ArticleGenetics1999
Natural selection on synonymous sites is correlated with gene length and recombination in Drosophila.
Article in Genetics, 1999. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 144 papers.
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Who cites it
144 citing papers in PubMed.
- Estimating the evolutionary fitness of specific synonymous codon changes.Molecular biology and evolution · 2026Article
- Evidence for Non-optimal Codon Choice in Highly Transcribed Sex-Biased Genes of Drosophila melanogaster.Genome biology and evolution · 2026Article
- Estimating the evolutionary fitness of specific synonymous codon changes.bioRxiv : the preprint server for biology · 2026Article
- Article
- A model of Hill-Robertson interference caused by purifying selection in a nonrecombining genome.Genetics · 2025Article
- Hill-Robertson interference may bias the inference of fitness effects of new mutations in highly selfing species.Evolution; international journal of organic evolution · 2025Article
- Hill-Robertson interference may bias the inference of fitness effects of new mutations in highly selfing species.bioRxiv : the preprint server for biology · 2024Article
- Patterns of Change in Nucleotide Diversity Over Gene Length.Genome biology and evolution · 2024Article
- The role of recombination dynamics in shaping signatures of direct and indirect selection across theProceedings. Biological sciences · 2024Article
- Meiotic, genomic and evolutionary properties of crossover distribution in Drosophila yakuba.PLoS genetics · 2022Article
- Codon usage patterns across seven Rosales species.BMC plant biology · 2022Article
- Codon Usage Bias and Cluster Analysis of theGenetics research · 2022Article
- Genome-wide analysis of codon usage in sesame (Heliyon · 2022Article
- Analysis of Codon Usage Patterns inGenes · 2021Article
- Negative linkage disequilibrium between amino acid changing variants reveals interference among deleterious mutations in the human genome.PLoS genetics · 2021Article
- Adaptive Divergence of Meiotic Recombination Rate in Ecological Speciation.Genome biology and evolution · 2020Article
- Molecular evolution of the meiotic recombination pathway in mammals.Evolution; international journal of organic evolution · 2019Article
- Compositional properties and codon usage pattern of mitochondrial ATP gene in different classes of Arthropoda.Genetica · 2019Article
- Divergent Fine-Scale Recombination Landscapes between a Freshwater and Marine Population of Threespine Stickleback Fish.Genome biology and evolution · 2019Article
- Adaptation and Conservation throughout the Drosophila melanogaster Life-Cycle.Genome biology and evolution · 2019Article
84 more citing papers are in PubMed but not listed here.
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3 authors.
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Abstract
Evolutionary analysis of codon bias in Drosophila indicates that synonymous mutations are not neutral, but rather are subject to weak selection at the translation level. Here we show that the effectiveness of natural selection on synonymous sites is strongly correlated with the rate of recombination, in accord with the nearly neutral hypothesis. This correlation, however, is apparent only in genes encoding short proteins. Long coding regions have both a lower codon bias and higher synonymous substitution rates, suggesting that they are affected less efficiently by selection. Therefore, both the length of the coding region and the recombination rate modulate codon bias. In addition, the data indicate that selection coefficients for synonymous mutations must vary by a minimum of one or two orders of magnitude. Two hypotheses are proposed to explain the relationship among the coding region length, the codon bias, and the synonymous divergence and polymorphism levels across the range of recombination rates in Drosophila. The first hypothesis is that selection coefficients on synonymous mutations are inversely related to the total length of the coding region. The second hypothesis proposes that interference among synonymous mutations reduces the efficacy of selection on these mutations. We investigated this second hypothesis by carrying out forward simulations of weakly selected mutations in model populations. These simulations show that even with realistic recombination rates, this interference, which we call the "small-scale" Hill-Robertson effect, can have a moderately strong influence on codon bias.
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