Fig. 4: Functional rejuvenation of the dorsal hippocampus in enriched environments. | Nature Communications

Fig. 4: Functional rejuvenation of the dorsal hippocampus in enriched environments.

From: A multiomic atlas of the aging hippocampus reveals molecular changes in response to environmental enrichment

Fig. 4

a Bar plots indicating the total number of DEGs (FDR < 0.05, two-sided Wald tests) with increased or decreased levels in response to EE in young, old or all samples. b Bar plots describing the measured EE log2(fold change) across a panel of EE-associated DEG markers from Wassouf et al. (2018). Each column indicates the change for the effect of EE on all, young or old samples (two-sided Wald tests). The colour of the gene labels indicates up-regulation (orange) or down-regulation (blue) in the original publication. c Bubble plot showing the top 10 significant pathways (FDR < 0.05, one-sided Wallenius tests) found enriched for the top EE down-regulated DEGs (unadjusted p < 0.05, two-sided Wald tests) in the Gene Ontology Biological Process database. The size of the bubbles indicates the log2(odds ratio) of enrichment. d UpSet plot describing the intersections between aging and EEall DEGs (FDR < 0.05, two-sided Wald tests). e Violin plots showing the log2(fold change) values for the aging up- and down-DEGs (FDR < 0.05, two-sided Wald tests) and also, for the same sets of genes, the fold change values with EE (***p < 2.2e-16 for two-sided Wilcoxon rank sum tests). Box plots shown indicate median value, interquartile range (IQR), up to 1.5 IQR (whiskers), and have been cropped at their 2nd and 98th percentiles. f Bar plots indicating the total numbers of DEPs (FDR < 0.05, two-sided moderated t-tests) with increased or decreased levels in response to EE in young, old or all samples. g UpSet plot showing the intersections between aging and EEall DEPs (FDR < 0.05, two-sided moderated t-tests). h Violin plots describing the log2(fold change) values for the aging up- and down-DEPs (FDR < 0.05, two-sided moderated t-tests) and also, for the same sets of genes, the fold change values with EE (***p < 2.2e-16 for two-sided Wilcoxon rank sum tests). Box plots as described in (e). i, j Line plots showing the RNA-seq gene expression values (scaled VST units) of curated genes which show opposing aging and EE changes (i) or rejuvenation specifically in old subjects (j). Box plots shown indicate median value, interquartile range (IQR) and up to 1.5 IQR (whiskers), and individual data lines showing minimum and maximum value.

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