Information from a scrapie epidemic in a closed INRA Romanov flock is presented. Performances, pedigree, histopathological diagnoses and PrP genotypes were recorded from the beginning of the outbreak (in 1993). Between 1st of April, 1993 and 1st of May, 1997, 1015 animals were exposed to scrapie, and 304 died from this disease. A major influence of the polymorphisms at codons 136, 154 and 171 is shown, A136H154Q171 allele carriers proving to be nearly as resistant as A136R154R171 carriers. A possible relationship between gastrointestinal parasitism and scrapie is discussed. There is evidence of maternal transmission, with a risk ratio for artificially fed lambs of 67 percent of the risk of lambs fed by their mother. Our results strongly suggest that resistant animals were not healthy carriers or at least were less infectious when comparing risk for lambs born to healthy dams either of resistant (risk = 0.431) or of susceptible (risk = 1.000) genotype.

The effect of seven diseases on culling was measured in 7523 Holstein cows in New York State. The cows were from 14 herds and had calved between January 1, 1994 and December 31, 1994; all cows were followed until September 30, 1995. Survival analysis was performed using the Cox proportional hazards model to incorporate time-dependent covariates for diseases. Different intervals representing stages of lactation were considered for effects of the diseases. Five models were fitted to test how milk yield and conception status modified the effect of diseases on culling. Covariates in the models included parity, calving season, and time-dependent covariates measuring diseases, milk yield of the current lactation, and conception status. Data were stratified by herd. The seven diseases and lactational risks under consideration were milk fever (0.9%), retained placenta (9.5%), displaced abomasum (5.3%), ketosis (5.0%), metritis (4.2%), ovarian cysts (10.6%), and mastitis (14.5%). Older cows were at a much higher risk of being culled. Calving season had no effect on culling. Higher milk yield was protective against culling. Once a cow had conceived again, her risk of culling dropped sharply. In all models, mastitis was an important risk factor throughout lactation. Milk fever, retained placenta, displaced abomasum, ketosis, and ovarian cysts also significantly affected culling at different stages of lactation. Metritis had no effect on culling. The magnitude of the effects of the diseases decreased, but remained important, when milk yield and conception status were included as covariates. These results indicated that diseases have an important impact on the actual decision to cull and the timing of culling. Parity, milk yield, and conception status are also important factors in culling decisions.

Several functions were used to model the fixed part of the lactation curve and genetic parameters of milk test-day records to estimate using French Holstein data. Parametric curves (Legendre polynomials, Ali-Schaeffer curve, Wilmink curve), fixed classes curves (5-d classes), and regression splines were tested. The latter were appealing because they adjusted the data well, were relatively insensitive to outliers, were flexible, and resulted in smooth curves without requiring the estimation of a large number of parameters. Genetic parameters were estimated with an Average Information REML algorithm where the average information matrix and the first derivatives of the likelihood functions were pooled over 10 samples. This approach made it possible to handle larger data sets. The residual variance was modeled as a quadratic function of days in milk. Quartic Legendre polynomials were used to estimate (co)variances of random effects. The estimates were within the range of most other studies. The greatest genetic variance was in the middle of the lactation while residual and permanent environmental variances mostly decreased during the lactation. The resulting heritability ranged from 0.15 to 0.40. The genetic correlation between the extreme parts of the lactation was 0.35 but genetic correlations were higher than 0.90 for a large part of the lactation. The use of the pooling approach resulted in smaller standard errors for the genetic parameters when compared to those obtained with a single sample.

BackgroundSize of the reference population and reliability of phenotypes are crucial factors influencing the reliability of genomic predictions. It is therefore useful to combine closely related populations. Increased accuracies of genomic predictions depend on the number of individuals added to the reference population, the reliability of their phenotypes, and the relatedness of the populations that are combined.MethodsThis paper assesses the increase in reliability achieved when combining four Holstein reference populations of 4000 bulls each, from European breeding organizations, i.e. UNCEIA (France), VikingGenetics (Denmark, Sweden, Finland), DHV-VIT (Germany) and CRV (The Netherlands, Flanders). Each partner validated its own bulls using their national reference data and the combined data, respectively.ResultsCombining the data significantly increased the reliability of genomic predictions for bulls in all four populations. Reliabilities increased by 10%, compared to reliabilities obtained with national reference populations alone, when they were averaged over countries and the traits evaluated. For different traits and countries, the increase in reliability ranged from 2% to 19%.ConclusionsGenomic selection programs benefit greatly from combining data from several closely related populations into a single large reference population.

The length of productive life of 103,214 Normande cows milked from 1979 to 1989 in purebred herds was analyzed using a mixed Weibull model: their probability of being culled, or hazard function, was supposed to be the product of a baseline Weibull hazard function and explanatory variables that were log-linear and time-dependent. Fixed effects that may have an impact on culling rate were successively added to the model. Two random effects, a herd-year and a sire effect, were also included. The dispersion parameter of the log-gamma prior distributions assumed for these effects was estimated maximizing a marginal posterior density obtained after algebraic integration of the corresponding random effect. The other effects and the Weibull parameter could not be integrated out easily. The probability of being culled was not changed by age at first calving but increased with stage of lactation. It also increased for low producing cows and for herds of decreasing size, especially during the 3 mo preceding the end of the period on which yearly milk production is calculated for the European Community quota system. This last phenomenon seems to be crucial for proper statistical and genetic analysis of length of productive life. The estimated variances of the herd-year and sire effects indicated a large influence of these effects on culling rate. Under certain assumptions, the standard deviation of sire effects can be assessed at > .5 expected complete lactations. This value is not reduced by consideration of differences in milk production of the cows.