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Fig. 7 | BMC Genomics

Fig. 7

From: Global expression differences and tissue specific expression differences in rice evolution result in two contrasting types of differentially expressed genes

Fig. 7

Tissue specificity index (τ) and variations explained by detected eQTLs for changed-tissues indica-indica DE genes. Box plots of Nipponbare τ distributions of the following four different types of genes were shown in panel a. “Three-way changed-tissues DE genes”: all expression levels among the three strains were different in one tissue and the expression levels in the three strains were same in the other four tissues. “Indica-indica changed-tissues DE genes”: expression levels in Minghui63 and Zhenshan97 were different and the expression level in Nipponbare was the same to either in Minghui63 or in Zhenshan97 in one tissue, and the expression levels in the three strains were same in the other four tissues. “Common changed-tissues jiDE genes”: the expression level in Nipponbare was different from the two indica strains and the expression level in the two indica strains was the same in one tissue, and the expression levels in the three strains were same in the other four tissues. “Three strain SE genes”: expression levels in the three strains were same in the five tissues. Numbers of genes in each category are indicated at the bottom of each box plot. Scatter plots between Minghui63 τ and the sum of explained variation by detected eQTLs [20] for changed-tissues MZDE genes at the early seedling stage are shown in panel b. The sum of explained variation means a simple summation of explained expression variation across RILs by all detected eQTLs for each gene (Additional file 24: Table S14). Black square genes had cis-eQTL among the detected eQTLs. Gray square genes had no cis-eQTL among the detected eQTLs

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