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. 2023 Feb 6;26(3):406–415. doi: 10.1038/s41593-023-01257-z

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© The Author(s) 2023

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Extended Data Fig. 6 — (a) UMAP plot of 4,238 cells, color-coded based on the inferred cell type. (b) DotPlot of gene expression for a series of known cell type markers for fibroblasts (Lama1, Lum, Cdh5, Dcn), microglia (Sall1, Tmem119, P2ry12), PVMs (Pf4, Cd163), and OPC (Lhfpl3, Sox6, Bcan). Expression of genes encoding for markers used for FACS of cells prior to scRNA-seq (Pdgfra, Ptprc, Itgam, Mrc1, Cx3cr1) and for Spp1 is also included. Radius of dot is proportional to the percentage of cells expressing the gene, color is the scaled gene expression level. (c) Violin plot of Spp1 expression reanalyzed from Jung-Seok Kim et al.¹¹. (d) RiboTag-based translatome analysis of pooled oAβ and PBS-challenged brain homogenates of Cx3cr1^ccre:Lyve1^ncre (n = 8 mice) and Cx3cr1^ccreSall1^ncre:RiboTag-mice (n = 4 mice). Normalized reads of pan macrophage marker (Cx3cr1), PVM marker (Lyve1), microglia marker (Sall1) and Spp1. P Values from two-way ANOVA, Bonferroni’s multiple comparison test. Data are shown as Mean ± SEM. Data are from 1 independent experiment. (e) Gating strategy to identify CD321 (F11r) and CD29 (Itgb1) expression in microglia (CX3CR1^highCD45⁺ CD206^- CD11b⁺). (f) Representative image of P2Y12⁺ microglia expressing tgfbr1, assessed by smFISH-IHC in 6 mo App^NL-F and App^NL-F.Spp1^KO/KO SLM. Scale bar represents 10 µm. Data representative of n = 3 mice per genotype examined over 1 independent experiment.