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. 2020 Jul 21;10(9):3347–3364. doi: 10.1534/g3.120.401491

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Copyright © 2020 Keep et al.

This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Histogram of the number of traits for which the minimum number of SNPs required to reach 95% of the maximum predictive ability of the best genomic prediction (using any number of SNPs) falls within the shown range. To reach the 95% threshold, the SNPs were either (a) randomly chosen or (b) chosen from the most to the least significant one among a non-redundant set detected in a preliminary GWAS using the calibration set of populations. The calibration set of all minus 50 populations was selected by optimizing genetic distances and the 50 populations left were used to test the models.