ArticleGenome biology and evolution2011
Genomic determinants of protein evolution and polymorphism in Arabidopsis.
Article in Genome biology and evolution, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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58 citing papers in PubMed.
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- High Gene Expression Predicts Extremely Low Segregation of Deleterious Mutations in Large Penguin Populations.Molecular biology and evolution · 2025Article
- Repeated global adaptation across plant species.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Evolutionary Analyses of Gene Expression Divergence in Panicum hallii: Exploring Constitutive and Plastic Responses Using Reciprocal Transplants.Molecular biology and evolution · 2023Article
- Weaker selection on genes with treatment-specific expression consistent with a limit on plasticity evolution in Arabidopsis thaliana.Genetics · 2023Article
- Purifying selection enduringly acts on the sequence evolution of highly expressed proteins in Escherichia coli.G3 (Bethesda, Md.) · 2022Article
- Strong evidence for the adaptive walk model of gene evolution in Drosophila and Arabidopsis.PLoS biology · 2022Article
- Globally Relaxed Selection and Local Adaptation in Boechera stricta.Genome biology and evolution · 2022Article
- Transcription Factors Evolve Faster Than Their Structural Gene Targets in the Flavonoid Pigment Pathway.Molecular biology and evolution · 2022Article
- Genomic Signatures of Sexual Selection on Pollen-Expressed Genes in Arabis alpina.Molecular biology and evolution · 2022Article
- Reproductive Proteins Evolve Faster Than Non-reproductive Proteins AmongFrontiers in plant science · 2021Article
- Article
- Genomic analyses of a livestock pest, the New World screwworm, find potential targets for genetic control programs.Communications biology · 2020Article
- Biased Gene Conversion Constrains Adaptation inGenetics · 2020Article
- The Genome ofFrontiers in plant science · 2020Article
- The Impact of Protein Architecture on Adaptive Evolution.Molecular biology and evolution · 2019Article
- Article
- Deleterious Mutation Accumulation in Arabidopsis thaliana Pollen Genes: A Role for a Recent Relaxation of Selection.Genome biology and evolution · 2019Article
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6 authors.
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Abstract
Recent results from Drosophila suggest that positive selection has a substantial impact on genomic patterns of polymorphism and divergence. However, species with smaller population sizes and/or stronger population structure may not be expected to exhibit Drosophila-like patterns of sequence variation. We test this prediction and identify determinants of levels of polymorphism and rates of protein evolution using genomic data from Arabidopsis thaliana and the recently sequenced Arabidopsis lyrata genome. We find that, in contrast to Drosophila, there is no negative relationship between nonsynonymous divergence and silent polymorphism at any spatial scale examined. Instead, synonymous divergence is a major predictor of silent polymorphism, which suggests variation in mutation rate as the main determinant of silent variation. Variation in rates of protein divergence is mainly correlated with gene expression level and breadth, consistent with results for a broad range of taxa, and map-based estimates of recombination rate are only weakly correlated with nonsynonymous divergence. Variation in mutation rates and the strength of purifying selection seem to be major drivers of patterns of polymorphism and divergence in Arabidopsis. Nevertheless, a model allowing for varying negative and positive selection by functional gene category explains the data better than a homogeneous model, implying the action of positive selection on a subset of genes. Genes involved in disease resistance and abiotic stress display high proportions of adaptive substitution. Our results are important for a general understanding of the determinants of rates of protein evolution and the impact of selection on patterns of polymorphism and divergence.
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