Figure 1.
Transposable element genes are upregulated in the ddm1 mutant and after 5-AC treatment.
Log expression differences (5-AC/Ws or ddm1/Ws) for 240 probesets annotated as transposable elements that were present on the microarray.
Figure 2.
Genes misregulated in ddm1 are not evenly distributed in the Arabidopsis genome.
A. log10 fold-difference values (5-AC/Ws) and (ddm1/Ws) are plotted by transcription start site for 5 Arabidopsis chromosomes. B. log10 fold-difference values for 5-AC treated and ddm1 seedlings for chloroplast and mitochondrial genes.
Figure 3.
DNA damage repair genes are upregulated after 5-AC treatment.
Quantitative RT-PCR expression ratios (5-AC and ddm1 normalized to Ws untreated control) for genes associated with repair of DNA damage or chromatin structure. Error bars indicate 95% confidence interval. AtBRCA1, ARABIDOPSIS THALIANA BREAST CANCER SUSCEPTIBILITY1 (At4g21070); DMC1, DISRUPTION OF MEIOTIC CONTROL1 (At3g22880); ROS1, REPRESSOR OF SILENCING1 (At2g36490); MSH4, MUTS HOMOLOG4 (At4g17380).