Genomic regions influencing intramuscular fat in divergently selected rabbit lines

Intramuscular fat (IMF) is one of the main meat quality traits for breeding programmes 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 pu...

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Autores: Sosa‐Madrid, Bolívar Samuel, Hernández, Pilar, Blasco, Agustín, Haley, Chris, Fontanesi, Luca, Santacreu, María Antonia, Pena i Subirà, Ramona Natacha, Navarro, Pau, Ibáñez-Escriche, N.
Tipo de documento: artigo
Estado:Versão publicada
Data de publicação:2019
País:España
Recursos:Universitat de Lleida (UdL)
Repositório:Repositori Obert UdL
OAI Identifier:oai:repositori.udl.cat:10459.1/67765
Acesso em linha:https://doi.org/10.1111/age.12873
http://hdl.handle.net/10459.1/67765
Access Level:Acceso aberto
Palavra-chave:Divergent selection
Genome-wide association studies
Rabbits
Intramuscular fat
Meat quality
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spelling Genomic regions influencing intramuscular fat in divergently selected rabbit linesSosa‐Madrid, Bolívar SamuelHernández, PilarBlasco, AgustínHaley, ChrisFontanesi, LucaSantacreu, María AntoniaPena i Subirà, Ramona NatachaNavarro, PauIbáñez-Escriche, N.Divergent selectionGenome-wide association studiesRabbitsIntramuscular fatMeat qualityIntramuscular fat (IMF) is one of the main meat quality traits for breeding programmes 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 SNPs. Two methods were used in this research: single marker regressions with the data adjusted by genomic relatedness, and a Bayesian multiple 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 localisation (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 programmes.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 Innovación (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).Wiley2019info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttps://doi.org/10.1111/age.12873http://hdl.handle.net/10459.1/67765reponame:Repositori Obert UdL instname:Universitat de Lleida (UdL)Inglésinfo:eu-repo/grantAgreement/MINECO//BES-2015-074194info:eu-repo/grantAgreement/MINECO//AGL2014-55921-C2-1-PReproducció del document publicat a: https://doi.org/10.1111/age.12873Animal Genetics, 2020, vol. 51, num. 1, p. 58-69cc-by (c) Sosa-Madrid et al., 2019info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by/4.0oai:repositori.udl.cat:10459.1/677652026-06-24T12:42:17Z
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, Bolívar Samuel
Divergent selection
Genome-wide association studies
Rabbits
Intramuscular fat
Meat quality
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, Bolívar Samuel
Hernández, Pilar
Blasco, Agustín
Haley, Chris
Fontanesi, Luca
Santacreu, María Antonia
Pena i Subirà, Ramona Natacha
Navarro, Pau
Ibáñez-Escriche, N.
author Sosa‐Madrid, Bolívar Samuel
author_facet Sosa‐Madrid, Bolívar Samuel
Hernández, Pilar
Blasco, Agustín
Haley, Chris
Fontanesi, Luca
Santacreu, María Antonia
Pena i Subirà, Ramona Natacha
Navarro, Pau
Ibáñez-Escriche, N.
author_role author
author2 Hernández, Pilar
Blasco, Agustín
Haley, Chris
Fontanesi, Luca
Santacreu, María Antonia
Pena i Subirà, Ramona Natacha
Navarro, Pau
Ibáñez-Escriche, N.
author2_role author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Divergent selection
Genome-wide association studies
Rabbits
Intramuscular fat
Meat quality
topic Divergent selection
Genome-wide association studies
Rabbits
Intramuscular fat
Meat quality
description Intramuscular fat (IMF) is one of the main meat quality traits for breeding programmes 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 SNPs. Two methods were used in this research: single marker regressions with the data adjusted by genomic relatedness, and a Bayesian multiple 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 localisation (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 programmes.
publishDate 2019
dc.date.none.fl_str_mv 2019
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv https://doi.org/10.1111/age.12873
http://hdl.handle.net/10459.1/67765
url https://doi.org/10.1111/age.12873
http://hdl.handle.net/10459.1/67765
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv info:eu-repo/grantAgreement/MINECO//BES-2015-074194
info:eu-repo/grantAgreement/MINECO//AGL2014-55921-C2-1-P
Reproducció del document publicat a: https://doi.org/10.1111/age.12873
Animal Genetics, 2020, vol. 51, num. 1, p. 58-69
dc.rights.none.fl_str_mv cc-by (c) Sosa-Madrid et al., 2019
info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by/4.0
rights_invalid_str_mv cc-by (c) Sosa-Madrid et al., 2019
https://creativecommons.org/licenses/by/4.0
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Wiley
publisher.none.fl_str_mv Wiley
dc.source.none.fl_str_mv reponame:Repositori Obert UdL
instname:Universitat de Lleida (UdL)
instname_str Universitat de Lleida (UdL)
reponame_str Repositori Obert UdL
collection Repositori Obert UdL
repository.name.fl_str_mv
repository.mail.fl_str_mv
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