Additional file 1: of Transcriptome profiling of brain myeloid cells revealed activation of Itgal, Trem1, and Spp1 in western diet-induced obesity
Creators: name: Hongtian Yang
name: Graham, Leah
name: Reagan, Alaina
name: Grabowska, Weronika
name: Schott, William
name: Howell, Gareth
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Neuroscience
subject: Physiology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: FOS: Chemical sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Cancer
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: FOS: Health sciences
subject: Plant Biology

description: Figure S1. The percent of CD45+CD11c+ cells was increased by WD consumption in a CCR2-dependent manner. (A) Gating strategy showing total CD45+CD11c+ cells from total CD45+CD11b+ cells (from Fig. 3f). (B-C) Gating strategy showing CD11c+ cells from CD11b+CD45lo (B) and CD11b+CD45hi cells (C) from Fig. 3g, respectively. (D) Box plot showing the percent of total CD45+CD11c+ cells from 6-month CD-fed, 12-month CD- or WD-fed WT or Ccr2-KO mice. (E) Box plot showing the percent of CD45loCD11c+ (marked in B) and CD45hiCD11c+ (marked in C) cells (two-way ANOVA followed by Tukey HSD post hoc test, *p 1.3 and number of genes in pathways ≥ 3. (B) Box plots showing the log2-transformed expression of Ctsd and genes involved in protein ubiquitination pathway in CD11b+C45lo and CD11b+CD45hi cells from CD or WD-fed mice. (C) Fold change (FC) of Ctsd and genes involved in protein ubiquitination pathway comparing CD11b+CD45hi cells from WD and CD-fed mice, colored by significance level using -log10(FDR). The positive FC value means the gene expression of CD11b+CD45hi from WD is larger in than that in CD-fed mice and vice versa. Figure S6. Shared transcriptomic features of brain myeloid cells in diet-fed, aged B6 and B6.APP/PS1 mice. (A) PCA plot showing the first and second component of transcriptional expression profiles between CD11b+C45lo and CD11b+CD45hi cells in aged WT (20 months) mice and APP/PS1 (6 months) mice. (B) Top 15 shared canonical pathways revealed by IPA based on DE genes between CD11b+C45lo and CD11b+CD45hi cells in mice fed a CD or WD (12 months), aged WT mice (20 months) and APP/PS1 (6 months). Figure S7. Top genes enriched in CD11b+CD45hi cells reflected peripheral myeloid cell profiles in WD-fed mice. Normalized gene expression plot (reproduced from ImmGen datasets) showing relative gene expression values for 34 CD11b+C45lo cell-enriched DE genes (A) or 73 CD11b+CD45hi cell-enriched DE genes (B) across all immune cell types available on ImmGen RNA-seq datasets. Figure S8. The number of OPN+IBA1+ cells per animal in the brain. (A) Box plot showing the number of OPN+IBA1+ cells per animal (the sum of cell numbers on seven images) in 12-month CD or WD-fed WT mice. (T test, **p = 0.0021). (B) Box plot showing the number of OPN+IBA1+ cells per animal (the sum of cell numbers on seven images) in 12-month CD or WD-fed Ccr2-KO mice. (T test; not significant, NS). (PDF 7836 kb)