GSM8606157: HSPCs, WT naïve; Mus musculus; ATAC-seq
Isolated bone marrow from M. avium infected and naïve mice were collected pooled by sample group, red blood cell lysed (BioLegend 420301), and cKit-enriched via magnetic bead enrichment (Miltenyi 130-097-146). Specific HSPCs, including LT-HSCs (Lin-, cKit+, CD48-, CD150+, Flk2-, CD34-),, CD41+ HSCs (Lin-, cKit+, CD150+, CD41+), MPP3s (Lin-, cKit+, CD48+, CD150-, Flk2-, CD34+), and GMPs (Lin-, cKit+, CD41-, CD16/32+), and lineage cells, including macrophages (B220-, CD3-, CD11c-,Gr1+, Mac-1+, Ly6g-, Ly6c+), neutrophils (B220-,CD3-, CD11c-, Gr1+, Ly6g+, Ly6c+), and B cells (B220+, CD3-, Gr1-, Mac-1+), were stained and sorted for with FACS on BD Aria IIs. Cells were counted and combined in equal ratios per group based on live/dead counts post-sort at roughly 50,000 cells per group. Nuclei were isolated and loaded onto the Chromium controller system to generate 10X scATAC-seq libraries. Library preparation and generation was handled by the Baylor Single Cell and Genetics core using an Illumina NovaSeq, and quality control of libraries was completed using a Bioanalyzer and Nandrop system.