ArticleBiology letters2015
How to calculate the non-synonymous to synonymous rate ratio of protein-coding genes under the Fisher-Wright mutation-selection framework.
Article in Biology letters, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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20 citing papers in PubMed.
- Estimating the proportion of beneficial mutations that are not adaptive in mammals.PLoS genetics · 2024Article
- Complete Chloroplast Genome ofGenes · 2024Article
- Extinction scenarios in evolutionary processes: a multinomial Wright-Fisher approach.Journal of mathematical biology · 2023Article
- Comparative and phylogenetic analysis of the complete chloroplast genomes of six Polygonatum species (Asparagaceae).Scientific reports · 2023Article
- Molecular evolution and phylogenomic analysis of complete chloroplast genomes ofEcology and evolution · 2023Article
- Next-generation development and application of codon model in evolution.Frontiers in genetics · 2023Review
- Evolution of Amino Acid Propensities under Stability-Mediated Epistasis.Molecular biology and evolution · 2022Article
- An Improved Codon Modeling Approach for Accurate Estimation of the Mutation Bias.Molecular biology and evolution · 2022Article
- A Mutation-Selection Model of Protein Evolution under Persistent Positive Selection.Molecular biology and evolution · 2022Article
- Shifts in amino acid preferences as proteins evolve: A synthesis of experimental and theoretical work.Protein science : a publication of the Protein Society · 2021Review
- Inferring Long-Term Effective Population Size with Mutation-Selection Models.Molecular biology and evolution · 2021Article
- Dietary Diversification and Specialization in Neotropical Bats Facilitated by Early Molecular Evolution.Molecular biology and evolution · 2021Article
- Inferring the number and position of changes in selective regime in a non-equilibrium mutation-selection framework.BMC ecology and evolution · 2021Article
- Characterization and Comparative Analysis of Complete Chloroplast Genomes of Three Species From the GenusFrontiers in genetics · 2021Article
- Tumour Microenvironment and Immune Evasion in EGFR Addicted NSCLC: Hurdles and Possibilities.Cancers · 2019Review
- Finding Direction in the Search for Selection.Journal of molecular evolution · 2017Article
- Calculating site-specific evolutionary rates at the amino-acid or codon level yields similar rate estimates.PeerJ · 2017Article
- Extensively Parameterized Mutation-Selection Models Reliably Capture Site-Specific Selective Constraint.Molecular biology and evolution · 2016Article
- A Comparison of One-Rate and Two-Rate Inference Frameworks for Site-Specific dN/dS Estimation.Genetics · 2016Article
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Abstract
First principles of population genetics are used to obtain formulae relating the non-synonymous to synonymous substitution rate ratio to the selection coefficients acting at codon sites in protein-coding genes. Two theoretical cases are discussed and two examples from real data (a chloroplast gene and a virus polymerase) are given. The formulae give much insight into the dynamics of non-synonymous substitutions and may inform the development of methods to detect adaptive evolution.
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