Figure 2

Effects of null mutation of OsRDR1 on global gene expression in rice. (a) A summary of microarray analysis showing the total number of genes detected and the number of differentially expressed genes in WT and Osrdr1. (b) Gene Ontology (GO) category analysis of the 1,175 differentially expressed genes between WT and Osrdr1 . The y-axis is the percentage of genes mapped by the GO category terms: the percentages were calculated by the number of Osrdr1 vs. WT differentially expressed genes divided by the total number of genes mapped to the particular GO category. The x-axis is the GO category terms which were ordered by their relative abundance (total number of expressed genes in the shoot-tip tissue of rice are 45,078). The blue bars denote percentages for each category of all the annotated genes, and the red bars denote percentages of the GO categories of all the expressed genes. (c) Distribution of the 1,175 Osrdr1 vs. WT differentially expressed genes across each of the 12 the rice chromosomes (horizontal lines). The red columns above and the green columns below the chromosomes represent up- and down-regulated genes in Osrdr1 vs. WT, respectively. The y-axis indicates fold changes in gene expression between Osrdr1 and WT. The vertical blue bars denote for centromeric regions. (d) Validation of the microarray results by qRT-PCR, where the blue and red columns represent WT and Osrdr1, respectively. Numbers 1 and 2 below each gene represents data of microarray and qRT-PCR results, respectively. Statistical significance at that P <0.05 and P <0.01 levels is marked by one or two asterisks.