FIGURE 2.

Detection of viral transcripts in a large proportion of cells in the population. (A) t-SNE projections of data from each of the 6,837 profiled activated cells depicted as dots colored based on their content in transcripts mapping to viral ORFs. (B) t-SNE projection of data colored based on their quantitative (Log₂ Gene Exp Max) cumulative content in transcripts mapping to the viral ORFs UL122, UL123, UL112/113, UL84, TRS1, UL36, UL37, UL38, UL54, UL44, UL102, UL105, UL70, or UL57. (C–E) Merged representative images of activated myeloid cell populations infected with TB40/E at an MOI of 10, harvested at day 2 pi, and co-stained for IE1/IE2 (green) plus UL84 (red, C), or UL44 (red, D) or UL57 (red, E) and with Hoechst 33342 (blue) to visualize cell nuclei. Cells expressing IE1/IE2⁺ and the marker protein of interest appear yellow. (F) Percentage of IE1/IE2⁺ cells co-expressing the UL84, UL44, or UL57 proteins at day 2 pi, manually counted from 5 to 15 images/sample of non-activated and activated myeloid cells in seven independent experiments. Median, median absolute deviation and P-values from unpaired T-tests are shown.