A procedure for detecting selection in highly variable viral genomes: evidence of positive selection in antigenic regions of capsid protein VP1 of foot-and-mouth disease virus.
J Virol Methods
; 74(2): 215-21, 1998 Oct.
Article
em En
| MEDLINE
| ID: mdl-9779622
ABSTRACT
A new procedure is described for the detection of positive selection among sequences of viral proteins from highly variable viruses. The approach is based on the estimation of the rates of nonsynonymous to synonymous (ns/s) mutations to the overall genetic distances amongst the sequences compared. Rates of ns/s substitutions were calculated, and the individual profiles were arranged as a function of the genetic distance observed between the complete sequences. The resulting surfaces allowed identification of protein regions whose rates of ns/s substitutions were consistent with the existence of positive selection. This procedure has been applied to the study of a highly variable antigenic protein, VP1, a protein present in foot-and-mouth disease virus (FMDV). The analysis of groups of VP1 sequences corresponding to FMDV serotypes A, O and C, resulted in the identification of two regions, which contribute to an important antigenic site, where positive selection appears to operate.
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Coleções:
01-internacional
Base de dados:
MEDLINE
Assunto principal:
Seleção Genética
/
Variação Antigênica
/
Capsídeo
/
Aphthovirus
/
Antígenos Virais
Tipo de estudo:
Prognostic_studies
Idioma:
En
Revista:
J Virol Methods
Ano de publicação:
1998
Tipo de documento:
Article
País de afiliação:
Espanha