ArticleProceedings of the National Academy of Sciences of the United States of America2006
Weak selection and recent mutational changes influence polymorphic synonymous mutations in humans.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- Natural Selection Shapes Codon Usage in the Human Genome.American journal of human genetics · 2020Article
- Estimation of allele-specific fitness effects across human protein-coding sequences and implications for disease.Genome research · 2019Article
- Exonic splice regulation imposes strong selection at synonymous sites.Genome research · 2018Article
- Recent and Long-Term Selection Across Synonymous Sites in Drosophila ananassae.Journal of molecular evolution · 2016Article
- Are Synonymous Sites in Primates and Rodents Functionally Constrained?Journal of molecular evolution · 2016Article
- The functional relevance of somatic synonymous mutations in melanoma and other cancers.Pigment cell & melanoma research · 2015Review
- Entrainment to periodic initiation and transition rates in a computational model for gene translation.PloS one · 2014Article
- Three independent determinants of protein evolutionary rate.Journal of molecular evolution · 2013Review
- Gene expression levels are correlated with synonymous codon usage, amino acid composition, and gene architecture in the red flour beetle, Tribolium castaneum.Molecular biology and evolution · 2012Article
- Determinants of translation elongation speed and ribosomal profiling biases in mouse embryonic stem cells.PLoS computational biology · 2012Article
- Genome-scale analysis of translation elongation with a ribosome flow model.PLoS computational biology · 2011Article
- Article
- Selection for translation efficiency on synonymous polymorphisms in recent human evolution.Genome biology and evolution · 2011Article
- Faster than neutral evolution of constrained sequences: the complex interplay of mutational biases and weak selection.Genome biology and evolution · 2011Article
- Measuring and detecting molecular adaptation in codon usage against nonsense errors during protein translation.Genetics · 2009Article
- Novel mutations in beta-myosin heavy chain, actin and troponin-I genes associated with dilated cardiomyopathy in Indian population.Journal of genetics · 2009Article
- Fundamental concepts in genetics: effective population size and patterns of molecular evolution and variation.Nature reviews. Genetics · 2009Review
- Assessing the evolutionary impact of amino acid mutations in the human genome.PLoS genetics · 2008Article
- No effect of recombination on the efficacy of natural selection in primates.Genome research · 2008Article
- Identification of conflicting selective effects on highly expressed genes.Evolutionary bioinformatics online · 2007Article
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Abstract
Recent large-scale genomic and evolutionary studies have revealed the small but detectable signature of weak selection on synonymous mutations during mammalian evolution, likely acting at the level of translational efficacy (i.e., translational selection). To investigate whether weak selection, and translational selection in particular, plays any role in shaping the fate of synonymous mutations that are present today in human populations, we studied genetic variation at the polymorphic level and patterns of evolution in the human lineage after human-chimpanzee separation. We find evidence that neutral mechanisms are influencing the frequency of polymorphic mutations in humans. Our results suggest a recent increase in mutational tendencies toward AT, observed in all isochores, that is responsible for AT mutations segregating at lower frequencies than GC mutations. In all, however, changes in mutational tendencies and other neutral scenarios are not sufficient to explain a difference between synonymous and noncoding mutations or a difference between synonymous mutations potentially advantageous or deleterious under a translational selection model. Furthermore, several estimates of selection intensity on synonymous mutations all suggest a detectable influence of weak selection acting at the level of translational selection. Thus, random genetic drift, recent changes in mutational tendencies, and weak selection influence the fate of synonymous mutations that are present today as polymorphisms. All of these features, neutral and selective, should be taken into account in evolutionary analyses that often assume constancy of mutational tendencies and complete neutrality of synonymous mutations.
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