Figure 1
From: Impact of various high fat diets on gene expression and the microbiome across the mouse intestines
Differential impact of HFDs on gene expression across different parts of the intestines. (A) Work-flow: male C57Bl/6N male mice were weaned at 3 weeks of age to either a regular chow diet (VIV) or one of the three high fat diets—CO coconut oil, SO + CO soybean oil enriched, PL + CO low-LA soybean oil (Plenish) enriched. One centimeter of each tissue was used to perform RNA-seq (regions indicated with a circle). Post sequencing analysis was done as indicated. N = 3 per tissue for VIV and 4 per tissue for the HFDs. See Supplementary Table S1 for diet composition. (B) 3D principal component analysis (PCA) showing differential effects of the diets on different parts of the intestines. (C) Bar plot showing the number of differentially expressed genes (DEGs, up and down regulated) (p-adj ≤ 0.05 and absolute fold change ≥ 2 (abs(Log2FC) ≥ 1)) in three HFDs vs VIV chow in different parts of the intestines. See Supplementary Tables S2–S5 for complete comparison of genes between diets and Supplementary Fig. S2 for volcano plots of the most dysregulated genes. (D) Venn diagrams showing the overlap of the DEGs (p-adj < 0.05, Log2FC ≥ 1) in the indicated diet comparisons across the tissues. See Supplementary Fig. S1 for Venn analysis between HFDs. (E) Bar plot showing the number of differentially expressed genes (DEGs, up and down regulated) (p-adj ≤ 0.05 and absolute fold change ≥ 2 (abs(Log2FC) ≥ 1) between the three HFD comparisons in different parts of the intestines. (F,G) Line graph of the average normalized read counts with standard deviation (SD) of Cyp2d26 (F) and Cyp2c55 (G) in various parts of the intestines on the indicated diets (VIV, CO, SO + CO, PL + CO). Significantly different levels of expression between the diets within a given tissue denoted by p-adj ≤ 0.05 and are indicated as follows: a (VIV vs CO); b (VIV vs SO + CO); c (VIV vs PL + CO); d (CO vs SO + CO); e (CO vs PL + CO); f (SO + CO vs PL + CO). See Supplementary Figs. S3 and S4 for heatmaps and line graphs of additional Cyp, Gst and UGT genes.
