Figure 3.

(A) Manhattan plot for −log10 p-values of marker effects for residuals of fecal egg counts of gastrointestinal nematodes (RES-GIN). Markers above the genome-wide significance threshold pBonf (red dashed line) are highlighted in red and markers above the suggestive significance threshold pSug (blue dashed line) are highlighted in blue. Markers within a distance of 125 kb up- and downstream of the significantly or suggestively associated SVs are highlighted in red or blue, respectively. (B) Regional association plot for the α kinase 2 (ALPK2) gene on BTA 24 with corresponding flanking regions (+/−100,000 bp). The SNP rs437851546 (blue square) was the highest associated SNP (p = 6.63 × 10⁻⁹) for RES-GIN on BTA 24. Circles show GWAS p-values, with different colors indicating linkage disequilibrium (LD): red: LD 0.8 to 1.0, orange: LD 0.5 to 0.8. yellow: LD 0.2 to 0.5, gray: LD 0.0 to 0.2. Genes with a green arrow pointing to the right are located on the forward strand, genes with an arrow pointing to the left are located on the reverse strand.