Characterization of the epitranscriptomic landscape of HIV-infected cells II

In this study, we used a productive HIV infection model, consisting of the CD4+ SupT1 T cell line infected with a VSV-G pseudotyped HIVeGFP-based vector, to explore the transcriptomic and m6A/m5C epitranscriptomic lansdcape upon HIV infection, and compare it to mock-treated cells at 12h, 24h, and 36h post infection. SupT1 cells were either infected with 1 µg/10^6 cells p24 equivalent of HIV_GFP virus or left uninfected, divided into aliquots of 5*106 cells/ tube and spinoculated for 90 minutes at 1500 g and 20°C to allow nearly universal infection. Cells were then resuspended at a concentration of 10^6 cells/ml and further incubated. At 12, 24 and 36h post–infection, RNA was extracted from each cellular sample and virus-containing supernatant and further processed for RNA-Seq to investigate gene expression, MeRIP-Seq and BS-Seq to investigate m6A and m5C epitranscriptomic marks.