Fig. 3
Loss of mCG in O. fasciatus ovaries has a limited effect on transcription. a Gene expression level for deciles of increasing mCG (1–10) and unmethylated genes (UM). Error bars represent 95% confidence interval of the mean. b Regression of gene expression against a continuous measure of mCG with > 0 FPKM for the same set of genes that are CG-methylated in O. fasciatus control, but unmethylated in ds-dnmt1-1. Raw p values are provided for each regression, and significance or non-significance (NS) is indicated in brackets following Bonferroni correction. c The relationship between change in gene expression measured as the log2 fold-change of FPKM between O. fasciatus ds-dnmt1-1 and control and DNA methylation measured as the difference between O. fasciatus ds-dnmt1-1 and control. For gene expression, FPKM values were averaged across libraries. Density of bins corresponds to the number of genes with similar changes to expression and DNA methylation mCG levels. d Number of overlapping genes that are differential CG-methylated and expressed, and similarly CG-methylated and expressed between O. fasciatus ds-dnmt1-1 and control. Gene groups: differentially methylated gene (DMG), differentially expressed gene (DEG), similarly methylated gene (SMG)/unmethylated genes (UMG), and non-differentially expressed gene (non-DEG)