ArticleGenetics1996
Molecular evolution between Drosophila melanogaster and D. simulans: reduced codon bias, faster rates of amino acid substitution, and larger proteins in D. melanogaster.
Article in Genetics, 1996. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 111 papers.
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Who cites it
111 citing papers in PubMed.
- Estimating the evolutionary fitness of specific synonymous codon changes.Molecular biology and evolution · 2026Article
- Estimating the evolutionary fitness of specific synonymous codon changes.bioRxiv : the preprint server for biology · 2026Article
- Dinucleotide preferences underlie apparent codon preference reversals in theProceedings of the National Academy of Sciences of the United States of America · 2025Article
- The effectiveness of selection in a species affects the direction of amino acid frequency evolution.bioRxiv : the preprint server for biology · 2025Article
- Article
- The protein domains of vertebrate species in which selection is more effective have greater intrinsic structural disorder.bioRxiv : the preprint server for biology · 2024Article
- Next-generation development and application of codon model in evolution.Frontiers in genetics · 2023Review
- Selection shapes turnover and magnitude of sex-biased expression in Drosophila gonads.BMC evolutionary biology · 2019Article
- Distinguishing Among Evolutionary Forces Acting on Genome-Wide Base Composition: Computer Simulation Analysis of Approximate Methods for Inferring Site Frequency Spectra of Derived Mutations.G3 (Bethesda, Md.) · 2018Article
- Selfing in Haploid Plants and Efficacy of Selection: Codon Usage Bias in the Model Moss Physcomitrella patens.Genome biology and evolution · 2017Article
- Variation in the Intensity of Selection on Codon Bias over Time Causes Contrasting Patterns of Base Composition Evolution in Drosophila.Genome biology and evolution · 2017Article
- Recent and Long-Term Selection Across Synonymous Sites in Drosophila ananassae.Journal of molecular evolution · 2016Article
- Evaluation of Ancestral Sequence Reconstruction Methods to Infer Nonstationary Patterns of Nucleotide Substitution.Genetics · 2015Article
- Effective population size does not predict codon usage bias in mammals.Ecology and evolution · 2014Article
- Nucleosomes shape DNA polymorphism and divergence.PLoS genetics · 2014Article
- Differential strengths of positive selection revealed by hitchhiking effects at small physical scales in Drosophila melanogaster.Molecular biology and evolution · 2014Article
- Stabilizing selection, purifying selection, and mutational bias in finite populations.Genetics · 2013Article
- Strong purifying selection at synonymous sites in D. melanogaster.PLoS genetics · 2013Article
- Sounds of silence: synonymous nucleotides as a key to biological regulation and complexity.Nucleic acids research · 2013Review
- A second-generation assembly of the Drosophila simulans genome provides new insights into patterns of lineage-specific divergence.Genome research · 2013Article
51 more citing papers are in PubMed but not listed here.
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1 author.
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No grant is acknowledged in the PubMed record.
Abstract
Both natural selection and mutational biases contribute to variation in codon usage bias within Drosophila species. This study addresses the cause of codon bias differences between the sibling species, Drosophila melanogaster and D. simulans. Under a model of mutation-selection-drift, variation in mutational processes between species predicts greater base composition differences in neutrally evolving regions than in highly biased genes. Variation in selection intensity, however, predicts larger base composition differences in highly biased loci. Greater differences in the G+C content of 34 coding regions than 46 intron sequences between D. melanogaster and D. simulans suggest that D. melanogaster has undergone a reduction in selection intensity for codon bias. Computer simulations suggest at least a fivefold reduction in Nes at silent sites in this lineage. Other classes of molecular change show lineage effects between these species. Rates of amino acid substitution are higher in the D. melanogaster lineage than in D. simulans in 14 genes for which outgroup sequences are available. Surprisingly, protein sizes are larger in D. melanogaster than in D. simulans in the 34 genes compared between the two species. A substantial fraction of silent, replacement, and insertion/deletion mutations in coding regions may be weakly selected in Drosophila.
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