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The effect of divergent selection for intramuscular fat on the domestic rabbit genome

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The effect of divergent selection for intramuscular fat on the domestic rabbit genome

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dc.contributor.author Sosa-Madrid, Bolivar Samuel es_ES
dc.contributor.author Varona, L. es_ES
dc.contributor.author Blasco Mateu, Agustín es_ES
dc.contributor.author Hernández, Pilar es_ES
dc.contributor.author Casto-Rebollo, Cristina es_ES
dc.contributor.author Ibáñez-Escriche, Noelia es_ES
dc.date.accessioned 2021-04-20T03:30:57Z
dc.date.available 2021-04-20T03:30:57Z
dc.date.issued 2020-11 es_ES
dc.identifier.issn 1751-7311 es_ES
dc.identifier.uri http://hdl.handle.net/10251/165355
dc.description.abstract [EN] An experiment of divergent selection for intramuscular fat was carried out at Universitat Politecnica de Valencia. The high response of selection in intramuscular fat content, after nine generations of selection, and a multidimensional scaling analysis showed a high degree of genomic differentiation between the two divergent populations. Therefore, local genomic differences could link genomic regions, encompassing selective sweeps, to the trait used as selection criterion. In this sense, the aim of this study was to identify genomic regions related to intramuscular fat through three methods for detection of selection signatures and to generate a list of candidate genes. The methods implemented in this study were Wright's fixation index, cross population composite likelihood ratio and cross population - extended haplotype homozygosity. Genomic data came from the 9th generation of the two populations divergently selected, 237 from Low line and 240 from High line. A high single nucleotide polymorphism (SNP) density array, Affymetrix Axiom OrcunSNP Array (around 200k SNPs), was used for genotyping samples. Several genomic regions distributed along rabbit chromosomes (OCU) were identified as signatures of selection (SNPs having a value above cut-off of 1%) within each method. In contrast, 8 genomic regions, harbouring 80 SNPs (OCU1, OCU3, OCU6, OCU7, OCU16 and OCU17), were identified by at least 2 methods and none by the 3 methods. In general, our results suggest that intramuscular fat selection influenced multiple genomic regions which can be a consequence of either only selection effect or the combined effect of selection and genetic drift. In addition, 73 genes were retrieved from the 8 selection signatures. After functional and enrichment analyses, the main genes into the selection signatures linked to energy, fatty acids, carbohydrates and lipid metabolic processes wereACER2, PLIN2, DENND4C, RPS6, RRAGA(OCU1),ST8SIA6, VIM(OCU16),RORA, GANCandPLA2G4B(OCU17). This genomic scan is the first study using rabbits from a divergent selection experiment. Our results pointed out a large polygenic component of the intramuscular fat content. Besides, promising positional candidate genes would be analysed in further studies in order to bear out their contributions to this trait and their feasible implications for rabbit breeding programmes. es_ES
dc.description.sponsorship The authors thank Federico Pardo, Veronica Juste and Marina Morini for technical assistance. The work was funded by project AGL2014-55921-C2-1-P and AGL2017-86083-C2-P1 from National Programme for Fostering Excellence in Scientific and Technical Research - Project I+D. B. Samuel Sosa-Madrid was supported by a FPI grant from the Economy Ministry of Spain (BES-2015-074194). es_ES
dc.language Inglés es_ES
dc.publisher Cambridge University Press es_ES
dc.relation.ispartof Animal es_ES
dc.rights Reconocimiento - No comercial - Sin obra derivada (by-nc-nd) es_ES
dc.subject Genome scan es_ES
dc.subject Genomic divergence es_ES
dc.subject Lagomorph es_ES
dc.subject Meat quality es_ES
dc.subject Selection signatures es_ES
dc.subject.classification PRODUCCION ANIMAL es_ES
dc.title The effect of divergent selection for intramuscular fat on the domestic rabbit genome es_ES
dc.type Artículo es_ES
dc.identifier.doi 10.1017/S1751731120001263 es_ES
dc.relation.projectID info:eu-repo/grantAgreement/MINECO//AGL2014-55921-C2-1-P/ES/ESTUDIO GENOMICO Y METABOLOMICO DE VARIAS LINEAS DE SELECCION DIVERGENTE EN CONEJO: EL CONEJO COMO MODELO EXPERIMENTAL/ es_ES
dc.relation.projectID info:eu-repo/grantAgreement/MINECO//BES-2015-074194/ES/BES-2015-074194/ es_ES
dc.relation.projectID info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2013-2016/AGL2017-86083-C2-1-P/ES/ESTUDIO MULTIOMICO SOBRE SENSIBILIDAD AMBIENTAL, LONGEVIDAD Y DEPOSICION GRASA EN LINEAS SELECCIONADAS DE CONEJO/ es_ES
dc.rights.accessRights Abierto es_ES
dc.contributor.affiliation Universitat Politècnica de València. Departamento de Ciencia Animal - Departament de Ciència Animal es_ES
dc.description.bibliographicCitation Sosa-Madrid, BS.; Varona, L.; Blasco Mateu, A.; Hernández, P.; Casto-Rebollo, C.; Ibáñez-Escriche, N. (2020). The effect of divergent selection for intramuscular fat on the domestic rabbit genome. Animal. 14(11):2225-2235. https://doi.org/10.1017/S1751731120001263 es_ES
dc.description.accrualMethod S es_ES
dc.relation.publisherversion https://doi.org/10.1017/S1751731120001263 es_ES
dc.description.upvformatpinicio 2225 es_ES
dc.description.upvformatpfin 2235 es_ES
dc.type.version info:eu-repo/semantics/publishedVersion es_ES
dc.description.volume 14 es_ES
dc.description.issue 11 es_ES
dc.identifier.pmid 32618550 es_ES
dc.relation.pasarela S\395343 es_ES
dc.contributor.funder Agencia Estatal de Investigación es_ES
dc.contributor.funder Ministerio de Economía y Competitividad es_ES
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