ZFP541 ChIP-seq targets during male meiotic prophase

ZFP541 is assumed to possess putative DNA-binding domains and associated with histone deacetylases, implying it plays a role in regulation of transcription via modulation of chromatin status. Therefore, we used ChIP-seq to search for targets of ZFP541 in meiotic prophase of mouse spermatocytes. ZFP541 ChIP was performed using chromatin lysates, that were derived from wild type testes at postnatal day 18-19, and protein A Dyna-beads (Thermo-Fisher) coupled with 5 μg of rabbit anti-ZFP541-N antibodies (#1 and #2). ChIP-seq libraries were prepared using 20 ng of input DNA, and 4 ng of ZFP541 ChIP DNA with KAPA Library Preparation Kit (KAPA Biosystems) and NimbleGen SeqCap Adaptor Kit A or B (Roche) and sequenced by Illumina Hiseq 1500 to obtain single end 50 nt reads. ChIP-seq reads were trimmed to remove adapter sequence when converting to a fastq file.