Estimation of genetic parameters and single-step genome-wide association studies for eating time and rumination time in Holstein dairy cows
ABSTRACT: The aims of this study were to estimate genetic parameters and to identify genomic regions associated with eating time (ET) and rumination time (RUT) in Holstein dairy cows. Genetic correlations among ET, RUT, and milk yield traits were also estimated. The data were collected from 2019 to...
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| Format: | Article |
| Language: | English |
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Elsevier
2024-05-01
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| Series: | Journal of Dairy Science |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S0022030223012018 |
| _version_ | 1797201287568162816 |
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| author | Hadi Atashi Pauline Lemal Marie-Nguyet Tran Nicolas Gengler |
| author_facet | Hadi Atashi Pauline Lemal Marie-Nguyet Tran Nicolas Gengler |
| author_sort | Hadi Atashi |
| collection | DOAJ |
| description | ABSTRACT: The aims of this study were to estimate genetic parameters and to identify genomic regions associated with eating time (ET) and rumination time (RUT) in Holstein dairy cows. Genetic correlations among ET, RUT, and milk yield traits were also estimated. The data were collected from 2019 to 2022 in 6 dairy herds located in the Walloon Region of Belgium. The dataset consisted of daily ET and RUT records on 284 Holstein cows, from which 41 cows had records only for the first parity (P1), 101 cows had records from both the first and second parities, and 142 cows had records only for the second parity (P2). The number of daily ET and RUT records in the P1 and P2 cows were 18,569 (on 142 cows) and 34,464 (on 243 cows), respectively. Data on 28,994 SNPs located on 29 Bos taurus autosomes (BTA) of 747 animals (435 males) were used. Random regression test-day models were used to estimate genetic parameters through the Bayesian Gibbs sampling method. The SNP solutions were estimated using a single-step genomic best linear unbiased prediction approach. The proportion of genetic variance explained by each 20-SNP sliding window (with an average size of 1.52 Mb) was calculated, and regions accounting for at least 1.0% of the total additive genetic variance were used to search for candidate genes. Mean (standard deviation; SD) averaged daily ET and RUT were 327.0 (85.66) and 559.4 (77.69) min/d for cows in P1 and 316.0 (82.24) and 574.2 (75.42) min/d for cows in P2, respectively. Mean (standard deviation; SD) heritability estimates for daily ET and RUT were 0.42 (0.09) and 0.45 (0.06) for cows in P1 and 0.45 (0.04) and 0.43 (0.02) for cows in P2, respectively. Mean (SD) daily genetic correlations between daily ET and RUT were 0.27 (0.07) for P1 and 0.34 (0.08) for P2. Genome-wide association analyses identified 6 genomic regions distributed over 5 chromosomes (BTA1, BTA4, BTA11, 2 regions of BTA14, and BTA17) associated with ET or RUT. The findings of this study increase our preliminary understanding of the genetic background of feeding behavior in dairy cows; however, larger datasets are needed to determine whether ET and RUT might have the potential to be used in selection programs. |
| first_indexed | 2024-04-24T07:45:09Z |
| format | Article |
| id | doaj.art-e97f438d64dc4c40ad1f558936664d64 |
| institution | Directory Open Access Journal |
| issn | 0022-0302 |
| language | English |
| last_indexed | 2024-04-24T07:45:09Z |
| publishDate | 2024-05-01 |
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| series | Journal of Dairy Science |
