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Comparative genomics of serotype Asia 1 foot-and-mouth disease virus isolates from India sampled over the last two decades.
- Source :
-
Virus research [Virus Res] 2008 Sep; Vol. 136 (1-2), pp. 16-29. Date of Electronic Publication: 2008 Jun 03. - Publication Year :
- 2008
-
Abstract
- This study deals with a comparative analysis of complete genome sequences of twenty-one serotype Asia 1 foot-and-mouth disease (FMD) field viruses isolated over a period of two decades from India, two vaccine strains and seven exotic sequences. The Indian viruses could be grouped in to three distinct lineages at the entire coding region, evolving independently probably under differential selection pressure as evident from the lineage-specific signatures identified. This comparison revealed 80% of amino acids at the polyprotein region to be invariant. Twenty-one residues in L, 3A and P1 region were identified to be under positive selection of which some are antigenically critical. Analysis at functionally crucial motifs, receptor contact residues, polyprotein cleavage sites and at putative T-cell epitopes expands the knowledge beyond other serotypes. Antigenic site II in betaB-betaC loop of VP2 was highly unstable suggesting its exposure to extreme immune pressure. A single cross-over at the L proteinase region in an isolate from buffalo, also featuring an extensive deletion at the 5' untranslated region (UTR), reflects the role of intraserotypic genetic recombination in natural evolution. The likely biological relevance of deletions/insertions observed at UTRs, VP1 and 3A could not be deduced. Altogether, a substantial amount of data raised on full length genomes of type Asia 1 virus adds value to the FMD virus genomics.
- Subjects :
- Amino Acid Sequence
Amino Acid Substitution genetics
Animals
Antigens, Viral genetics
Antigens, Viral immunology
Base Sequence
Cluster Analysis
Conserved Sequence
Evolution, Molecular
Foot-and-Mouth Disease Virus immunology
Foot-and-Mouth Disease Virus isolation & purification
Genotype
India epidemiology
Models, Molecular
Molecular Sequence Data
Mutation, Missense
Nucleic Acid Conformation
Phylogeny
RNA, Viral genetics
Recombination, Genetic
Selection, Genetic
Sequence Analysis, DNA
Sequence Deletion
Sequence Homology
Serotyping
Viral Proteins genetics
Viral Proteins immunology
Foot-and-Mouth Disease epidemiology
Foot-and-Mouth Disease virology
Foot-and-Mouth Disease Virus classification
Foot-and-Mouth Disease Virus genetics
Genome, Viral
Subjects
Details
- Language :
- English
- ISSN :
- 0168-1702
- Volume :
- 136
- Issue :
- 1-2
- Database :
- MEDLINE
- Journal :
- Virus research
- Publication Type :
- Academic Journal
- Accession number :
- 18511143
- Full Text :
- https://doi.org/10.1016/j.virusres.2008.04.010