title: Temporal dynamics of intrahost molecular evolution for a plant RNA virus.
abstract: Populations of plant RNA viruses are highly polymorphic in infected plants, which may allow rapid within-host evolution. To understand tobacco etch potyvirus (TEV) evolution, longitudinal samples from experimentally evolved populations in the natural host tobacco and from the alternative host pepper were phenotypically characterized and genetically analyzed. Temporal and compartmental variabilities of TEV populations were quantified using high throughput Illumina sequencing and population genetic approaches. Of the two viral phenotypic traits measured, virulence increased in the novel host but decreased in the original one, and viral load decreased in both hosts, though to a lesser extent in the novel one. Dynamics of population genetic diversity were also markedly different among hosts. Population heterozygosity increased in the ancestral host, with a dominance of synonymous mutations fixed, whereas it did not change or even decreased in the new host, with an excess of nonsynonymous mutations. All together, these observations suggest that directional selection is the dominant evolutionary force in TEV populations evolving in a novel host whereas either diversifying selection or random genetic drift may play a fundamental role in the natural host. To better understand these evolutionary dynamics, we developed a computer simulation model that incorporates the effects of mutation, selection, and drift. Upon parameterization with empirical data from previous studies, model predictions matched the observed patterns, thus reinforcing our idea that the empirical patterns of mutation accumulation represent adaptive evolution.
authors: Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, València, Spain.
authors: José M
authors: JM
authors: Cuevas
authors: Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, València, Spain.
authors: Anouk
authors: A
authors: Willemsen
authors: Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, València, Spain.
authors: Julia
authors: J
authors: Hillung
authors: Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, València, Spain.
authors: Mark P
authors: MP
authors: Zwart
authors: Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, València, Spain The Santa Fe Institute, Santa Fe, NM santiago.elena@csic.es.
authors: Santiago F
authors: SF
authors: Elena
mesh_terms: D003198:Computer Simulation; D019143:Evolution, Molecular; D040961:Genetic Drift; D014644:Genetic Variation; D005828:Genetics, Population; D006790:Host-Parasite Interactions; D008957:Models, Genetic; D009154:Mutation; D010942:Plant Viruses / Q000235:genetics* / Q000472:pathogenicity; D017800:Potyvirus / Q000235:genetics* / Q000472:pathogenicity; D012328:RNA Viruses / Q000235:genetics*; D014026:Nicotiana / Q000235:genetics / Q000821:virology
keywords: Potyvirus; adaptation; evolution of virulence; experimental evolution; next generation sequencing; population dynamics; virus evolution