Figure 3.

IAV mRNAs Can Be Translated from Host-Derived AUGs

(A) Proportion of reads that align to viral and human transcripts for the indicated experimental conditions.

(B) 5′ end mapping of ribosome protected fragments (RPFs) in harringtonine-treated A549 cells infected with the IAV PR8 at 8 h post-infection, showing for each segment of the IAV genome the distribution of reads in the cap-snatched regions (shown in insets) and virally encoded mRNA up to 10 nt after the canonical start codon. The x axis is shown relative to the first virally encoded nucleotide.

(C) For each IAV genome segment, the number of ribosome-protected fragments (RPFs) upstream of the canonical AUG as a proportion of those mapping to the canonical AUG is shown. Data are shown as the mean ± SD.

(D) Barplots showing the percentages of RPFs that contain an AUG when cells were treated with DMSO (black bars) or harringtonine (gray bars) immediately prior to harvest, or from total mRNA-seq (white bars). Results from two sequencing replicates are shown as points, with bars showing the mean.