Figure 5
From: Genome-wide association study of Fusarium ear rot disease in the U.S.A. maize inbred line collection
Local gene annotations, SNP density, and LD r 2between each SNP within 0.5 Mbp of a SNP association. Positions of genes in the filtered gene set are shown as green boxes on Y-axis, brief annotations of the genes are shown along with the number of SNPs scored in the gene in parenthesis. SNPs are colored circles, their position on X-axis represent their LD r 2 with respect to the SNP reported as significantly associated with Fusarium ear rot. Note that the X-axis limits vary. The positions of significantly associated SNPs are indicated with horizontal lines. (A) Four significant SNPs located in the 7.6 Mbp to 9.4 Mbp interval on chromosome 4 displayed with different colors. The color of circles indicates the significant SNP to which the pairwise LD estimate refers. Two SNPs are located in an F-box gene so closely that their positions and LD values with other SNPs cannot be distinguished at this scale; their LD estimates are shown in blue. (B) A 1-Mbp region around a significantly associated SNP at 124,930,006 bp on chromosome 4. (C) A 1-Mbp region around a significantly associated SNP at 64,771,372 bp on chromosome 5. (D) A 1-Mbp region around a significantly associated SNP at 19,532,465 bp on chromosome 9.