Fig. 6: Translation of transcriptionally upregulated genes is compromised in late SARS-CoV-2 pathogenesis.
a Function and pathway enrichment analysis with RPF level changes of individual genes at each time point post SARS-CoV-2 infection. Comparison between the datasets of mouse lung tissues and human cell lines26. The dot sizes and colors indicate the FDRs and enrichment scores, respectively, of individual functions. b Heatmaps showing enrichment scores of individual function and pathway terms that were overrepresented in the analyses of RPF and RNA level changes (the left and center panels, respectively) for individual genes in the mouse tissue datasets. The right panels represent the differences between the RPF and RNA enrichment scores of the corresponding terms. c Left: a Venn diagram of the genes constituting immune response-related GO terms. Right: Heatmaps showing the temporal changes in ribosome densities (RDs) of the immune response-associated genes in the lung tissues during SARS-CoV-2 pathogenesis. The gene clusters with RD increases 1–2 dpi and decreases 5–7 dpi are indicated by red lines. d GO enrichment networks of the immune response-associated genes that exhibited translational downregulation in the late phase and are indicated by red lines in c. e Networks of the GO terms that were overrepresented in the GSEA of 2 dpi (lower left) and 7 dpi (lower right) groups versus the respective control groups. The dot sizes and colors indicate the number of genes that led to enrichment in individual terms and the normalized enrichment scores, respectively.
