S2R+ cells whole genome seq
The Whole Genome  DNA libraries  were constructed using TruSeq Nano DNA LT Sample Preparation Kit Set B (24 Samples), Catalog no-FC-121-4002  according to the manufacturers instructions (Illumina Inc., USA). Briefly, the genomic DNA (100ng) were sonicated using Covaris S220 to 350 bp insert size and clean up the fragmented DNA using illumina sample purification beads. Purified fragmented DNA were end repaired, 3'ends adenylation and adapter ligation. DNA fragments were enriched using 8 cycles of PCR according to the manufacturer's instructions. Library quality were analyzed on Agilent 2100 Bioanalyzer using DNA high sensitivity kit (Agilent Technologies, USA). Next generation sequencing of libraries were performed using Illumina Hiseq 2500 for 2x100 bp.  Sequence reads of both ISO (30 million paired end reads) and S2 (29 million paired end reads) cells were imported into the CLC Genomics Workbench 12.0 (Qiagen). The reads were trimmed off the adapter sequences and reads containing low quality bases eliminated. The trimmed raw sequences were mapped to the Drosophila melanogaster genome and basic variant detection tool were used using default parameter of CLC Genomics workbench.