Genome-Wide Association Study of Maternal Genetic Effects on Intramuscular Fat and Fatty Acid Composition in Rabbits
Maternal genetic effects (MGE) could affect meat quality traits such as intramuscular fat (IMF) and its fatty acid composition. However, it has been scarcely studied, especially in rabbits. The objectives of the present study were, first, to assess the importance of MGE on intramuscular fat and fatt...
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MDPI AG
2023-09-01
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| author | Ayman G. EL Nagar Imen Heddi Bolívar Samuel Sosa-Madrid Agustín Blasco Pilar Hernández Noelia Ibáñez-Escriche |
| author_facet | Ayman G. EL Nagar Imen Heddi Bolívar Samuel Sosa-Madrid Agustín Blasco Pilar Hernández Noelia Ibáñez-Escriche |
| author_sort | Ayman G. EL Nagar |
| collection | DOAJ |
| description | Maternal genetic effects (MGE) could affect meat quality traits such as intramuscular fat (IMF) and its fatty acid composition. However, it has been scarcely studied, especially in rabbits. The objectives of the present study were, first, to assess the importance of MGE on intramuscular fat and fatty acid composition by applying a Bayesian maternal animal model in two rabbit lines divergently selected for IMF. The second objective was to identify genomic regions and candidate genes of MGE that are associated with the traits of these offspring, using Bayesian methods in a Genome Wide Association Study (GWAS). Quantitative analyses were performed using data from 1982 rabbits, and 349 animals from the 9th generation and 76 dams of the 8th generation with 88,512 SNPs were used for the GWAS. The studied traits were IMF, saturated fatty acids (total SFA, C14:0; myristic acid, C16:0; palmitic acid and C18:0; stearic acid), monounsaturated fatty acids (total MUFA, C16:1n-7; palmitoleic acid and C18:1n-9; oleic acid), polyunsaturated fatty acids (total PUFA, C18:2n-6; linoleic acid, C18:3n-3; α-linolenic acid and C20:4n-6; arachidonic acid), MUFA/SFA and PUFA/SFA. The proportion of phenotypic variance explained by the maternal genetic effect ranged from 8 to 22% for IMF, depending on the model. For fatty acid composition, the proportion of phenotypic variance explained by maternal genetic effects varied from 10% (C18:0) to 46% (MUFA) in a model including both direct and additive maternal genetic effects, together with the common litter effect as a random variable. In particular, there were significant direct maternal genetic correlations for C16:0, C18:1n9, C18:2n6, SFA, MUFA, and PUFA with values ranging from −0.53 to −0.89. Relevant associated genomic regions were located on the rabbit chromosomes (OCU) OCU1, OCU5 and OCU19 containing some relevant candidates (<i>TANC2</i>, <i>ACE</i>, <i>MAP3K3</i>, <i>TEX2</i>, <i>PRKCA</i>, <i>SH3GL2</i>, <i>CNTLN</i>, <i>RPGRIP1L</i> and <i>FTO</i>) related to lipid metabolism, binding, and obesity. These regions explained about 1.2 to 13.9% of the total genomic variance of the traits studied. Our results showed an important maternal genetic effect on IMF and its fatty acid composition in rabbits and identified promising candidate genes associated with these traits. |
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| spelling | doaj.art-e867fad88a9e403a9d70fbca12df72642023-11-19T13:59:49ZengMDPI AGAnimals2076-26152023-09-011319307110.3390/ani13193071Genome-Wide Association Study of Maternal Genetic Effects on Intramuscular Fat and Fatty Acid Composition in RabbitsAyman G. EL Nagar0Imen Heddi1Bolívar Samuel Sosa-Madrid2Agustín Blasco3Pilar Hernández4Noelia Ibáñez-Escriche5Institute for Animal Science and Technology, Universitat Politècnica de València, 46022 Valencia, SpainCentro Regional de Selección y Reproducción Animal (CERSYRA), Av. del Vino, 10, 13300 Valdepeñas, SpainInstitute for Animal Science and Technology, Universitat Politècnica de València, 46022 Valencia, SpainInstitute for Animal Science and Technology, Universitat Politècnica de València, 46022 