Consequences of depleting TNRC6, AGO, and DROSHA proteins on expression of microRNAs

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FIGURE 5.
FIGURE 5.

Effect of genetic deletion of AGO paralogs on mature miRNA expression. (A) Volcano plot of global differential miRNA expression of miRNAs annotated on MirGeneDB relative to WT from small-RNA-sequencing of HCT116 AGO1−/−, AGO2−/−, AGO1/2−/−, and AGO1/2/3−/− knockout cells. Differential expression and significance (P-adj) calculated with edgeR, and dotted lines represent two log2 fold-changes. Read cutoff of 1 TPM for all displayed miRNAs. (B) Volcano plot of differential miRNA expression relative to WT from small-RNA-sequencing showing only the top 100 miRNAs associated with AGO2 from AGO2-eCLIP in WT HCT116. (C) Plot of TPM for the top 100 miRNAs from AGO2-eCLIP in WT and AGO1/2/3−/− with the color of each point representing log2 fold-change in AGO1/2/3−/− relative to WT. (D) Heat map of differential expression of the top 30 miRNAs associated with AGO2 from AGO2-eCLIP from HCT116 AGO1−/−, AGO2−/−, AGO1/2−/−, and AGO1/2/3−/− relative to WT.

This Article

  1. Published in Advance May 11, 2023, doi: 10.1261/rna.079647.123 RNA 29: 1166-1184

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