Monocyte-derived alveolar macrophages induced by influenza infection confer long-term antibacterial protection [RNA-seq]

To investigate transcriptomic differences using RNA-seq in macrophages from a BM origin (CD45.1) and embryonic origin (CD45.2) in influenza-experienced, and naive lungs - at baseline and following stimulation In this experiment we sorted alveolar macrophages from naïve, and post-influenza mice using congenic markers to indicate origin. Cells were then stimulated ex vivo for 16 hours with Pam3CSk4 to investigate differences in stimulated cells, but also at steady state (Mock stimulated). This was done in parallel with ATAC-sequencing, to identify changes at both the transcriptional, and chromatin level in the same ells.