Transgenerational epigenetic heritability for growth, body composition, and reproductive traits in Landrace pigs
Epigenetics is an important source of variation in complex traits that is not due to changes in DNA sequences, and is dependent on the environment the individuals are exposed to. Therefore, we aimed to estimate transgenerational epigenetic heritability, percentage of resetting epigenetic marks, gene...
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Frontiers Media S.A.
2025-01-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fgene.2024.1526473/full |
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| author | Andre C. Araujo Jay S. Johnson Jason R. Graham Jeremy Howard Yijian Huang Hinayah R. Oliveira Luiz F. Brito |
| author_facet | Andre C. Araujo Jay S. Johnson Jason R. Graham Jeremy Howard Yijian Huang Hinayah R. Oliveira Luiz F. Brito |
| author_sort | Andre C. Araujo |
| collection | DOAJ |
| description | Epigenetics is an important source of variation in complex traits that is not due to changes in DNA sequences, and is dependent on the environment the individuals are exposed to. Therefore, we aimed to estimate transgenerational epigenetic heritability, percentage of resetting epigenetic marks, genetic parameters, and predicting breeding values using genetic and epigenetic models for growth, body composition, and reproductive traits in Landrace pigs using routinely recorded datasets. Birth and weaning weight, backfat thickness, total number of piglets born, and number of piglets born alive (BW, WW, BF, TNB, and NBA, respectively) were investigated. Models including epigenetic effects had a similar or better fit than solely genetic models. Including genomic information in epigenetic models resulted in large changes in the variance component estimates. Transgenerational epigenetic heritability estimates ranged between 0.042 (NBA) to 0.336 (BF). The reset coefficient estimates for epigenetic marks were between 80% and 90%. Heritability estimates for the direct additive and maternal genetic effects ranged between 0.040 (BW) to 0.502 (BF) and 0.034 (BF) to 0.134 (BW), respectively. Repeatability of the reproductive traits ranged between 0.098 (NBA) to 0.148 (TNB). Prediction accuracies, bias, and dispersion of breeding values ranged between 0.199 (BW) to 0.443 (BF), −0.080 (WW) to 0.034 (NBA), and −0.134 (WW) to 0.131 (TNB), respectively, with no substantial differences between genetic and epigenetic models. Transgenerational epigenetic heritability estimates are moderate for growth and body composition and low for reproductive traits in North American Landrace pigs. Fitting epigenetic effects in genetic models did not impact the prediction of breeding values. |
| format | Article |
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| institution | Kabale University |
| issn | 1664-8021 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Genetics |
| spelling | doaj-art-d54a59684d164bcb87bf5081bed7b6cc2025-01-23T06:56:27ZengFrontiers Media S.A.Frontiers in Genetics1664-80212025-01-011510.3389/fgene.2024.15264731526473Transgenerational epigenetic heritability for growth, body composition, and reproductive traits in Landrace pigsAndre C. Araujo0Jay S. Johnson1Jason R. Graham2Jeremy Howard3Yijian Huang4Hinayah R. Oliveira5Luiz F. Brito6Department of Animal Sciences, Purdue University, West Lafayette, IN, United StatesLivestock Behavior Research Unity, USDA-ARS, West Lafayette, IN, United StatesDepartment of Animal Sciences, Purdue University, West Lafayette, IN, United StatesSmithfield Premium Genetics, Rose Hill, NC, United StatesSmithfield Premium Genetics, Rose Hill, NC, United StatesDepartment of Animal Sciences, Purdue University, West Lafayette, IN, United StatesDepartment of Animal Sciences, Purdue University, West Lafayette, IN, United StatesEpigenetics is an important source of variation in complex traits that is not due to changes in DNA sequences, and is dependent on the environment the individuals are exposed to. Therefore, we aimed to estimate transgenerational epigenetic heritability, percentage of resetting epigenetic marks, genetic parameters, and predicting breeding values using genetic and epigenetic models for growth, body composition, and reproductive traits in Landrace pigs using routinely recorded datasets. Birth and weaning weight, backfat thickness, total number of piglets born, and number of piglets born alive (BW, WW, BF, TNB, and NBA, respectively) were investigated. Models including epigenetic effects had a similar or better fit than solely genetic models. Including genomic information in epigenetic models resulted in large changes in the variance component estimates. Transgenerational epigenetic heritability estimates ranged between 0.042 (NBA) to 0.336 (BF). The reset coefficient estimates for epigenetic marks were between 80% and 90%. Heritability estimates for the direct additive and maternal genetic effects ranged between 0.040 (BW) to 0.502 (BF) and 0.034 (BF) to 0.134 (BW), respectively. Repeatability of the reproductive traits ranged between 0.098 (NBA) to 0.148 (TNB). Prediction accuracies, bias, and dispersion of breeding values ranged between 0.199 (BW) to 0.443 (BF), −0.080 (WW) to 0.034 (NBA), and −0.134 (WW) to 0.131 (TNB), respectively, with no substantial differences between genetic and epigenetic models. Transgenerational epigenetic heritability estimates are moderate for growth and body composition and low for reproductive traits in North American Landrace pigs. Fitting epigenetic effects in genetic models did not impact the prediction of breeding values.https://www.frontiersin.org/articles/10.3389/fgene.2024.1526473/fullebvepigeneticsgenetic parametersgenomicsswinevariance components |
| spellingShingle | Andre C. Araujo Jay S. Johnson Jason R. Graham Jeremy Howard Yijian Huang Hinayah R. Oliveira Luiz F. Brito Transgenerational epigenetic heritability for growth, body composition, and reproductive traits in Landrace pigs Frontiers in Genetics ebv epigenetics genetic parameters genomics swine variance components |
| title | Transgenerational epigenetic heritability for growth, body composition, and reproductive traits in Landrace pigs |
| title_full | Transgenerational epigenetic heritability for growth, body composition, and reproductive traits in Landrace pigs |
| title_fullStr | Transgenerational epigenetic heritability for growth, body composition, and reproductive traits in Landrace pigs |
| title_full_unstemmed | Transgenerational epigenetic heritability for growth, body composition, and reproductive traits in Landrace pigs |
| title_short | Transgenerational epigenetic heritability for growth, body composition, and reproductive traits in Landrace pigs |
| title_sort | transgenerational epigenetic heritability for growth body composition and reproductive traits in landrace pigs |
| topic | ebv epigenetics genetic parameters genomics swine variance components |
| url | https://www.frontiersin.org/articles/10.3389/fgene.2024.1526473/full |
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