Co-localization of SNPs associated with branching-related traits and candidate branching genes. Only SNPs mapped in close proximity to putative branching genes exhibiting significant associations with branching are displayed. The SNP-associated branching traits are apical (A; in green), mid-apical (MA; in dark blue), mid (M; in orange), mid-basal (MB; in magenta), basal (B; in brown), and secondary branching (2B; in light blue). Location information is given following an underscore (G=Georgia, I=Iowa, and C=British Columbia). SNPs associated with all branching traits except 2B are presented as whole plant branching (WPB) and the numbers indicate differences among geographical locations for a given branching type (for LG 10). Gene names are shown in black, YUCCA (YUC); AUXIN/INDOLE-3-ACETIC ACID (IAA); ISOPENTYLTRANSFERASE (IPT); CK OXIDASE/DEHYROGENASE (CKX); GIBBERELLIN 2-OXIDASES (GA2ox); DWARF27 (D27); CUP-SHAPED COTYLEDON (CUC); LATERAL SHOOT INDUCING FACTOR (LIF); BRANCHED2 (BRC2); SET DOMAINGROUP8 (SDG8). Underlined genes lie in regions of low LD. At, Ph, Ps, and Os stand for Arabidopsis thaliana, Petunia x hybrida, Pisum sativum, and Oryza sativa, respectively.