ArticlePLoS genetics2014
Extensive copy-number variation of young genes across stickleback populations.
Article in PLoS genetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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Who cites it
44 citing papers in PubMed.
- The genomic architecture of local adaptation in two connected populations of three-spined stickleback.G3 (Bethesda, Md.) · 2026Article
- Rapid and repeated evolution of myosin copy number in threespine stickleback.Current biology : CB · 2026Article
- Rapid and repeated evolution of myosin copy number in threespine stickleback.bioRxiv : the preprint server for biology · 2025Article
- Strong but diffuse genetic divergence underlies differentiation in an incipient species of marine stickleback.bioRxiv : the preprint server for biology · 2025Article
- Epigenetic diversity of genes with copy number variations among natural populations of the three-spined stickleback.Evolutionary applications · 2024Article
- Identification of the genetic characteristics of copy number variations in experimental specific pathogen-free ducks using whole-genome resequencing.BMC genomics · 2024Article
- Copy Number Variants in Two Northernmost Cattle Breeds Are Related to Their Adaptive Phenotypes.Genes · 2022Article
- Article
- Copy Number Variation (CNV): A New Genomic Insight in Horses.Animals : an open access journal from MDPI · 2022Article
- Intra-specific copy number variation of MHC class II genes in the Siamese fighting fish.Immunogenetics · 2022Article
- CNVpytor: a tool for copy number variation detection and analysis from read depth and allele imbalance in whole-genome sequencing.GigaScience · 2021Article
- Threespine Stickleback: A Model System For Evolutionary Genomics.Annual review of genomics and human genetics · 2021Review
- Extensive genome-wide duplications in the eastern oyster (Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2021Article
- Copy number variation underlies complex phenotypes in domestic dog breeds and other canids.Genome research · 2021Article
- A chromosome-level genome of Astyanax mexicanus surface fish for comparing population-specific genetic differences contributing to trait evolution.Nature communications · 2021Article
- The role of copy-number variation in the reinforcement of sexual isolation between the two European subspecies of the house mouse.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2020Article
- Article
- Inter- and intra-breed genome-wide copy number diversity in a large cohort of European equine breeds.BMC genomics · 2019Article
- The Genomic Substrate for Adaptive Radiation: Copy Number Variation across 12 Tribes of African Cichlid Species.Genome biology and evolution · 2019Article
- Genome-Wide Genotype-Expression Relationships Reveal Both Copy Number and Single Nucleotide Differentiation Contribute to Differential Gene Expression between Stickleback Ecotypes.Genome biology and evolution · 2019Article
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Authors and funding
11 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Duplicate genes emerge as copy-number variations (CNVs) at the population level, and remain copy-number polymorphic until they are fixed or lost. The successful establishment of such structural polymorphisms in the genome plays an important role in evolution by promoting genetic diversity, complexity and innovation. To characterize the early evolutionary stages of duplicate genes and their potential adaptive benefits, we combine comparative genomics with population genomics analyses to evaluate the distribution and impact of CNVs across natural populations of an eco-genomic model, the three-spined stickleback. With whole genome sequences of 66 individuals from populations inhabiting three distinct habitats, we find that CNVs generally occur at low frequencies and are often only found in one of the 11 populations surveyed. A subset of CNVs, however, displays copy-number differentiation between populations, showing elevated within-population frequencies consistent with local adaptation. By comparing teleost genomes to identify lineage-specific genes and duplications in sticklebacks, we highlight rampant gene content differences among individuals in which over 30% of young duplicate genes are CNVs. These CNV genes are evolving rapidly at the molecular level and are enriched with functional categories associated with environmental interactions, depicting the dynamic early copy-number polymorphic stage of genes during population differentiation.
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