Figure 3
Association mapping of milk fat percentage.
Manhattan plots showing association of sequence variants with milk fat percentage in an outbred cow population of 64,139 animals. Panel 3A shows a 2 Mbp interval of variants (chr5:92945655-94945655) centred on the SNP of greatest effect from Bayes B GWAS (BovineHD0500026662), panel 3B shows a zoomed, 50 kbp view of the locus showing peak association (chr5:93920738-93970738). The nine genes annotated to the 2 Mbp locus are indicated, with the zoomed panel showing the distribution of associated variants across the MGST1 gene structure. Variants are coloured relative to their linkage disequilibrium (R2) relationships with the top variant from sequence-based association (g.93945738C > T), with variants highlighted by the blue box (3B) comprising the cluster of 17 highly associated, highly correlated SNPs considered as potential functional candidates for the QTL. The top-associated Illumina BovineHD and SNP50 panel SNPs are indicated by the triangle (BovineHD0500026662) and square (Hapmap36414-SCAFFOLD150043_20489) respectively.
