Fig. 5: Correlation of 5hmC alterations with expression changes of key genes in neuropsychiatric disorders. | Nature Communications

Fig. 5: Correlation of 5hmC alterations with expression changes of key genes in neuropsychiatric disorders.

From: Brain methylome remodeling selectively regulates neuronal activity genes linking to emotional behaviors in mice exposed to maternal immune activation

Fig. 5: Correlation of 5hmC alterations with expression changes of key genes in neuropsychiatric disorders.The alternative text for this image may have been generated using AI.

a Gene expression changes in the PFC of offspring mice exposed to maternal ZIKV infection. Downregulated genes with at least one significant loss-of-5hmC are highlighted in blue; upregulated genes with significant gain-of-5hmC are highlighted in orange. RNA-seq log2FoldChange and P value were plotted, n = 4 biological replicates. DEseq2 were used for 5hmC differential analysis, multiple test adjustment was performed by p.adjust function, method fdr in R, significant 5hmC change was defined by FDR (False Discorvery Rate) < 0.05, n = 3 biological replicates. b Heat map of genes with downregulation of 5hmC and mRNA expression from bulk RNA-seq (left panel); GO analysis of downregulated genes with at least one loss-of-5hmC region (right panel). c Heat map of genes with upregulation of 5hmC and mRNA expression from bulk RNA-seq (left panel); GO analysis of upregulated genes with at least one gain-of-5hmC region (right panel). d IGV view (upper panel) and qPCR validation (lower panel) of 5hmC genome profiling data focusing on randomly selected DhMR regions. Chr3:50212643-50212761, mock n = 9, ZIKV n = 6; chr9:48531283-48531484, mock n = 9, ZIKV n = 9; chr12:28025035-28025184, mock n = 9, ZIKV n = 6 biological replicates. P values were calculated by one-tailed unpaired t-test. e, f FPKM (Fragments Per Kilobase of transcript per Million mapped reads) from bulk RNA-seq (e) followed by qPCR validation of gene expression (f). e n = 4, f n = 3 biological replicates per group. P values were calculated by one-tailed unpaired t-test. g, h IGV view (g) and experimental validation of 5hmC levels associated with IEGs (h). Mock n = 9, ZIKV n = 12 biological replicates per gene. P values were calculated by two-tailed unpaired t-test. i Significant overlap between dynamic 5hmC-marked genes in ZIKV offspring mice and genes associated with elevated risk of anxiety, autism spectrum disorder (ASD), depression, and schizophrenia (SCZ). P-values are indicated in the figure and were calculated using binomial tests. All data are presented as mean values ± SEM. Source data are provided as a Source Data file.

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