ArticlePLoS genetics2019
Genetics of adaptation in modern chicken.
Article in PLoS genetics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 72 papers.
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Who cites it
72 citing papers in PubMed, 168 citations in OpenAlex.
- Whole-genome sequencing identifies genetic diversity and adaptive signatures of hypoxia and ultraviolet radiation in Chinese chickens.Journal of advanced research · 2026Article
- Multidimensional GWAS analyses on longitudinal phenotypes reveal candidate genes regulating multi-stage egg production traits in Wannan yellow chicken.Poultry science · 2026Article
- Comparative and population genomics analyses of eared pheasants inhabiting highly varying altitudes.BMC genomics · 2026Article
- Integrative genomic analysis and gene expression patterns reveal a cardio-neuroendocrine signaling network for heat adaptation in geographically diverse chickens.Poultry science · 2026Article
- Genomic analysis of the Ixworth chicken: insights into a local dual-purpose breed.BMC genomics · 2026Article
- Whole-Genome Resequencing Reveals Population Structure and Loci Associated with Growth and Meat-Quality Traits in Meigu Yanying Chickens.Animals : an open access journal from MDPI · 2026Article
- Sequencing and Analysis of Chicken Segmented Filamentous Bacteria Genome Revealed Unique Avian-Specific Features.Microorganisms · 2026Article
- Functional gut microbiota dynamics of generalist and specialist bacteria in association with chicken growth.ISME communications · 2026Article
- Article
- The origin patterns, admixture, and selection signatures of the global gamecock populations.Poultry science · 2025Article
- Haplotype-resolved genome and pan-genome graphs reveal the impacts of structural variation on functional genome and feather colors in chickens.iMetaOmics · 2025Article
- Whole-genome resequencing revealed genetic structure and specific breed identification loci of Ningxia Jingyuan chicken breed (Gallus gallus).BMC genomics · 2025Article
- Heat stress and the chicken gastrointestinal microbiota: a systematic review.Journal of animal science and biotechnology · 2025Review
- Genetic traceability, conservation effectiveness, and selection signatures analysis based on ancestral information: a case study of Beijing-You chicken.BMC genomics · 2025Article
- Design and verification of a 25 K multiple-SNP liquid-capture chip by target sequencing for dairy goat.BMC genomics · 2025Article
- Comparative Analysis of Runs of Homozygosity Islands in Indigenous and Commercial Chickens Revealed Candidate Loci for Disease Resistance and Production Traits.Veterinary medicine and science · 2025Article
- Omics in mini-livestock: a genomic perspective on the future of sustainable food systems.Frontiers in genetics · 2025Review
- Detection of domestication signals through the analysis of the full distribution of fitness effects.Peer community journal · 2025Article
- Whole genome sequencing of three native chicken varieties (Common Deshi, Hilly and Naked Neck) of Bangladesh.Scientific data · 2024Article
- Signals of selection and ancestry in independently feral Gallus gallus populations.Molecular ecology · 2024Article
12 more citing papers are in PubMed but not listed here.
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Authors and funding
14 authors at 8 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We carried out whole genome resequencing of 127 chicken including red jungle fowl and multiple populations of commercial broilers and layers to perform a systematic screening of adaptive changes in modern chicken (Gallus gallus domesticus). We uncovered >21 million high quality SNPs of which 34% are newly detected variants. This panel comprises >115,000 predicted amino-acid altering substitutions as well as 1,100 SNPs predicted to be stop-gain or -loss, several of which reach high frequencies. Signatures of selection were investigated both through analyses of fixation and differentiation to reveal selective sweeps that may have had prominent roles during domestication and breed development. Contrasting wild and domestic chicken we confirmed selection at the BCO2 and TSHR loci and identified 34 putative sweeps co-localized with ALX1, KITLG, EPGR, IGF1, DLK1, JPT2, CRAMP1, and GLI3, among others. Analysis of enrichment between groups of wild vs. commercials and broilers vs. layers revealed a further panel of candidate genes including CORIN, SKIV2L2 implicated in pigmentation and LEPR, MEGF10 and SPEF2, suggestive of production-oriented selection. SNPs with marked allele frequency differences between wild and domestic chicken showed a highly significant deficiency in the proportion of amino-acid altering mutations (P<2.5×10-6). The results contribute to the understanding of major genetic changes that took place during the evolution of modern chickens and in poultry breeding.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.