We have shown previously that HIV actively and selectively packages the spliced HIV RNAs into progeny virions. In the present study, by using a RT-QPCR and QPCR strategies, we show that spliced viral RNAs are present in infectious particles and consequently participate, along with the unspliced genomic RNA, to some of the early steps of infection such as the reverse transcription step. This work provides the first quantitative data on reverse transcription of the fully spliced viral RNAs, also called the early transcripts, in target cells but also inside virions. The latter results were obtained by measuring the natural endogenous reverse transcription activity directly on intact HIV-1 particles. Our study reveals that spliced HIV RNAs are reverse transcribed as efficiently as the genomic RNA, both in cells and virions. Interestingly, we also show that reverse transcription of spliced RNAs is 56-fold less sensitive to the inhibitor AZT than reverse transcription of the genomic RNA. Therefore, the selection mediated by inhibitors of reverse transcription used to treat patients could lead to increased representativeness of spliced forms of HIV, thus favoring recombination between the HIV DNA species and facilitating HIV recovery.
FindingsHIV particles include two-copies of full-length genomic RNA (FL RNA) which represent less than 50% of the RNA mass in virions [1]. Indeed, HIV also packages viral spliced and cellular RNAs. Recently, in a detailed quantitative study, we showed that both singly and fully spliced viral RNAs are packaged with similar efficiencies into HIV-1 particles and by an active mechanism dependent of the FL RNA packaging [2]. Assuming that spliced HIV RNAs are packaged in infectious particles, we postulated that they are actively involved in some of the early stages of infection such as the reverse transcription (RTion) step. By using extensive QPCR strategies (well described in [2]), we investigated the fate of the spliced viral RNAs in HIV-1 infected cells, more specifically during RTion. We focused on the fully spliced (FSpl) RNAs because they represent the majority of the HIV-1 spliced transcripts and because they encode the regulatory proteins Tat, Rev and Nef, required to engage infection.
Fully-spliced HIV RNAs are reverse transcribed as efficiently as the FL RNA within infected cellsReverse transcription requires cis-acting elements of the FL RNA template including the Primer Binding Site (PBS) used for RTion initiation, the 5'R and 3'R regions, required for template switching, and the polypurine tracts