GSE104801
CATaDa chromatin accessiblity data for neural and midgut cell types.
Regulation of eukaryotic gene expression is coordinated by dynamic changes to chromatin states throughout development. Measurements of accessible chromatin are used extensively to identify genomic regulatory elements. Whilst the chromatin landscapes of pluripotent stem cells are well characterised, chromatin accessibility changes in the development of somatic stem cell lineages are not well defined. Here we show that tissue specific chromatin accessibility data can be produced via ectopic expression of E. coli Dam methylase in vivo, without the requirement for cell-sorting. We have profiled chromatin accessibility in individual cell types of the Drosophila neural and midgut stem cell lineages. Functional cell-type specific enhancers were identified, as well as novel motifs enriched at different stages of development. Finally, we show global changes in the accessibility of chromatin between stem-cells and their differentiated progeny. Our results demonstrate the dynamic nature of chromatin accessibility in somatic tissues during stem cell differentiation and provide a novel approach to understanding the gene regulatory mechanisms underlying development. Overall design: Animals were raised at 18 degrees and shifted to 29 degrees at the appropriate developmental stage. 24 hours after temperature shift, tissues were collected and frozen. Genomic DNA was isolated, RNAseA treated and DpnI digested.  Adaptors were ligated to DpnI digested DNA followed by DpnII digestion PCR amplification, sonication and removal of adaptors.Libraries were generated using the illumina TruSeq library kit and sequenced on a HiSeq2500.