| spelling | doaj.art-e97f438d64dc4c40ad1f558936664d642024-04-19T04:16:13ZengElsevierJournal of Dairy Science0022-03022024-05-01107530063019Estimation of genetic parameters and single-step genome-wide association studies for eating time and rumination time in Holstein dairy cowsHadi Atashi0Pauline Lemal1Marie-Nguyet Tran2Nicolas Gengler3TERRA Teaching and Research Center, Gembloux Agro-Bio Tech, University of Liège, 5030 Gembloux, Belgium; Department of Animal Science, Shiraz University, 71441-13131 Shiraz, Iran; Corresponding authorTERRA Teaching and Research Center, Gembloux Agro-Bio Tech, University of Liège, 5030 Gembloux, BelgiumElevéo asbl by AWÉ Groupe, 5590 Ciney, BelgiumTERRA Teaching and Research Center, Gembloux Agro-Bio Tech, University of Liège, 5030 Gembloux, BelgiumABSTRACT: The aims of this study were to estimate genetic parameters and to identify genomic regions associated with eating time (ET) and rumination time (RUT) in Holstein dairy cows. Genetic correlations among ET, RUT, and milk yield traits were also estimated. The data were collected from 2019 to 2022 in 6 dairy herds located in the Walloon Region of Belgium. The dataset consisted of daily ET and RUT records on 284 Holstein cows, from which 41 cows had records only for the first parity (P1), 101 cows had records from both the first and second parities, and 142 cows had records only for the second parity (P2). The number of daily ET and RUT records in the P1 and P2 cows were 18,569 (on 142 cows) and 34,464 (on 243 cows), respectively. Data on 28,994 SNPs located on 29 Bos taurus autosomes (BTA) of 747 animals (435 males) were used. Random regression test-day models were used to estimate genetic parameters through the Bayesian Gibbs sampling method. The SNP solutions were estimated using a single-step genomic best linear unbiased prediction approach. The proportion of genetic variance explained by each 20-SNP sliding window (with an average size of 1.52 Mb) was calculated, and regions accounting for at least 1.0% of the total additive genetic variance were used to search for candidate genes. Mean (standard deviation; SD) averaged daily ET and RUT were 327.0 (85.66) and 559.4 (77.69) min/d for cows in P1 and 316.0 (82.24) and 574.2 (75.42) min/d for cows in P2, respectively. Mean (standard deviation; SD) heritability estimates for daily ET and RUT were 0.42 (0.09) and 0.45 (0.06) for cows in P1 and 0.45 (0.04) and 0.43 (0.02) for cows in P2, respectively. Mean (SD) daily genetic correlations between daily ET and RUT were 0.27 (0.07) for P1 and 0.34 (0.08) for P2. Genome-wide association analyses identified 6 genomic regions distributed over 5 chromosomes (BTA1, BTA4, BTA11, 2 regions of BTA14, and BTA17) associated with ET or RUT. The findings of this study increase our preliminary understanding of the genetic background of feeding behavior in dairy cows; however, larger datasets are needed to determine whether ET and RUT might have the potential to be used in selection programs.http://www.sciencedirect.com/science/article/pii/S0022030223012018rumination timeeating timeHolstein cows |
| spellingShingle | Hadi Atashi Pauline Lemal Marie-Nguyet Tran Nicolas Gengler Estimation of genetic parameters and single-step genome-wide association studies for eating time and rumination time in Holstein dairy cows Journal of Dairy Science rumination time eating time Holstein cows |
| title | Estimation of genetic parameters and single-step genome-wide association studies for eating time and rumination time in Holstein dairy cows |
| title_full | Estimation of genetic parameters and single-step genome-wide association studies for eating time and rumination time in Holstein dairy cows |
| title_fullStr | Estimation of genetic parameters and single-step genome-wide association studies for eating time and rumination time in Holstein dairy cows |
| title_full_unstemmed | Estimation of genetic parameters and single-step genome-wide association studies for eating time and rumination time in Holstein dairy cows |
| title_short | Estimation of genetic parameters and single-step genome-wide association studies for eating time and rumination time in Holstein dairy cows |
| title_sort | estimation of genetic parameters and single step genome wide association studies for eating time and rumination time in holstein dairy cows |
| topic | rumination time eating time Holstein cows |
| url | http://www.sciencedirect.com/science/article/pii/S0022030223012018 |
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