BS-seq of B73
Total genomic DNA (~2g) was fragmented into 200500bp pieces by sonication in a Bioruptor. The fragmented DNA was end repaired, Subsequently Proceeding 3-end adenylation, and methylated DNA adapter ligation. ~0.5g adapter-ligated DNA fragments were treated with bisulfite, followed by by 10 cycles of PCR using KAPA HiFi HotStart and subject to purification using VAHTS DNA Clean Beads (Vazyme). For each genotype, Libraries with two biological replicates that passed quality control were then equally pooled and sequenced across multiple lanes on a NovaSeq 6000 machine.