Genetic evaluation of calving traits in the United Kingdom

The consequences of complications during calving are currently costing the UK dairy cattle industry approximately £110 for a calving of moderate difficulty and £400 for one that is severe. With incidences of difficult first calvings reaching 24% and 4% for a moderate and severe difficult calving respectively, reducing calving complications would be of great benefit to the UK dairy cattle industry. This PhD evaluates (i) the importance, (ii) the most optimal way, and (iii) the potential consequences of genetically selecting for two main traits associated with calving complications, calving ease (CE) and stillbirth (SB). For this, approximately 50.000 first parity and 300.000 later parity national calving data records were kindly provided by two major milk recording organisations in the UK. The work carried out shows that detrimental effects following a difficult first calving are long-lasting as subsequent performance of both the dam and the calf involved is worsened. Fertility of the dam is negatively affected by a difficult calving resulting in an increased calving interval and decreased ability to conceive. A reduction in milk production of a veterinary assisted dam, compared to a non-assisted dam, was detected in the first part of lactation. Veterinary assisted born calves showed a significantly lower milk yield, compared to farmer assisted calves, throughout their first lactation as adult heifers suggesting that the physiological effects, or causes underlying a difficult birth, are long lived. The study advises that genetic parameters of calving traits are to be estimated with an extended sire multi-trait model (accuracy vs. practicality). On average, direct and maternal heritabilities for calving traits are low. A highly heritable indicator trait such as gestation length (GL) can aid in the estimation of genetic parameters for CE and SB although genetic correlations of these traits with GL are moderate. A significant negative genetic direct-maternal correlation was found for CE in first parity recommending farmers to consider both direct and maternal genetic merit for CE when making a selection decision. CE and SB are highly positively correlated traits. GL is maternally correlated to SB in first parity and directly to CE in later parities, both correlations are positive. Estimated genetic correlations with other important traits in dairy cattle breeding show that CE and GL are both directly and maternally related to important selection traits which need to be taken into account if implementation into breeding indices occurs. Results advise limiting the use of GL to benefit the prediction of parameters for low heritable calving traits rather than selecting on GL itself. Genetic correlations suggest that individuals born easily are genetically prone to high milk yield and have reduced fertility in first lactation. Difficult calving heifers are likely to be associated with being wide and deep and high producing animals with a reduced ability to subsequently conceive. Individuals that are born relatively early are associated with good genetic merit for milk production. And finally, individuals carrying their young longer are genetically associated with being wide and large animals that were born relatively early themselves. Lastly, an extension of the current univariate genomic model to a bivariate model, which allows for a possible genetic direct-maternal covariance, shows that improvement in accuracy of genomic breeding values can be gained from use of a bivariate genomic model for maternal traits such as CE. Further development of the model is however recommended prior to the publication of genomic proofs for CE or any other maternal trait. Genetic selection can serve as a tool in the reduction of difficult calvings. The results of this thesis serve to let this happen in a controlled and sustainable manner

Calving Performance in the Endangered Murboden Cattle Breed: Genetic Parameters and Inbreeding Depression

Calving is a key event on any cattle farm, with both economic and animal welfare consequences when complications arise. Although mostly reported in highly selected breeds, problematic calving performance is also a worry to the unselected dualpurpose Murboden breed, local to Austria. This study presents genetic parameter estimates for calving ease and stillbirth in Murboden cattle. Furthermore, a potential effect of inbreeding on the breeds’ calving performance is evaluated. Results show a moderate direct and maternal heritability (0.18±0.04; 0.11±0.02) and a significant negative direct-maternal genetic correlation for calving ease (-0.41±0.10). Heritabilities of stillbirth are low yet significant (0.048±0.01; 0.018±0.007). A significant effect of inbreeding was detected on maternal calving ease i.e. the ease with which a dam calves. By categorizing the inbreeding coefficients of the dam in six ascending classes it was shown that calving ease worsens as inbreeding coefficients become larger. Results of this study reveal significant genetic variation in calving performance of the Murboden breed which opens doors for genetic selection. An additional important aspect of this study is that its result on inbreeding depression gives counterweight to the general intuitive notion in literature that high selection for production traits is the major contributor to calving difficulty in dairy and beef cattle breeds worldwide

