ArticlePLoS genetics2007
Adaptive gene expression divergence inferred from population genomics.
Article in PLoS genetics, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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Who cites it
37 citing papers in PubMed.
- Stabilizing and directional selection shape the genetic variation of gene expression in the transcriptome of Chlamydomonas.Molecular biology and evolution · 2026Article
- Microbiome-mediated polyphosphate accumulation enhances the resilience of sponge holobionts to future climate scenarios.The ISME journal · 2026Article
- Lineage-specific regulatory evolution: insights from massively parallel reporter assays.Current opinion in genetics & development · 2025Review
- Natural COEvolutionary applications · 2021Article
- Article
- Transcriptomic divergence between upland and lowland ecotypes contributes to rice adaptation to a drought-prone agroecosystem.Evolutionary applications · 2020Article
- Global genome diversity of theeLife · 2020Article
- Gene regulation underlies environmental adaptation in house mice.Genome research · 2018Article
- Evolutionary divergence of 3' UTRs in cichlid fishes.BMC genomics · 2018Article
- The Neutral Theory in Light of Natural Selection.Molecular biology and evolution · 2018Article
- Functional characterization of adaptive variation within a cis-regulatory element influencing Drosophila melanogaster growth.PLoS biology · 2018Article
- Gene co-expression network connectivity is an important determinant of selective constraint.PLoS genetics · 2017Article
- Plasmodium malariae and P. ovale genomes provide insights into malaria parasite evolution.Nature · 2017Article
- Under-Expression of Chemosensory Genes in Domiciliary Bugs of the Chagas Disease Vector Triatoma brasiliensis.PLoS neglected tropical diseases · 2016Article
- Whole genome resequencing of the human parasite Schistosoma mansoni reveals population history and effects of selection.Scientific reports · 2016Article
- Trypsin isozymes in the lobster Panulirus argus (Latreille, 1804): from molecules to physiology.Journal of comparative physiology. B, Biochemical, systemic, and environmental physiology · 2015Review
- Collembolan Transcriptomes Highlight Molecular Evolution of Hexapods and Provide Clues on the Adaptation to Terrestrial Life.PloS one · 2015Article
- Genome sequencing of chimpanzee malaria parasites reveals possible pathways of adaptation to human hosts.Nature communications · 2014Article
- Evolution of flux control in the glucosinolate pathway in Arabidopsis thaliana.Molecular biology and evolution · 2013Article
- Evolution of the correlation between expression divergence and protein divergence in mammals.Genome biology and evolution · 2013Article
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5 authors.
Funding
Abstract
Detailed studies of individual genes have shown that gene expression divergence often results from adaptive evolution of regulatory sequence. Genome-wide analyses, however, have yet to unite patterns of gene expression with polymorphism and divergence to infer population genetic mechanisms underlying expression evolution. Here, we combined genomic expression data--analyzed in a phylogenetic context--with whole genome light-shotgun sequence data from six Drosophila simulans lines and reference sequences from D. melanogaster and D. yakuba. These data allowed us to use molecular population genetics to test for neutral versus adaptive gene expression divergence on a genomic scale. We identified recent and recurrent adaptive evolution along the D. simulans lineage by contrasting sequence polymorphism within D. simulans to divergence from D. melanogaster and D. yakuba. Genes that evolved higher levels of expression in D. simulans have experienced adaptive evolution of the associated 3' flanking and amino acid sequence. Concomitantly, these genes are also decelerating in their rates of protein evolution, which is in agreement with the finding that highly expressed genes evolve slowly. Interestingly, adaptive evolution in 5' cis-regulatory regions did not correspond strongly with expression evolution. Our results provide a genomic view of the intimate link between selection acting on a phenotype and associated genic evolution.
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