Genomic regions influencing intramuscular fat in divergently selected rabbit lines
[EN] Intramuscular fat (IMF) is one of the main meat quality traits for breeding programs in livestock species. The main objective of this study was to identify genomic regions associated with IMF content comparing two rabbit populations divergently selected for this trait, and to generate a list of...
| Autores: | , , , , , , , , |
|---|---|
| Tipo de recurso: | artículo |
| Fecha de publicación: | 2020 |
| País: | España |
| Institución: | Universitat Politècnica de València (UPV) |
| Repositorio: | RiuNet. Repositorio Institucional de la Universitat Politécnica de Valéncia |
| Idioma: | inglés |
| OAI Identifier: | oai:riunet.upv.es:10251/165281 |
| Acceso en línea: | https://riunet.upv.es/handle/10251/165281 |
| Access Level: | acceso abierto |
| Palabra clave: | Divergent selection Genome-wide association study Intramuscular fat Meat quality Rabbits PRODUCCION ANIMAL |
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España |
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| dc.title.none.fl_str_mv |
Genomic regions influencing intramuscular fat in divergently selected rabbit lines |
| title |
Genomic regions influencing intramuscular fat in divergently selected rabbit lines |
| spellingShingle |
Genomic regions influencing intramuscular fat in divergently selected rabbit lines Sosa-Madrid, Bolivar Samuel Divergent selection Genome-wide association study Intramuscular fat Meat quality Rabbits PRODUCCION ANIMAL |
| title_short |
Genomic regions influencing intramuscular fat in divergently selected rabbit lines |
| title_full |
Genomic regions influencing intramuscular fat in divergently selected rabbit lines |
| title_fullStr |
Genomic regions influencing intramuscular fat in divergently selected rabbit lines |
| title_full_unstemmed |
Genomic regions influencing intramuscular fat in divergently selected rabbit lines |
| title_sort |
Genomic regions influencing intramuscular fat in divergently selected rabbit lines |
| dc.creator.none.fl_str_mv |
Sosa-Madrid, Bolivar Samuel Haley, Chris S. Fontanesi, Luca Pena, Romi N. Navarro, Pau Hernández, Pilar|||0000-0001-7857-7334 Blasco Mateu, Agustín|||0000-0003-3558-0810 Santacreu, María-Antonia|||0000-0002-6847-9551 Ibáñez-Escriche, Noelia|||0000-0002-6221-3576 |
| author |
Sosa-Madrid, Bolivar Samuel |
| author_facet |
Sosa-Madrid, Bolivar Samuel Haley, Chris S. Fontanesi, Luca Pena, Romi N. Navarro, Pau Hernández, Pilar|||0000-0001-7857-7334 Blasco Mateu, Agustín|||0000-0003-3558-0810 Santacreu, María-Antonia|||0000-0002-6847-9551 Ibáñez-Escriche, Noelia|||0000-0002-6221-3576 |
| author_role |
author |
| author2 |
Haley, Chris S. Fontanesi, Luca Pena, Romi N. Navarro, Pau Hernández, Pilar|||0000-0001-7857-7334 Blasco Mateu, Agustín|||0000-0003-3558-0810 Santacreu, María-Antonia|||0000-0002-6847-9551 Ibáñez-Escriche, Noelia|||0000-0002-6221-3576 |
| author2_role |
author author author author author author author author |
| dc.contributor.none.fl_str_mv |
Departamento de Ciencia Animal Instituto Universitario de Ciencia y Tecnología Animal Escuela Técnica Superior de Ingeniería Agronómica y del Medio Natural UK Research and Innovation Medical Research Council, Reino Unido Biotechnology and Biological Sciences Research Council, Reino Unido Ministerio de Economía y Competitividad Repositorio Institucional de la Universitat Politècnica de València Riunet |
| dc.subject.none.fl_str_mv |
Divergent selection Genome-wide association study Intramuscular fat Meat quality Rabbits PRODUCCION ANIMAL |
| topic |
Divergent selection Genome-wide association study Intramuscular fat Meat quality Rabbits PRODUCCION ANIMAL |
| description |
