ATAC-seq_Com_G4/cyp82c4_repeat2 (CRX2096245)
ATAC-seq was performed following a previously described protocol with modifications. Briefly, nuclei were isolated from Arabidopsis roots using the Hyperactive Plant Nuclear Extraction Kit (Vazyme, NH101). After isolation, 5 uL of the resuspended nuclei were stained with DAPI for counting, and approximately 100,000 nuclei were used for each biological replicate. Subsequent steps followed the manufacturer's instructions for the Hyperactive ATAC-Seq Library Prep Kit for Illumina (Vazyme, TD711). The isolated nuclei were incubated with Tn5 transposase and fragmentation buffer for simultaneous DNA fragmentation and adapter insertion. The fragmented DNA was then purified using ATAC DNA Extract Beads (Vazyme). Library amplification was performed using universal i5 and barcoded i7 primers (Vazyme, TD202). The amplified libraries were size-selected with ATAC DNA Clean Beads using a two-step size selection procedure. Library quality was assessed before sequencing on an Illumina NovaSeq X Plus platform (PE150).