Additional file 6 of Simulation studies to optimize genomic selection in honey bees

Additional file 6. Genetic gain, $${R}_{GS}$$ R GS , in the initial selection cycle of different breeding schemes applying CBS and GPS. The table presents the configuration of the breeding schemes shown in Fig. 4, as well as 9 reruns of the optimal breeding scheme with ssGBLUPBQ, and 1765 other runs chosen at even spacing to represent the remaining schemes. Equations (18), (19), and (20) were used to calculate $${R}_{GS}$$ R GS in the scenarios described in Table 1 for different ratios of preselected BQ and DPQ, with the prediction accuracy adjusted to the proportion on preselected BQ in all scenarios. Genetic gain is given in the units of the selection criterion. The parameter setting MOD was used. The standard deviations of the true breeding values $${\sigma }_{pW}$$ σ pW (worker groups from year 8) and $${\sigma }_{uQ}$$ σ uQ (queens from year 9) are shown in Additional file 5. The 1765 remaining schemes were picked by the numbers of dams of DPQ chosen for GPS, ( $${N}_{DPQ}^{GPS}$$ N DPQ GPS ), dams of BQ chosen for GPS ( $${N}_{BQ}^{GPS}$$ N BQ GPS ), candidate DPQ per dam for GPS ( $${n}_{DPQ}^{GPS}$$ n DPQ GPS ), and candidate BQ per dam for GPS ( $${n}_{BQ}^{GPS}$$ n BQ GPS ) with the step widths 10, 20, 8, and 8, respectively.