Chromatin accessibility (ATAC-seq) sequencing of five freshly isolated populations from the young and old subventricular zone

To determine the impact of aging on the chromatin landscape of cells in the neurogenic niche in vivo, we generated chromatin accessibility profiles from five distinct cell types freshly isolated from the SVZ of young and old mice. We aged cohorts of transgenic mice expressing green fluorescent protein driven by the promoter for glial fibrillary acidic protein (GFAPGFP), which allows the isolation of different cell types by fluorescent activated cell sorting (FACS). The SVZ neurogenic regions of young (3 to 5 months old) and old (20 to 24 months old) GFAPGFP mice were micro-dissected and five cell populations from this neurogenic niche were freshly isolated by FACS: endothelial cells, astrocytes, quiescent NSCs (qNSCs), activated NSCs (aNSCs), and neural progenitor cells (NPCs). To assess chromatin accessibility genome-wide on these rare cell populations, we generated sequencing libraries of genome-wide chromatin accessibility using ATACseq.