DOI: 10.5061/dryad.1nh544n
title: Data from: Comparison of infinitesimal and finite locus models for long-term breeding simulations with direct and maternal effects at the example of honeybees

description: Stochastic simulation studies of animal breeding have mostly relied on
 either the infinitesimal genetic model or finite polygenic models. In this
 study, we investigated the long-term effects of the chosen model on
 honeybee breeding schemes. We implemented the infinitesimal model, as well
 as finite locus models, with 200 and 400 gene loci and simulated
 populations of 300 and 1000 colonies per year over the course of 100
 years. The selection was of a directly and maternally influenced trait
 with maternal heritability of h²_m = 0.42, direct heritability of h² d =
 0.27, and a negative correlation between the effects of r_md = −0.18.
 Another set of simulations was run with parameters h²_m = 0.53, h²_d =
 0.34, and r_md = −0.53. All models showed similar behavior for the first
 20 years. Throughout the study, we observed a higher genetic gain in the
 direct than in the maternal effects and a smaller gain with a stronger
 negative covariance. In thelong-term, however, only the infinitesimal
 model predicted sustainable linear genetic progress, while the finite
 locus models showed sublinear behavior and, after 100 years, only reached
 between 58% and 62% of the mean breeding values in the infinitesimal
 model. While the infinitesimal model suggested a reduction of genetic
 variance by 33% to 49% after 100 years, the finite locus models saw a more
 drastic loss of 76% to 92%. When designing sustainable breeding
 strategies, one should, therefore, not blindly trust the infinitesimal
 model as the predictions may be overly optimistic. Instead, the more
 conservative choice of the finite locus model should be favored.
description: Sim_300BQs_200Loci_025We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_300BQs_200Loci_075We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_300BQs_400Loci_025We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_300BQs_400Loci_075We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_1000BQs_200Loci_025_Rep1-3We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_1000BQs_200Loci_025_Rep4-6We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_1000BQs_200Loci_025_Rep7-10We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_1000BQs_200Loci_075_Rep1-3We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_1000BQs_200Loci_075_Rep4-6We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_1000BQs_200Loci_075_Rep7-10We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_1000BQs_400Loci_025_Rep1-3We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_1000BQs_400Loci_025_Rep4-6We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_1000BQs_400Loci_025_Rep7-10We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_1000BQs_400Loci_075_Rep1-3We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_1000BQs_400Loci_075_Rep4-6We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_1000BQs_400Loci_075_Rep7-10We store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileSim_InfWe store output data from stochastic simulation studies on honeybee breeding schemes relying on different genetic models. In particular, the infinitesimal model and the finite locus models are taken into consideration. Output files contain data on true and estimated breeding values, performance tests, inbreeding coefficients and pedigree data. For more information please also consult the README fileBeeSim ProgramSource code of the Program BeeSim that was used for the simulations. The zipped folder contains a manual that explains the usage of the program.BeeSim.tar.gz