[EN] Intramuscular fat (IMF) is one of the main meat quality traits for breeding programs in livestock species. The main objective of this study was to identify genomic regions associated with IMF content comparing two rabbit populations divergently selected for this trait, and to generate a list of putative candidate genes. Animals were genotyped using the Affymetrix Axiom OrcunSNP Array (200k). After quality control, the data involved 477 animals and 93,540 single nucleotide polymorphisms (SNPs). Two methods were used in this research: single marker regressions with the data adjusted by genomic relatedness, and a Bayesian multi-marker regression. Associated genomic regions were located on the rabbit chromosomes (OCU) OCU1, OCU8 and OCU13. The highest value for the percentage of the genomic variance explained by a genomic region was found in two consecutive genomic windows on OCU8 (7.34%). Genes in the associated regions of OCU1 and OCU8 presented biological functions related to the control of adipose cell function, lipid binding, transportation and localization (APOLD1, PLBD1, PDE6H, GPRC5D, and GPRC5A) and lipid metabolic processes (MTMR2). The EWSR1 gene, underlying the OCU13 region, is linked to the development of brown adipocytes. The findings suggest that there is a large component of polygenic effect behind the differences in IMF content in these two lines, as the variance explained by most of the windows was low. The genomic regions of OCU1, OCU8 and OCU13 revealed novel candidate genes. Further studies would be needed to validate the associations and explore their possible application in selection programs. |
| publishDate |
2020 |
| dc.date.none.fl_str_mv |
2020 2020-02-01 |
| dc.type.none.fl_str_mv |
journal article http://purl.org/coar/resource_type/c_6501 VoR http://purl.org/coar/version/c_970fb48d4fbd8a85 |
| dc.type.openaire.fl_str_mv |
info:eu-repo/semantics/article |
| format |
article |
| dc.identifier.none.fl_str_mv |
https://riunet.upv.es/handle/10251/165281 |
| url |
https://riunet.upv.es/handle/10251/165281 |
| dc.language.none.fl_str_mv |
Inglés eng |
| language_invalid_str_mv |
Inglés |
| language |
eng |
| dc.relation.none.fl_str_mv |
UK Research and Innovation https://doi.org/10.13039/100014013 BBS%2FE%2FD%2F30002276 Complex phenotypes and genotype x environment interactions UK Research and Innovation https://doi.org/10.13039/100014013 MC_PC_U127592696 The Genetics of Complex and Quantitative Traits UK Research and Innovation https://doi.org/10.13039/100014013 MC_PC_U127561128 Quantitative trait locus (QTL) identification in a Croatian isolate Ministerio de Economía y Competitividad http://dx.doi.org/10.13039/501100003329 AGL2014-55921-C2-1-P ESTUDIO GENOMICO Y METABOLOMICO DE VARIAS LINEAS DE SELECCION DIVERGENTE EN CONEJO: EL CONEJO COMO MODELO EXPERIMENTAL Ministerio de Economía y Competitividad http://dx.doi.org/10.13039/501100003329 BES-2015-074194 BES-2015-074194 Ministerio de Economía y Competitividad http://dx.doi.org/10.13039/501100003329 RYC-2016-19764 |
| dc.rights.none.fl_str_mv |
open access http://purl.org/coar/access_right/c_abf2 Reconocimiento (by) http://creativecommons.org/licenses/by/4.0/ |
| dc.rights.openaire.fl_str_mv |
info:eu-repo/semantics/openAccess |
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open access http://purl.org/coar/access_right/c_abf2 Reconocimiento (by) http://creativecommons.org/licenses/by/4.0/ |
| eu_rights_str_mv |
openAccess |
| dc.format.none.fl_str_mv |
application/pdf |
| dc.publisher.none.fl_str_mv |
Blackwell Publishing |
| publisher.none.fl_str_mv |
Blackwell Publishing |
| dc.source.none.fl_str_mv |
reponame:RiuNet. Repositorio Institucional de la Universitat Politécnica de Valéncia instname:Universitat Politècnica de València (UPV) |
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Universitat Politècnica de València (UPV) |
| reponame_str |
RiuNet. Repositorio Institucional de la Universitat Politécnica de Valéncia |
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RiuNet. Repositorio Institucional de la Universitat Politécnica de Valéncia |
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1869408222360633344 |
| spelling |
