Reaction norm model with unknown environmental covariate to analyze heterosis by environment interaction

Abstract

Crossbreeding is currently increasing in dairy cattle production. Several studies have shown an environment-dependent heterosis [i.e., an interaction between heterosis and environment (H×E)]. An H×E interaction is usually estimated from a few discrete environment levels. The present study proposes a reaction norm model to describe H×E interaction, which can deal with a large number of environment levels using few parameters. In the proposed model, total heterosis consists of an environment-independent part, which is described as a function of heterozygosity, and an environment-dependent part, which is described as a function of heterozygosity and environmental value (e.g., herd-year effect). A Bayesian approach is developed to estimate the environmental covariates, the regression coefficients of the reaction norm, and other parameters of the model simultaneously in both linear and nonlinear reaction norms. In the nonlinear reaction norm model, the H×E is approximated using linear splines. The approach was tested using simulated data, which were generated using an animal model with a reaction norm for heterosis. The simulation study includes 4 scenarios (the combinations of moderate vs. low heritability and moderate vs. low herd-year variation) of H×E interaction in a nonlinear form. In all scenarios, the proposed model predicted total heterosis very well. The correlation between true heterosis and predicted heterosis was 0.98 in the scenarios with low herd-year variation and 0.99 in the scenarios with moderate herd-year variation. This suggests that the proposed model and method could be a good approach to analyze H×E interactions and predict breeding values in situations in which heterosis changes gradually and continuously over an environmental gradient. On the other hand, it was found that a model ignoring H×E interaction did not significantly harm the prediction of breeding value under the simulated scenarios in which the variance for environment-dependent heterosis effects was small (as it generally is), and sires were randomly used over production environments.