{"paper_id":"57e9f6e0-380e-442b-a508-e97b50a20870","body_text":"Genetic and neuro-epigenetic effects of divergent artificial selection for feather pecking behaviour in chickens | Research Square window.SnipcartSettings = { analytics: { enabled: false } }; (function() { var accessVector = localStorage.getItem('access_vector') || ''; window.dataLayer = window.dataLayer || []; if (accessVector) { window.dataLayer.push({ user: { profile: { profileInfo: { snid: accessVector } } } }); } })(); (function(w,d,s,l,i){w[l]=w[l]||[];w[l].push({'gtm.start':new Date().getTime(),event:'gtm.js'});var f=d.getElementsByTagName(s)[0],j=d.createElement(s),dl=l!='dataLayer'?'&l='+l:'';j.async=true;j.src='https://www.googletagmanager.com/gtm.js?id='+i+dl;f.parentNode.insertBefore(j,f);})(window,document,'script','dataLayer','GTM-K279D39R'); Browse Preprints In Review Journals COVID-19 Preprints AJE Video Bytes Research Tools Research Promotion AJE Professional Editing AJE Rubriq About Preprint Platform In Review Editorial Policies Our Team Advisory Board Help Center Sign In Submit a Preprint Cite Share Download PDF Research Article Genetic and neuro-epigenetic effects of divergent artificial selection for feather pecking behaviour in chickens Elske N. Haas, Fábio Pértille, Joergen B. Kjaer, Per Jensen, Carlos Guerrero-Bosagna This is a preprint; it has not been peer reviewed by a journal. https://doi.org/ 10.21203/rs.3.rs-4998568/v1 This work is licensed under a CC BY 4.0 License Status: Published Journal Publication published 19 Dec, 2024 Read the published version in BMC Genomics → Version 1 posted 4 You are reading this latest preprint version Abstract Feather pecking (FP) is a repetitive behavior in chickens, influenced by genetic, epigenetic, and environmental factors, similar to behaviors seen in human developmental disorders (e.g., hyperactivity, autism). This study examines genetic and neuro-epigenetic factors in the thalamus of chickens from lines selected for seven generations for high or low FP behavior (HFP or LFP). We integrate data on DMRs, SNPs, and CNVs in this controlled artificial selection process. Significant differences in behavior, immunology, and neurology have been reported in these lines. We identified 710 new SNPs related to FP, and found that CNVs was the omic level most affected during selection. The largest CNVs found were in RIC3 (gain in HFP) and SH3RF2 (gain in LFP) genes, linked to nicotinic acetylcholine receptor regulation and human oncogenesis, respectively. Our study also suggests that promoters and introns are hotspots for CpG depletion. The overlapping of the omic levels investigated here with data from a public FP QTL database revealed novel candidate genes for understanding repetitive behaviors, such as RTKN2, associated with Alzheimer’s disease in humans. This study suggests CNVs as a crucial initial step for genomic diversification, potentially more impactful than SNPs. Full Text Additional Declarations No competing interests reported. Supplementary Files Additionalfile1FigS1.tif Additionalfile2TableS1.xlsx Additionalfile3TableS2.pdf Additionalfile4TableS3.pdf Additionalfile5TableS4.xlsx Additionalfile6TableS5.xlsx Additionalfile7TableS6.xlsx Additionalfile8TableS7.pdf Additionalfile9TableS8.xlsx Additionalfile10TableS9.xlsx Additionalfile11TableS10.xlsx Additionalfile12FigS2.tif Additionalfile13TableS11.pdf Cite Share Download PDF Status: Published Journal Publication published 19 Dec, 2024 Read the published version in BMC Genomics → Version 1 posted Editorial decision: Revision requested 30 Aug, 2024 Editor assigned by journal 30 Aug, 2024 Submission checks completed at journal 29 Aug, 2024 First submitted to journal 29 Aug, 2024 You are reading this latest preprint version Research Square lets you share your work early, gain feedback from the community, and start making changes to your manuscript prior to peer review in a journal. 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pecking behaviour in chickens\",\"fulltext\":[],\"fulltextSource\":\"\",\"fullText\":\"\",\"funders\":[],\"hasAdminPriorityOnWorkflow\":false,\"hasManuscriptDocX\":false,\"hasOptedInToPreprint\":true,\"hasPassedJournalQc\":\"\",\"hasAnyPriority\":false,\"hideJournal\":false,\"highlight\":\"\",\"institution\":\"\",\"isAcceptedByJournal\":true,\"isAuthorSuppliedPdf\":true,\"isDeskRejected\":\"\",\"isHiddenFromSearch\":false,\"isInQc\":false,\"isInWorkflow\":false,\"isPdf\":true,\"isPdfUpToDate\":true,\"isWithdrawnOrRetracted\":false,\"journal\":{\"display\":true,\"email\":\"info@researchsquare.com\",\"identity\":\"bmc-genomics\",\"isNatureJournal\":false,\"hasQc\":true,\"allowDirectSubmit\":false,\"externalIdentity\":\"gics\",\"sideBox\":\"Learn more about [BMC Genomics](http://bmcgenomics.biomedcentral.com/)\",\"snPcode\":\"\",\"submissionUrl\":\"https://www.editorialmanager.com/gics\",\"title\":\"BMC 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This study examines genetic and neuro-epigenetic factors in the thalamus of chickens from lines selected for seven generations for high or low FP behavior (HFP or LFP). We integrate data on DMRs, SNPs, and CNVs in this controlled artificial selection process. Significant differences in behavior, immunology, and neurology have been reported in these lines. We identified 710 new SNPs related to FP, and found that CNVs was the omic level most affected during selection. The largest CNVs found were in RIC3 (gain in HFP) and SH3RF2 (gain in LFP) genes, linked to nicotinic acetylcholine receptor regulation and human oncogenesis, respectively. Our study also suggests that promoters and introns are hotspots for CpG depletion. The overlapping of the omic levels investigated here with data from a public FP QTL database revealed novel candidate genes for understanding repetitive behaviors, such as RTKN2, associated with Alzheimer’s disease in humans. 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