Pol2 and H3K27Ac and H3K27me3 occupancy of the viral genome in HCMV infected Kasumi-3 cells at early times post infection

Purpose: to compare Pol2 and H3K27Ac and H3K27me3 in HCMV infected Kasumi-3 cells at 4 and 24 hours post infection Overall design: Kasumi-3 cells were infected with the TB40/E wtGFP strain of HCMV. At 4 hr post-infection, virus was inactivated and cells were either fixed immediately (4hpi) or left in culture for additional 24 hours. After fixation, cells were lysed and sonication with Covaris Focused-ultrasonicator at 10% Duty Cycle, 140 peak, 200 cycles per burst, 360 seconds. ChIP was performed by incubating the sonicated sample with either Rpb1 NTD (D8L4Y) Rabbit mAb #14958, Acetyl-Histone H3 (Lys27) (D5E4) XP Rabbit mAb #8173, or Tri-Methyl-Histone H3 (Lys27) (C36B11) Rabbit mAb #9733 (Cell Signaling Technologies) and the protein A/G agarose beads. Beads were washed and eluted in 200µl of elution buffer (50 mM Tris-HCl at pH 8.0, 10 mM EDTA, 1.0% SDS). The eluates were de-cross-linked and the DNA purified using the Qiagen PCR purification kit. Libraries were prepared with the KAPA HTP Library Preparation Kit multiplexed with NEXTflex DNA Barcodes (Bioo Scientific) and size selected with AMPure XB beads (Beckman Coulter) to have fragments 250-450 bp in length. Library quality control was assessed using Bioanalyzer High Sensitivity DNA Analysis kit (Agilent) and sequencing was performed with Illumina NextSeq technology (50bp single- end reads).