Phylogenomic analysis of 11 complete African swine fever virus genome sequences
Viral molecular epidemiology has traditionally analyzed variation in single genes. Whole genome phylogenetic analysis of 123 concatenated genes from 11 ASFV genomes, including E75, a newly sequenced virulent isolate from Spain, identified two clusters. One contained South African isolates from ticks...
| Autores principales: | , , , , , , |
|---|---|
| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Elsevier
2010
|
| Acceso en línea: | https://hdl.handle.net/10568/728 |
| _version_ | 1855536760799363072 |
|---|---|
| author | Villiers, Etienne P. de Gallardo, C. Arias, Marisa Silva, M. da Upton, C. Martin, R. Bishop, Richard P. |
| author_browse | Arias, Marisa Bishop, Richard P. Gallardo, C. Martin, R. Silva, M. da Upton, C. Villiers, Etienne P. de |
| author_facet | Villiers, Etienne P. de Gallardo, C. Arias, Marisa Silva, M. da Upton, C. Martin, R. Bishop, Richard P. |
| author_sort | Villiers, Etienne P. de |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Viral molecular epidemiology has traditionally analyzed variation in single genes. Whole genome phylogenetic analysis of 123 concatenated genes from 11 ASFV genomes, including E75, a newly sequenced virulent isolate from Spain, identified two clusters. One contained South African isolates from ticks and warthog, suggesting derivation from a sylvatic transmission cycle. The second contained isolates from West Africa and the Iberian Peninsula. Two isolates, from Kenya and Malawi, were outliers. Of the nine genomes within the clusters, seven were within p72 genotype 1. The 11 genomes sequenced comprised only 5 of the 22 p72 genotypes. Comparison of synonymous and non-synonymous mutations at the genome level identified 20 genes subject to selection pressure for diversification. A novel gene of the E75 virus evolved by the fusion of two genes within the 360 multicopy family. Comparative genomics reveals high diversity within a limited sample of the ASFV viral gene pool. |
| format | Journal Article |
| id | CGSpace728 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2010 |
| publishDateRange | 2010 |
| publishDateSort | 2010 |
| publisher | Elsevier |
| publisherStr | Elsevier |
| record_format | dspace |
| spelling | CGSpace7282024-08-29T11:41:34Z Phylogenomic analysis of 11 complete African swine fever virus genome sequences Villiers, Etienne P. de Gallardo, C. Arias, Marisa Silva, M. da Upton, C. Martin, R. Bishop, Richard P. Viral molecular epidemiology has traditionally analyzed variation in single genes. Whole genome phylogenetic analysis of 123 concatenated genes from 11 ASFV genomes, including E75, a newly sequenced virulent isolate from Spain, identified two clusters. One contained South African isolates from ticks and warthog, suggesting derivation from a sylvatic transmission cycle. The second contained isolates from West Africa and the Iberian Peninsula. Two isolates, from Kenya and Malawi, were outliers. Of the nine genomes within the clusters, seven were within p72 genotype 1. The 11 genomes sequenced comprised only 5 of the 22 p72 genotypes. Comparison of synonymous and non-synonymous mutations at the genome level identified 20 genes subject to selection pressure for diversification. A novel gene of the E75 virus evolved by the fusion of two genes within the 360 multicopy family. Comparative genomics reveals high diversity within a limited sample of the ASFV viral gene pool. 2010-04 2010-02-23T17:22:21Z 2010-02-23T17:22:21Z Journal Article https://hdl.handle.net/10568/728 en Limited Access Elsevier Villiers, E.P. de; Gallardo, C.; Arias, M.; Silva, M. da; Upton, C.; Martin, R.; Bishop, R.P. 2010. Phylogenomic analysis of 11 complete African swine fever virus genome sequences. Virology. 400(1): 128-136 |
| spellingShingle | Villiers, Etienne P. de Gallardo, C. Arias, Marisa Silva, M. da Upton, C. Martin, R. Bishop, Richard P. Phylogenomic analysis of 11 complete African swine fever virus genome sequences |
| title | Phylogenomic analysis of 11 complete African swine fever virus genome sequences |
| title_full | Phylogenomic analysis of 11 complete African swine fever virus genome sequences |
| title_fullStr | Phylogenomic analysis of 11 complete African swine fever virus genome sequences |
| title_full_unstemmed | Phylogenomic analysis of 11 complete African swine fever virus genome sequences |
| title_short | Phylogenomic analysis of 11 complete African swine fever virus genome sequences |
| title_sort | phylogenomic analysis of 11 complete african swine fever virus genome sequences |
| url | https://hdl.handle.net/10568/728 |
| work_keys_str_mv | AT villiersetiennepde phylogenomicanalysisof11completeafricanswinefevervirusgenomesequences AT gallardoc phylogenomicanalysisof11completeafricanswinefevervirusgenomesequences AT ariasmarisa phylogenomicanalysisof11completeafricanswinefevervirusgenomesequences AT silvamda phylogenomicanalysisof11completeafricanswinefevervirusgenomesequences AT uptonc phylogenomicanalysisof11completeafricanswinefevervirusgenomesequences AT martinr phylogenomicanalysisof11completeafricanswinefevervirusgenomesequences AT bishoprichardp phylogenomicanalysisof11completeafricanswinefevervirusgenomesequences |