ArticleProceedings of the National Academy of Sciences of the United States of America2016
Evolutionary switches between two serine codon sets are driven by selection.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- Recombination and Incomplete Lineage Sorting Resolve the Enigma of Lysozyme Evolution.Journal of molecular evolution · 2026Article
- Codon switching of conserved Ser residues in coagulation and fibrinolytic proteases.Journal of thrombosis and haemostasis : JTH · 2024Article
- Adaptive evolution in the Saccharomyces kudriavzevii Aro4p promoted a reduced production of higher alcohols.Microbial biotechnology · 2022Article
- Unusual mammalian usage of TGA stop codons reveals that sequence conservation need not imply purifying selection.PLoS biology · 2022Article
- No evidence for widespread positive selection on double substitutions within codons in primates and yeasts.Frontiers in genetics · 2022Article
- Hearing loss genes reveal patterns of adaptive evolution at the coding and non-coding levels in mammals.BMC biology · 2021Article
- Analysis of Stop Codons within Prokaryotic Protein-Coding Genes Suggests Frequent Readthrough Events.International journal of molecular sciences · 2021Article
- Effective Population Size Predicts Local Rates but Not Local Mitigation of Read-through Errors.Molecular biology and evolution · 2021Article
- Extra base hits: Widespread empirical support for instantaneous multiple-nucleotide changes.PloS one · 2021Article
- Evolution of CDK1 Paralog Specializations in a Lineage With Fast Developing Planktonic Embryos.Frontiers in cell and developmental biology · 2021Article
- Evolution of the genetic code; Evidence from serine codon use disparity inProceedings of the National Academy of Sciences of the United States of America · 2020Article
- Impact of C-terminal amino acid composition on protein expression in bacteria.Molecular systems biology · 2020Article
- The evolutionary origins of the cat attractant nepetalactone in catnip.Science advances · 2020Article
- Crossing fitness valleys via double substitutions within codons.BMC biology · 2019Article
- Serine substitutions are linked to codon usage and differ for variable and conserved protein regions.Scientific reports · 2019Article
- In eubacteria, unlike eukaryotes, there is no evidence for selection favouring fail-safe 3' additional stop codons.PLoS genetics · 2019Article
- Visualization of Genetic Drift Processes Using the Conserved Collagen 1α1 GXY Domain.Journal of molecular evolution · 2019Article
- Multinucleotide mutations cause false inferences of lineage-specific positive selection.Nature ecology & evolution · 2018Article
- Purifying and positive selection in the evolution of stop codons.Scientific reports · 2018Article
- Selection on start codons in prokaryotes and potential compensatory nucleotide substitutions.Scientific reports · 2017Article
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Serine is the only amino acid that is encoded by two disjoint codon sets so that a tandem substitution of two nucleotides is required to switch between the two sets. Previously published evidence suggests that, for the most evolutionarily conserved serines, the codon set switch occurs by simultaneous substitution of two nucleotides. Here we report a genome-wide reconstruction of the evolution of serine codons in triplets of closely related species from diverse prokaryotes and eukaryotes. The results indicate that the great majority of codon set switches proceed by two consecutive nucleotide substitutions, via a threonine or cysteine intermediate, and are driven by selection. These findings imply a strong pressure of purifying selection in protein evolution, which in the case of serine codon set switches occurs via an initial deleterious substitution quickly followed by a second, compensatory substitution. The result is frequent reversal of amino acid replacements and, at short evolutionary distances, pervasive homoplasy.
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