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. 2021 Oct 14;12:729867. doi: 10.3389/fgene.2021.729867

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Copyright © 2021 Araujo, Carneiro, Oliveira, Schenkel, Veroneze, Lourenco and Brito.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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Average number of blocks (Blocks) spanning two or more SNPs, markers within blocks (Blocked_SNPs), pseudo-SNPs (Pseudo_SNPs), pseudo-SNPs after quality control (PS_A_QC), non-blocked SNPs plus pseudo-SNPs after quality control (NB_PS_A_QC), and computing time to obtain the pseudo-SNPs (Duration_time) in the simulation for a trait with moderate heritability (h² = 0.30). A, B, and C show the results for haplotype blocks with LD thresholds of 0.1, 0.3, and 0.6, respectively. Breed_B, Breed_C, and Breed_E: simulated pure breeds with different genetic backgrounds; Comp_2 and Comp_3: composite breeds from two and three pure breeds, respectively. The same lower- or upper-case letters mean no statistical difference comparing populations within LD thresholds and LD threshold across populations, respectively, at 5% significance level by the Tukey test.