ArticleMolecular biology and evolution2012
Evidence for widespread positive and purifying selection across the European rabbit (Oryctolagus cuniculus) genome.
Article in Molecular biology and evolution, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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44 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
- Reconciling theories of dominance with the relative rates of adaptive substitution on sex chromosomes and autosomes.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Genome-wide relaxation of selection and the evolution of the island syndrome in Orkney voles.Genome research · 2024Article
- Biases in ARG-Based Inference of Historical Population Size in Populations Experiencing Selection.Molecular biology and evolution · 2024Article
- Population Genomics of the Facultatively Sexual Liverwort Marchantia polymorpha.Genome biology and evolution · 2023Article
- Two Forms of Sexual Dimorphism in Gene Expression in Drosophila melanogaster: Their Coincidence and Evolutionary Genetics.Molecular biology and evolution · 2023Article
- Plastid phylogenomic insights into relationships, divergence, and evolution of Apiales.Planta · 2022Article
- Revealing the coexistence of differentiation and communication in an endemic hare, Lepus yarkandensis (Mammalia, Leporidae) using specific-length amplified fragment sequencing.Frontiers in zoology · 2021Article
- Distinct Retrotransposon Evolution Profile in the Genome of Rabbit (Oryctolagus cuniculus).Genome biology and evolution · 2021Article
- A Study of Faster-Z Evolution in the Great Tit (Parus major).Genome biology and evolution · 2020Article
- Adaptive Evolution Patterns in the Pacific Oyster Crassostrea gigas.Marine biotechnology (New York, N.Y.) · 2019Article
- Dissecting the Effects of Selection and Mutation on Genetic Diversity in Three Wood White (Leptidea) Butterfly Species.Genome biology and evolution · 2019Article
- The Impact of Protein Architecture on Adaptive Evolution.Molecular biology and evolution · 2019Article
- Evidence for Faster X Chromosome Evolution in Spiders.Molecular biology and evolution · 2019Article
- Adaptation and Conservation throughout the Drosophila melanogaster Life-Cycle.Genome biology and evolution · 2019Article
- Sexually dimorphic gene expression and transcriptome evolution provide mixed evidence for a fast-Z effect in Heliconius.Journal of evolutionary biology · 2019Article
- Pleiotropy Modulates the Efficacy of Selection in Drosophila melanogaster.Molecular biology and evolution · 2019Article
- Relationship Among Intron Length, Gene Expression, and Nucleotide Diversity in the Pacific Oyster Crassostrea gigas.Marine biotechnology (New York, N.Y.) · 2018Article
- The Neutral Theory in Light of Natural Selection.Molecular biology and evolution · 2018Article
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9 authors.
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Abstract
The nearly neutral theory of molecular evolution predicts that the efficacy of both positive and purifying selection is a function of the long-term effective population size (N(e)) of a species. Under this theory, the efficacy of natural selection should increase with N(e). Here, we tested this simple prediction by surveying ~1.5 to 1.8 Mb of protein coding sequence in the two subspecies of the European rabbit (Oryctolagus cuniculus algirus and O. c. cuniculus), a mammal species characterized by high levels of nucleotide diversity and N(e) estimates for each subspecies on the order of 1 × 10(6). When the segregation of slightly deleterious mutations and demographic effects were taken into account, we inferred that >60% of amino acid substitutions on the autosomes were driven to fixation by positive selection. Moreover, we inferred that a small fraction of new amino acid mutations (<4%) are effectively neutral (defined as 0 < N(e)s < 1) and that this fraction was negatively correlated with a gene's expression level. Consistent with models of recurrent adaptive evolution, we detected a negative correlation between levels of synonymous site polymorphism and the rate of protein evolution, although the correlation was weak and nonsignificant. No systematic X chromosome-autosome difference was found in the efficacy of selection. For example, the proportion of adaptive substitutions was significantly higher on the X chromosome compared with the autosomes in O. c. algirus but not in O. c. cuniculus. Our findings support widespread positive and purifying selection in rabbits and add to a growing list of examples suggesting that differences in N(e) among taxa play a substantial role in determining rates and patterns of protein evolution.
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