Cyclophilin A Facilitates HIV-1 DNA Integration

Padron, A.; Dwivedi, R.; Chakraborty, R.; Prakash, P.; Kim, K.; Shi, J.; Ahn, J.; Pandhare, J.; Luban, J.; Aiken, C.; Balasubramaniam, M.; Dash, C.

doi:10.1101/2024.06.15.599180

bioRxiv · 10.1101/2024.06.15.599180

Cyclophilin A Facilitates HIV-1 DNA Integration

Padron, A.·Dwivedi, R.·Chakraborty, R.·Prakash, P.·Kim, K.·Shi, J.·Ahn, J.·Pandhare, J.·Luban, J.·Aiken, C.·Balasubramaniam, M.·Dash, C.

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Abstract

Cyclophilin A (CypA) promotes HIV-1 infection by facilitating reverse transcription, nuclear entry and by countering the antiviral activity of TRIM5. These multifunctional roles of CypA are driven by its binding to the viral capsid. Interestingly, recent studies suggest that the HIV-1 capsid lattice enters the nucleus of an infected cell and uncoats just before integration. Therefore, we tested whether CypA-capsid interaction regulates post-nuclear entry steps of infection, particularly integration. First, we challenged CypA-expressing (CypA+/+) and CypA-depleted (CypA-/-) cells with HIV-1 particles and quantified the resulting levels of provirus. Surprisingly, CypA-depletion significantly reduced integration, an effect that was independent of CypAs effect on reverse transcription, nuclear entry, and the presence or absence of TRIM5. Additionally, cyclosporin A, an inhibitor that disrupts CypA-capsid binding, inhibited HIV-1 integration in CypA+/+ cells but not in CypA-/- cells. Accordingly, HIV-1 capsid mutants (G89V and P90A) deficient in CypA binding were also blocked at integration in CypA+/+ cells but not in CypA-/- cells. Then, to understand the mechanism, we assessed the integration activity of HIV-1 preintegration complexes (PICs) extracted from infected cells. The PICs from CypA-/- cells had lower activity in vitro compared to those from CypA+/+ cells. PICs from cells depleted for CypA and TRIM5 also had lower activity, suggesting that CypAs effect on PIC activity is independent of TRIM5. Finally, addition of CypA protein significantly stimulated the integration activity of PICs extracted from both CypA+/+ and CypA-/-cells. Collectively, these results suggest that CypA promotes HIV-1 integration, a previously unknown role of this host factor. ImportanceHIV-1 capsid interaction with host cellular factors is essential for establishing a productive infection. However, the molecular details of such virus-host interactions are not fully understood. Cyclophilin A (CypA) is the first host protein identified to specifically bind to the HIV-1 capsid. Now it is established that CypA promotes reverse transcription and nuclear entry steps of HIV-1 infection. In this report, we show that CypA promotes HIV-1 integration by binding to the viral capsid. Specifically, our results demonstrate that CypA promotes HIV-1 integration by stimulating the activity of the viral preintegration complex and identifies a novel role of CypA during HIV-1 infection. This new knowledge is important because recent reports suggest that an operationally intact HIV-1 capsid enters the nucleus of an infected cell.

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Padron, A., Dwivedi, R., Chakraborty, R., Prakash, P., Kim, K., Shi, J., Ahn, J., Pandhare, J., Luban, J., Aiken, C., Balasubramaniam, M., Dash, C.. 2024-06-17. Cyclophilin A Facilitates HIV-1 DNA Integration. https://doi.org/10.1101/2024.06.15.599180

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