Extended Data Fig. 6. Orf8 disrupts gene expression.

(a) Expression of Orf8^WT and Orf8^ΔARKSAP from FAC sorted cells used for RNA-seq. (b) Volcano plot of differential gene expression analysis of Orf8^WT expressing cells compared to GFP expressing cells. (c) Volcano plot of differential gene expression analysis of Orf8^ΔARKSAP expressing cells compared to GFP expressing cells. Red indicates significantly differentially expressed genes. (d) Overlap of genes down or upregulated by Orf8 and Orf8^ΔARKSAP compared to GFP expressing cells. (e) Gene ontology analysis of genes that are downregulated by Orf8 compared to Orf8^ΔARKSAP. (f-g) Volcano plot of differential gene expression analysis of Orf8^WT expressing cells compared to Orf8^ΔARKSAP expressing cells graphed by p value (f) and mean expression (g). (h) Gene tracks of genes that are induced by Orf8^ΔARKSAP but show a dampened response to Orf8. (i) Gene tracks of a gene that is not disrupted by Orf8 expression. (j) H3K9ac CUT&Tag reads at down and upregulated DEGs in Orf8 verses Orf8^ΔARKSAP. (k) ATAC-seq reads at down and upregulated DEGs in Orf8 verses Orf8^ΔARKSAP. DEG: differentially expressed gene. Volcano plots show differentially expressed genes in DESeq2 analysis with multiple comparison corrections. Gene ontology significance based on clusterProfiler analysis with Benjamini-Hochberg adjusted p-values. For RNA-seq, N = 2 for GFP and Orf8^ΔARKSAP and N = 3 for Orf8^WT. FACS gating strategy and cell numbers isolated shown in Supplemental Fig. 2.