ArticleProceedings of the National Academy of Sciences of the United States of America2001
Does recombination improve selection on codon usage? Lessons from nematode and fly complete genomes.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2001. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 132 papers.
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132 citing papers in PubMed.
- Influence of geography, seasonality and experimental selection on Chironomus riparius recombination rates.BMC genomics · 2026Article
- Recombination Suppression Drives Expansion of the Drosophila Dot Chromosome.Molecular biology and evolution · 2025Article
- The complete chloroplast genomes and comparative study of the two tung trees of Vernicia (Euphorbiaceae).BMC genomics · 2024Article
- Comparative analysis of codon usage patterns in 16 chloroplast genomes of suborder Halimedineae.BMC genomics · 2024Article
- High subtelomeric GC content in the genome of a zoonoticMicrobial genomics · 2023Article
- Article
- The fine-scale recombination rate variation and associations with genomic features in a butterfly.Genome research · 2023Article
- Codon usage bias in chloroplast genes implicate adaptive evolution of four ginger species.Frontiers in plant science · 2023Article
- An investigation of codon usage pattern analysis in pancreatitis associated genes.BMC genomic data · 2022Article
- The Shift in Synonymous Codon Usage Reveals Similar Genomic Variation during Domestication of Asian and African Rice.International journal of molecular sciences · 2022Article
- Genome-wide analysis of codon usage in sesame (Heliyon · 2022Article
- Alteration of synonymous codon usage bias accompanies polyploidization in wheat.Frontiers in genetics · 2022Article
- Strategies and Patterns of Codon Bias in Molluscum Contagiosum Virus.Pathogens (Basel, Switzerland) · 2021Article
- Genetic changes and evolutionary analysis of canine circovirus.Archives of virology · 2021Article
- Analysis of Codon Usage Patterns inGenes · 2021Article
- Review
- Asymmetric Somatic Hybridization Affects Synonymous Codon Usage Bias in Wheat.Frontiers in genetics · 2021Article
- Edging on Mutational Bias, Induced Natural Selection From Host and Natural Reservoirs Predominates Codon Usage Evolution in Hantaan Virus.Frontiers in microbiology · 2021Article
- Runaway GC Evolution in Gerbil Genomes.Molecular biology and evolution · 2020Article
- Article
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Abstract
Understanding the factors responsible for variations in mutation patterns and selection efficacy along chromosomes is a prerequisite for deciphering genome sequences. Population genetics models predict a positive correlation between the efficacy of selection at a given locus and the local rate of recombination because of Hill-Robertson effects. Codon usage is considered one of the most striking examples that support this prediction at the molecular level. In a wide range of species including Caenorhabditis elegans and Drosophila melanogaster, codon usage is essentially shaped by selection acting for translational efficiency. Codon usage bias correlates positively with recombination rate in Drosophila, apparently supporting the hypothesis that selection on codon usage is improved by recombination. Here we present an exhaustive analysis of codon usage in C. elegans and D. melanogaster complete genomes. We show that in both genomes there is a positive correlation between recombination rate and the frequency of optimal codons. However, we demonstrate that in both species, this effect is due to a mutational bias toward G and C bases in regions of high recombination rate, possibly as a direct consequence of the recombination process. The correlation between codon usage bias and recombination rate in these species appears to be essentially determined by recombination-dependent mutational patterns, rather than selective effects. This result highlights that it is necessary to take into account the mutagenic effect of recombination to understand the evolutionary role and impact of recombination.
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