Bulk RNA-sequence of four monocyte-macrophage subpopulations isolated from the IgE-dependent skin allergic inflammation (IgE-CAI) skin lesion

Basophils play critical roles in the development of mouse delayed-onset skin allergic inflammation (IgE-CAI model). Importantly, they also contribute to the resolution of allergic inflammation by promoting the generation of pro-resolving macrophages. However, it remains unclear how pro-resolving macrophages suppress excess inflammation. To address this, we conducted single-cell RNA-seq (scRNA-seq) analysis of the IgE-CAI skin lesion at days 3 and 5 post-challenge of allergens. scRNA-seq analysis identified four distinct monocyte-macrophage subpopulations, namely classical monoytes, early CMDMs, late CMDMs and resident-like macrophages. Based on the gene expression profiles, classical monoytes, early CMDMs, late CMDMs and resident-like macrophages corresponded to Ly6ChiPD-L2lo, Ly6ChiPD-L2hi, Ly6CloPD-L2hi, and Ly6CloPD-L2lo, respectively. Overall design: IgE-CAI model was elicited to BALB/c WT mice. Cells isolated from IgE-CAI skin lesions of WT mice on day 5 post-antigen challenge were subjected to cell sorting. Four monocyte-macrophage subpopulations, namely Ly6ChiPD-L2lo, Ly6ChiPD-L2hi, Ly6CloPD-L2hi, and Ly6CloPD-L2lo were isolated from the IgE-CAI skin lesion and subjected to bulk RNA-seq analysis.