ChIP-Seq of Arabidopsis Transcription Factors MYC2 and MYC3

The genome-wide target genes of transcription factors MYC2 and MYC3 were determined in etiolated (dark-grown) seedlings of Arabidopsis thaliana. Chromatin immunoprecipition of MYC2 and MYC3 was performed as described in O’Malley et al (2016; doi: 10.1016/j.cell.2016.04.038), using transgenic A. thaliana expressing MYC2::YpET and MYC3::YpET fusion proteins from their native promoters, generated by recombineering (Gimenez-Ibanez et al. 2017; doi: 10.1111/nph.14354 ). Three-day old etiolated seedlings were treated with methyl JA for 2 h (as described in Schweizer et al., 2013), then harvested for ChIP-Seq. Two biological replicates were conducted for MYC2 and one for MYC3. IgG controls (in place of anti-GFP) from a number of ChIP-seq reactions performed on non-transgenic Arabidopsis material were used to normalize for non-specific recovery of DNA from the Arabidopsis genome.