Physiologic RNA targets and refined sequence specificity of coronavirus EndoU

Abundance of cyclic phosphate ends by MHV genomic region and MHV mRNA abundance. (A) Normalized cyclic phosphate counts per MHV genomic region in wt, IFNAR^−/−, and RNase L^−/− BMM across all conditions of viral infection at 12 hpi. Transcriptional regulatory sequences (TRSs) are numbered by their associated mRNA (2–7). Other MHV genomic regions are labeled as shown in Figure 1A. (B) Frequency and location of cleavage in the MHV TRS elements in wt BMM during infection with MHV^(V) and EndoU^mut at 12 hpi. The x-axis includes the sequence and position of the six-base MHV TRS elements. (C) Normalized RNA-seq counts (sum of MHV sg mRNA/sum of all MHV mRNAs) of MHV sg mRNAs detected in wt, IFNAR^−/−, and RNase L^−/− BMM across all conditions of viral infection at 9 and 12 hpi.