Genetic and non-genetic evaluation tools for accelerating improvement in beef cattle carcass traits within and across country

Abstract The main revenue source for beef cattle farmers is the price they are awarded for carcasses based on carcass value (i.e., carcass weight, conformation and fat score) which is influenced by genetic and environmental factors (e.g., herd management). In order to improve profitability, accurate means of evaluating and improving both sets of factors influencing carcass trait performance are necessary. This would entail optimal management of genetic resources and herd practices. Furthermore, access to a large international germplasm pool would facilitate faster genetic gain. The objective of this thesis was to generate tools for the enhancement of carcass trait genetic and herd management evaluations both at a national and international level. The data used in the thesis originated from the Irish and UK national cattle databases and consisted of 336,944 Irish and 147,876 UK cattle of multiple beef and dairy breeds from 9,572 Irish and 3,385 UK commercial herds. Livestock mature at different rates depending on a number of factors including the genetic background; therefore, the optimum age at which to slaughter the progeny of different sires may differ. Chapter 2 examined sire level genetic profiles for three carcass traits (carcass weight, conformation and fat score) in cattle using data from the Republic of Ireland. Variance components for each trait across age at slaughter were estimated using sire random regression models. Heritability estimates of carcass traits across ages at slaughter varied depending on gender (heifers, steers, young bulls) and the trait in question, and ranged from 0.08 (± 0.02) to 0.34 (± 0.02) for carcass weight, from 0.24 (± 0.02) to 0.42 (± 0.02) for conformation score and from 0.16 (± 0.03) to 0.40 (± 0.02) for fat score. Genetic correlations between traits across ages at slaughter were all significantly less than unity, indicating that different genetic Abstract mechanisms control these traits across life. The results from chapter 2 show that genetic variability in the progeny growth trajectory of sires exists and that this variability in the growth profiles of sires for carcass traits may be exploited in breeding programmes. As carcass traits are a function of both the genetics of the animal and the environment in which the animal is reared, chapter 3 aimed to quantify the contribution of the herd environment to the same three beef carcass traits, with particular emphasis on generating finishing herd-specific profiles for carcass traits across different ages at slaughter. The data analysed in chapter 3 was from animals slaughtered in UK abattoirs. Genetic and finishing-herd-year of slaughter parameters were generated using random regression analysis. Across slaughter age and gender, the proportion of phenotypic variance accounted for by finishing-herd-year of slaughter variance was between 30.83%-71.48% for carcass weight, 21.38%-26.29% for conformation score and between 10.88%-44.04% for fat score. These parameters indicate that the finishing herd environment is an at least equally important contributor to carcass trait variability as the genetic background of animals, and amenable to improvement with appropriate management practices. The final study of the thesis was to investigate the feasibility of acrosscountry carcass trait genetic evaluations. Examination of the level of geneticmechanisms control these traits across life. The results from chapter 2 show that genetic variability in the progeny growth trajectory of sires exists and that this variability in the growth profiles of sires for carcass traits may be exploited in breeding programmes. As carcass traits are a function of both the genetics of the animal and the environment in which the animal is reared, chapter 3 aimed to quantify the contribution of the herd environment to the same three beef carcass traits, with particular emphasis on generating finishing herd-specific profiles for carcass traits across different ages at slaughter. The data analysed in chapter 3 was from animals slaughtered in UK abattoirs. Genetic and finishing-herd-year of slaughter parameters were generated using random regression analysis. Across slaughter age and gender, the proportion of phenotypic variance accounted for by finishing-herd-year of slaughter variance was between 30.83%-71.48% for carcass weight, 21.38%-26.29% for conformation score and between 10.88%-44.04% for fat score. These parameters indicate that the finishing herd environment is an at least equally important contributor to carcass trait variability as the genetic background of animals, and amenable to improvement with appropriate management practices. The final study of the thesis was to investigate the feasibility of acrosscountry carcass trait genetic evaluations. Examination of the level of genetic connectedness between Ireland and the UK found 225 distinct bulls common to both countries. These common bulls were related to 80,707 Irish and 23,162 UK animals with carcass records in each population. Genetic correlations for carcass traits between Ireland and the UK were almost unity, ranging from 0.92 (± 0.31) for fat score to 0.96 (± 0.17) for carcass weight, indicating that the carcass traits recorded in both countries Abstract are genetically essentially equivalent. These strong genetic correlations between carcass traits in both countries enabled the direct pooling of carcass data for the purpose of across-country genetic evaluations (breeding value estimation). An increased rate of genetic gain for carcass traits per generation was predicted from across-country selection compared to within country selection ranging from 2% (conformation score in Ireland) to 33.77% (conformation score in the UK). This improved gain was primarily due to greater intensity of selection and somewhat more accurate estimated breeding values when carcass records and pedigree information from both countries were combined. The results presented in this thesis demonstrate that routinely collected abattoir data in Ireland and the UK can be exploited to produce additional selection and on-farm management tools. The results also show that access to across-country carcass trait genetic evaluations would allow UK and Irish beef farmers to make more informed decisions on the selection of seed stock needed to increase genetic gain and profits. Outcomes of this thesis pave the way to improvements in national carcass traits genetic evaluations in Ireland and the UK based on appropriate age at slaughter and also demonstrate the feasibility of across-country carcass trait genetic evaluations between Ireland and the UK. The scope for further areas of research includes theare genetically essentially equivalent. These strong genetic correlations between carcass traits in both countries enabled the direct pooling of carcass data for the purpose of across-country genetic evaluations (breeding value estimation). An increased rate of genetic gain for carcass traits per generation was predicted from across-country selection compared to within country selection ranging from 2% (conformation score in Ireland) to 33.77% (conformation score in the UK). This improved gain was primarily due to greater intensity of selection and somewhat more accurate estimated breeding values when carcass records and pedigree information from both countries were combined. The results presented in this thesis demonstrate that routinely collected abattoir data in Ireland and the UK can be exploited to produce additional selection and on-farm management tools. The results also show that access to across-country carcass trait genetic evaluations would allow UK and Irish beef farmers to make more informed decisions on the selection of seed stock needed to increase genetic gain and profits. Outcomes of this thesis pave the way to improvements in national carcass traits genetic evaluations in Ireland and the UK based on appropriate age at slaughter and also demonstrate the feasibility of across-country carcass trait genetic evaluations between Ireland and the UK. The scope for further areas of research includes the identification of specific management practices for optimal herd performance for carcass traits. Additionally, across-country carcass trait genetic evaluations based on random regression models across different ages at slaughter would also be of benefit to beef producers in Ireland and the UK. Finally, the viability of across-country genetic Abstract evaluations for additional carcass traits, such as carcass cut weights should be explored.evaluations for additional carcass traits, such as carcass cut weights should be explored.