Evaluating alternate models to estimate genetic parameters of calving traits in United Kingdom Holstein-Friesian dairy cattle

<p>Abstract</p> <p>Background</p> <p>The focus in dairy cattle breeding is gradually shifting from production to functional traits and genetic parameters of calving traits are estimated more frequently. However, across countries, various statistical models are used to estimate these parameters. This study evaluates different models for calving ease and stillbirth in United Kingdom Holstein-Friesian cattle.</p> <p>Methods</p> <p>Data from first and later parity records were used. Genetic parameters for calving ease, stillbirth and gestation length were estimated using the restricted maximum likelihood method, considering different models i.e. sire (−maternal grandsire), animal, univariate and bivariate models. Gestation length was fitted as a correlated indicator trait and, for all three traits, genetic correlations between first and later parities were estimated. Potential bias in estimates was avoided by acknowledging a possible environmental direct-maternal covariance. The total heritable variance was estimated for each trait to discuss its theoretical importance and practical value. Prediction error variances and accuracies were calculated to compare the models.</p> <p>Results and discussion</p> <p>On average, direct and maternal heritabilities for calving traits were low, except for direct gestation length. Calving ease in first parity had a significant and negative direct-maternal genetic correlation. Gestation length was maternally correlated to stillbirth in first parity and directly correlated to calving ease in later parities. Multi-trait models had a slightly greater predictive ability than univariate models, especially for the lowly heritable traits. The computation time needed for sire (−maternal grandsire) models was much smaller than for animal models with only small differences in accuracy. The sire (−maternal grandsire) model was robust when additional genetic components were estimated, while the equivalent animal model had difficulties reaching convergence.</p> <p>Conclusions</p> <p>For the evaluation of calving traits, multi-trait models show a slight advantage over univariate models. Extended sire models (−maternal grandsire) are more practical and robust than animal models. Estimated genetic parameters for calving traits of UK Holstein cattle are consistent with literature. Calculating an aggregate estimated breeding value including direct and maternal values should encourage breeders to consider both direct and maternal effects in selection decisions.</p

A Genome Wide Association Study for Longevity in Cattle

Longevity is regarded as the most important functional trait in cattle breeding with high economic value yet low heritability. In order to identify genomic regions associated with longevity, a genome wise association study was performed using data from 4887 Fleckvieh bulls and 33,556 SNPs after quality control. Single SNP regression was used for identification of important SNPs including eigenvectors as a means of correction for population structure. SNPs selected with a false discovery rate threshold of 0.05 and with local false discovery rate identified genomic regions associated with longevity which were subsequently cross checked with the National Center for Biotechnology Information (NCBI) database. This, to identify interesting genes in cattle and their homologue forms in other species. The most notable genes were SYT10 located on chromosome 5, ADAMTS3 on chromosome 6, NTRK2 on chromosome 8 and SNTG1 on chromosome 14 of the cattle genome. Several of the genes found have previously been associated with cattle fertility. Poor fertility is an important culling reason and thereby affects longevity in cattle. Several signals were located in regions sparse with described genes, which suggest that there might be several other non-identified genetic pathways for this important trait

Gene2Farm

Sequence data, genotypes and ancillary files from the EC FP7 project Gene2Farm. Guernsey 10X sequence; Simmental, Fleckvieh & Brown Swiss genotypes. Vault name: "Gene2Farm"; Deposit name: "John_Woolliams_GenetoFarm"

The future of phenomics in dairy cattle breeding

Increasingly complex dairy cattle production systems require that all aspects of animal performance are measured across individuals' lifetimes. Selection emphasis is shifting away from traits related to animal productivity toward those related to effcient resource utilization and improved health and welfare/ resilience. The goal of phenomics is to provide information for making decisions related to on-farm management, as well as genetic improvement.</p