Extended Data Fig. 7: PU.1 levels govern microglia transcriptional responses in 5xFAD mice: microglia single nuclei analysis (related to Fig. 4).
From: Lymphoid gene expression supports neuroprotective microglia function
(a-f) Single-nuclei mRNA sequencing of cortical microglia from a 6-month-old 5xFAD (♀), 5xFAD;PU.1-low (♂), and 5xFAD;PU.1-high mouse (♂). (a) Left: Isolation of lineage-traced microglial nuclei by fluorescence-activated nuclear sorting (FANS) followed by single-nuclei sequencing of cortical microglia from 6-month-old control, 5xFAD, and 5xFAD;PU.1-low mice. Please see Supplementary Fig. 2b for the gating strategy. Right: Uniform manifold approximation and projection (UMAP) visualizations show microglia assigned into clusters that are manually annotated based on the marker genes. (b) The dot plot shows the scaled average expression per cluster (color) and the percentage of cells (size) from each DAM subcluster. (c) UMAP visualizations show microglia assigned into clusters that are manually annotated based on the marker genes shown in Supplementary Table 10. (d) The bar graphs show the change in the percentage of different microglia subpopulations in the three genotypes. (e, f) Feature plots show the expression of indicated lymphoid (e) and interferon genes (f) and the distribution of cells expressing the genes. Illustrations in a were created using BioRender (https://biorender.com).
