Recombination, selection and clock-like evolution of Rice yellow mottle virus
| Autor: | Denis Fargette, Mbolarinosy Rakotomalala, E. Sangu, Gnissa Konaté, A. Mpunami, Drissa Sérémé, Agnès Pinel-Galzi, Yacouba Séré, Z. Kanyeka, Oumar Traoré, F. Sorho |
|---|---|
| Rok vydání: | 2009 |
| Předmět: |
Rice yellow mottle virus
Sequence Homology Plant Viruses Evolution Molecular Negative selection Virology Plant virus RNA Viruses Selection pressure ORFS Selection Genetic Molecular clock Gene Phylogeny Genetics Recombination Genetic biology Phylogenetic tree Oryza Sequence Analysis DNA biology.organism_classification Recombination Phylogeography Africa RNA Viral Synonymous substitution |
| Popis: | The clock-like diversification of Rice yellow mottle virus (RYMV), a widespread RNA plant virus that infects rice in Africa, was tested following a three-step approach with (i) an exhaustive search of recombinants, (ii) a comprehensive assessment of the selective constraints over lineages, and (iii) a stepwise series of tests of the molecular clock hypothesis. The first evidence of recombination in RYMV was found in East Africa, in the region most favorable to co-infection. RYMV evolved under a pronounced purifying selection, but the selection pressure did vary among lineages. There was no phylogenetic evidence of transient deleterious mutations. ORF2b, which codes for the polymerase and is the most constrained ORF, tends to diversify clock-like. With the other ORFs and the full genome, the departure from the strict clock model was limited. This likely reflects the dominant conservative selection pressure and the clock-like fixation of synonymous mutations. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|