Genomic regions influencing intramuscular fat in divergently selected rabbit linesSosa-Madrid, Bolivar SamuelHaley, Chris S.Fontanesi, LucaPena, Romi N.Navarro, PauHernández, Pilar|||0000-0001-7857-7334Blasco Mateu, Agustín|||0000-0003-3558-0810Santacreu, María-Antonia|||0000-0002-6847-9551Ibáñez-Escriche, Noelia|||0000-0002-6221-3576Divergent selectionGenome-wide association studyIntramuscular fatMeat qualityRabbitsPRODUCCION ANIMAL[EN] Intramuscular fat (IMF) is one of the main meat quality traits for breeding programs in livestock species. The main objective of this study was to identify genomic regions associated with IMF content comparing two rabbit populations divergently selected for this trait, and to generate a list of putative candidate genes. Animals were genotyped using the Affymetrix Axiom OrcunSNP Array (200k). After quality control, the data involved 477 animals and 93,540 single nucleotide polymorphisms (SNPs). Two methods were used in this research: single marker regressions with the data adjusted by genomic relatedness, and a Bayesian multi-marker regression. Associated genomic regions were located on the rabbit chromosomes (OCU) OCU1, OCU8 and OCU13. The highest value for the percentage of the genomic variance explained by a genomic region was found in two consecutive genomic windows on OCU8 (7.34%). Genes in the associated regions of OCU1 and OCU8 presented biological functions related to the control of adipose cell function, lipid binding, transportation and localization (APOLD1, PLBD1, PDE6H, GPRC5D, and GPRC5A) and lipid metabolic processes (MTMR2). The EWSR1 gene, underlying the OCU13 region, is linked to the development of brown adipocytes. The findings suggest that there is a large component of polygenic effect behind the differences in IMF content in these two lines, as the variance explained by most of the windows was low. The genomic regions of OCU1, OCU8 and OCU13 revealed novel candidate genes. Further studies would be needed to validate the associations and explore their possible application in selection programs.The work was funded by project AGL2014-55921-C2-1-P from National Programme for Fostering Excellence in Scientific and Technical Research -Project I+D. BSS was supported by a FPI grant from the Ministry of Economy and Competitiveness of Spain+ (BES-2015-074194). NIB was supported with a "Ramon y Cajal" grant provided by Ministerio de Ciencia e Innovacion (RYC-2016-19764). CSH and PN were supported by the Medical Research Council (United kingdom, grants MC_PC_U127592696 and MC_PC_U127561128). CSH was supported by Biotechnology and Biological Sciences Research Council (United Kingdom, Grant/Award Number: BBS/E/D/30002276).Blackwell PublishingDepartamento de Ciencia AnimalInstituto Universitario de Ciencia y Tecnología AnimalEscuela Técnica Superior de Ingeniería Agronómica y del Medio NaturalUK Research and InnovationMedical Research Council, Reino UnidoBiotechnology and Biological Sciences Research Council, Reino UnidoMinisterio de Economía y CompetitividadRepositorio Institucional de la Universitat Politècnica de València Riunet20202020-02-01journal articlehttp://purl.org/coar/resource_type/c_6501VoRhttp://purl.org/coar/version/c_970fb48d4fbd8a85info:eu-repo/semantics/articleapplication/pdfhttps://riunet.upv.es/handle/10251/165281reponame:RiuNet. Repositorio Institucional de la Universitat Politécnica de Valénciainstname:Universitat Politècnica de València (UPV)InglésengUK Research and Innovation https://doi.org/10.13039/100014013 BBS%2FE%2FD%2F30002276 Complex phenotypes and genotype x environment interactionsUK Research and Innovation https://doi.org/10.13039/100014013 MC_PC_U127592696 The Genetics of Complex and Quantitative TraitsUK Research and Innovation https://doi.org/10.13039/100014013 MC_PC_U127561128 Quantitative trait locus (QTL) identification in a Croatian isolateMinisterio de Economía y Competitividad http://dx.doi.org/10.13039/501100003329 AGL2014-55921-C2-1-P ESTUDIO GENOMICO Y METABOLOMICO DE VARIAS LINEAS DE SELECCION DIVERGENTE EN CONEJO: EL CONEJO COMO MODELO EXPERIMENTALMinisterio de Economía y Competitividad http://dx.doi.org/10.13039/501100003329 BES-2015-074194 BES-2015-074194Ministerio de Economía y Competitividad http://dx.doi.org/10.13039/501100003329 RYC-2016-19764open accesshttp://purl.org/coar/access_right/c_abf2Reconocimiento (by)http://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:riunet.upv.es:10251/1652812026-06-13T07:49:27Z |
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15,300719 |