ArticleProceedings of the National Academy of Sciences of the United States of America2013
Neofunctionalization of young duplicate genes in Drosophila.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 137 papers.
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Who cites it
137 citing papers in PubMed.
- Adaptive deletion of functional duplicate genes in Drosophila.Journal of evolutionary biology · 2026Article
- Genome-wide identification of olfactory receptor and odorant-binding protein gene families and their roles in Heliothine chemosensory evolution.Insect molecular biology · 2026Article
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- Taxonomic context and genomic architecture jointly shape expression divergence across animals.Evolution; international journal of organic evolution · 2026Article
- Genome-Wide Characterization of theLife (Basel, Switzerland) · 2026Article
- Parallel expansion of trehalose transporter genes integrates intestinal energy metabolism with developmental growth in lepidopteran insects.Molecular biology and evolution · 2026Article
- Evolutionary causes and consequences of gene duplication.Nature reviews. Genetics · 2026Review
- Chromosomal Replication, Translocation and Recombination as Putative Events in the Diversification of VertebrateInternational journal of molecular sciences · 2026Article
- Splicing retention and enhancer divergence govern the evolutionary fate of ohnologues following whole-genome duplication in rainbow trout.Scientific reports · 2026Article
- Chromosomal Rearrangements and Transposable Elements in Locally Adapted Island Drosophila.Genome biology and evolution · 2026Article
- Gene function predicts divergence across molecular levels.bioRxiv : the preprint server for biology · 2026Article
- Phylostratigraphic Analysis Reveals the Evolutionary Origins and Potential Role of New Genes in the Adaptive Evolution ofInternational journal of molecular sciences · 2026Article
- Adaptive deletion of functional duplicate genes inbioRxiv : the preprint server for biology · 2025Article
- Taxonomic context and genomic architecture jointly shape expression divergence across animals.bioRxiv : the preprint server for biology · 2025Article
- Systematic analysis of noncanonical ribosomal protein paralogs does not provide evidence for specialized functions inProceedings of the National Academy of Sciences of the United States of America · 2025Article
- Comprehensive Annotation of Olfactory and Gustatory Receptor Genes and Transposable Elements Revealed Their Evolutionary Dynamics in Aphids.Molecular biology and evolution · 2025Article
- Genome size estimation and evolution trends in Acari.Experimental & applied acarology · 2025Article
- Evolutionary Changes ofEcology and evolution · 2025Article
- Unveiling the functional fate of duplicated genes through expression profiling and structural analysis.Genome research · 2025Article
77 more citing papers are in PubMed but not listed here.
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2 authors.
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Abstract
Gene duplication is a key source of genetic innovation that plays a role in the evolution of phenotypic complexity. Although several evolutionary processes can result in the long-term retention of duplicate genes, their relative contributions in nature are unknown. Here we develop a phylogenetic approach for comparing genome-wide expression profiles of closely related species to quantify the roles of conservation, neofunctionalization, subfunctionalization, and specialization in the preservation of duplicate genes. Application of our method to pairs of young duplicates in Drosophila shows that neofunctionalization, the gain of a novel function in one copy, accounts for the retention of almost two-thirds of duplicate genes. Surprisingly, novel functions nearly always originate in younger (child) copies, whereas older (parent) copies possess functions similar to those of ancestral genes. Further examination of such pairs reveals a strong bias toward RNA-mediated duplication events, implicating asymmetric duplication and positive selection in the evolution of new functions. Moreover, we show that young duplicate genes are expressed primarily in testes and that their expression breadth increases over evolutionary time. This finding supports the "out-of-testes" hypothesis, which posits that testes are a catalyst for the emergence of new genes that ultimately evolve functions in other tissues. Thus, our study highlights the importance of neofunctionalization and positive selection in the retention of young duplicates in Drosophila and illustrates how duplicates become incorporated into novel functional networks over evolutionary time.
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