Valencia, SpainInstitute for Animal Science and Technology, Universitat Politècnica de València, 46022 Valencia, SpainInstitute for Animal Science and Technology, Universitat Politècnica de València, 46022 Valencia, SpainMaternal genetic effects (MGE) could affect meat quality traits such as intramuscular fat (IMF) and its fatty acid composition. However, it has been scarcely studied, especially in rabbits. The objectives of the present study were, first, to assess the importance of MGE on intramuscular fat and fatty acid composition by applying a Bayesian maternal animal model in two rabbit lines divergently selected for IMF. The second objective was to identify genomic regions and candidate genes of MGE that are associated with the traits of these offspring, using Bayesian methods in a Genome Wide Association Study (GWAS). Quantitative analyses were performed using data from 1982 rabbits, and 349 animals from the 9th generation and 76 dams of the 8th generation with 88,512 SNPs were used for the GWAS. The studied traits were IMF, saturated fatty acids (total SFA, C14:0; myristic acid, C16:0; palmitic acid and C18:0; stearic acid), monounsaturated fatty acids (total MUFA, C16:1n-7; palmitoleic acid and C18:1n-9; oleic acid), polyunsaturated fatty acids (total PUFA, C18:2n-6; linoleic acid, C18:3n-3; α-linolenic acid and C20:4n-6; arachidonic acid), MUFA/SFA and PUFA/SFA. The proportion of phenotypic variance explained by the maternal genetic effect ranged from 8 to 22% for IMF, depending on the model. For fatty acid composition, the proportion of phenotypic variance explained by maternal genetic effects varied from 10% (C18:0) to 46% (MUFA) in a model including both direct and additive maternal genetic effects, together with the common litter effect as a random variable. In particular, there were significant direct maternal genetic correlations for C16:0, C18:1n9, C18:2n6, SFA, MUFA, and PUFA with values ranging from −0.53 to −0.89. Relevant associated genomic regions were located on the rabbit chromosomes (OCU) OCU1, OCU5 and OCU19 containing some relevant candidates (<i>TANC2</i>, <i>ACE</i>, <i>MAP3K3</i>, <i>TEX2</i>, <i>PRKCA</i>, <i>SH3GL2</i>, <i>CNTLN</i>, <i>RPGRIP1L</i> and <i>FTO</i>) related to lipid metabolism, binding, and obesity. These regions explained about 1.2 to 13.9% of the total genomic variance of the traits studied. Our results showed an important maternal genetic effect on IMF and its fatty acid composition in rabbits and identified promising candidate genes associated with these traits.https://www.mdpi.com/2076-2615/13/19/3071divergent selectionmaternal genetic effectsintramuscular fatfatty acidsGWASrabbits |
| spellingShingle | Ayman G. EL Nagar Imen Heddi Bolívar Samuel Sosa-Madrid Agustín Blasco Pilar Hernández Noelia Ibáñez-Escriche Genome-Wide Association Study of Maternal Genetic Effects on Intramuscular Fat and Fatty Acid Composition in Rabbits Animals divergent selection maternal genetic effects intramuscular fat fatty acids GWAS rabbits |
| title | Genome-Wide Association Study of Maternal Genetic Effects on Intramuscular Fat and Fatty Acid Composition in Rabbits |
| title_full | Genome-Wide Association Study of Maternal Genetic Effects on Intramuscular Fat and Fatty Acid Composition in Rabbits |
| title_fullStr | Genome-Wide Association Study of Maternal Genetic Effects on Intramuscular Fat and Fatty Acid Composition in Rabbits |
| title_full_unstemmed | Genome-Wide Association Study of Maternal Genetic Effects on Intramuscular Fat and Fatty Acid Composition in Rabbits |
| title_short | Genome-Wide Association Study of Maternal Genetic Effects on Intramuscular Fat and Fatty Acid Composition in Rabbits |
| title_sort | genome wide association study of maternal genetic effects on intramuscular fat and fatty acid composition in rabbits |
| topic | divergent selection maternal genetic effects intramuscular fat fatty acids GWAS rabbits |
| url | https://www.mdpi.com/2076-2615/13/19/3071 |
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