TLR7/8 agonist induces a post-entry SAMHD1-independent block to HIV-1 infection of monocytes

Background Monocytes, the primary myeloid cell-type in peripheral blood, are resistant to HIV-1 infection as a result of the lentiviral restriction factor SAMHD1. Toll-like receptors recognize microbial pathogen components, inducing the expression of antiviral host proteins and proinflammatory cytokines. TLR agonists that mimic microbial ligands have been found to have activity against HIV-1 in macrophages. The induction of restriction factors in monocytes by TLR agonist activation has not been well studied. To analyze restriction factor induction by TLR activation in monocytes, we used the imidazoquinoline TLR7/8 agonist R848 and infected with HIV-1 reporter virus that contained packaged viral accessory protein Vpx, which allows the virus to escape SAMHD1-mediated restriction. Results R848 prevented the replication of Vpx-containing HIV-1 and HIV-2 in peripheral blood mononuclear cells and monocytes. The block was post-entry but prior to reverse transcription of the viral genomic RNA. The restriction was associated with destabilization of the genomic RNA molecules of the in-coming virus particle. R848 treatment of activated T cells did not protect them from infection but treated monocytes produced high levels of proinflammatory cytokines, including type-I IFN that protected bystander activated T cells from infection. Conclusion The activation of TLR7/8 induces two independent restrictions to HIV-1 replication in monocytes: a cell-intrinsic block that acts post-entry to prevent reverse transcription; and a cell-extrinsic block, in which monocytes produce high levels of proinflammatory cytokines (primarily type-I IFN) that protects bystander monocytes and T lymphocytes. The cell-intrinsic block may result from the induction of a novel restriction factor, which can be termed Lv5 and acts by destabilizing the in-coming viral genomic RNA, either by the induction of a host ribonuclease or by disrupting the viral capsid. TLR agonists are being developed for therapeutic use to diminish the size of the latent provirus reservoir in HIV-1 infected individuals. Such drugs may both induce latent provirus expression and restrict virus replication during treatment. Electronic supplementary material The online version of this article (doi:10.1186/s12977-016-0316-3) contains supplementary material, which is available to authorized users.


Background
Toll-like receptors (TLR) are membrane-associated pattern recognition receptors (PRRs) expressed in myeloid cells that serve as a line of first defense against bacterial and viral pathogens. The TLRs are activated by pathogen-associated molecular patterns (PAMPs) that trigger a signal transduction to activate innate and adaptive immune responses, resulting in the release of proinflammatory cytokines, chemokine and type-I interferons (IFN). The cytokines released induce the expression of an array of antiviral genes that inhibit virus replication through various mechanisms and cause T cells to increase expression of co-stimulatory proteins. PAMPs detected by the 10 TLRs encoded in the human genome include single-stranded RNA (TLR7 and 8), double-stranded RNA (TLR3) and double-stranded DNA (TLR9) [1][2][3].
Because of their ability to induce innate and adaptive responses, TLR agonists have been explored as antiviral therapeutic agents. Agonists for TLR3, TLR4, TLR7, TLR8 and TLR9 have been used in nonhuman primate models for dengue virus and in murine models for herpes simplex virus-type-1 and -2 where they have been found to attenuate viral symptoms and replication [4][5][6]. Several TLR agonists inhibit the replication of HIV-1 in lymphocytes, monocytes and monocyte-derived macrophages (MDM). The imidazoquinoline TLR7/8 agonists R848 (resiquimod) and gardiquimod were found to inhibit HIV-1 replication in MDMs by inducing soluble antiviral factors and in the case of gardiquimod, by acting as a nucleoside reverse transcriptase inhibitor [7,8]. In monocytes isolated from HIV-infected individuals, R848-treatment reduced viral RNA in the culture supernatants [9]. In addition, the TLR9 agonist ODN2395 induces the restriction factors APOBEC3G and SAMHD1 [10]. Clinically, TLR7 and 8 agonists are used to treat inflammatory disorders and viral infections. R848 is used to treat psoriasis and HSV-2 induced genital lesions and the related imidazoquinoline, imiquimod, is used to treat human papilloma virus genital warts [11,12].
In myeloid cells in culture, HIV-1 has been reported to be sensed by PRRs including the TLRs [13]. In plasmacytoid dendritic cells (pDC), HIV-1 virion genomic RNA was found to activate endosomal TLR 7/8 and TLR9 resulting the production of high levels of type-I IFN [14][15][16]. In addition, HIV-1 RNA activates TLR8, leading to inflammasome activation and the release of IL-1β and IL-18 [17,18]. Oligonucleotides with HIV-1 RNA derived sequences stimulate TLR7 and TLR8 in pDCs, monocyte-derived DCs (MDDC), MDMs and monocytes [19,20]. In addition, HIV-1 virions and TLR7/8 agonists both stimulate monocytes to produce IP-10 [21]. The HIV-1 envelope glycoprotein activates cell surface TLR2 and TLR4 [22,23]. While these data are based upon studies of cells in culture, the role of innate sensing in HIV-1 replication and pathogenesis in vivo remains to be determined.
Monocytes, the myeloid cell-type that is most prevalent in the blood, are largely resistant to HIV-1 [24] as a result of SAMHD1, a phosphohydrolase that depletes the intracellular pool of dNTPs, preventing reverse transcription [25][26][27]. HIV-2 and the SIV of rhesus macaques encode Vpx, a virion-packaged accessory protein that induces the proteasomal degradation of SAMHD1 in the nucleus, allowing the viruses to evade the restriction and replicate in monocytes, macrophages and DC [28][29][30][31][32][33][34]. HIV-1 lacks Vpx accounting for the inability of the virus to replicate to high titer on monocytes, macrophages and DC. Vpx is packaged in HIV-2 and SIV virions by an amino acid motif located at amino acids 17-26 in the P6 region of the Gag polyprotein precursor that is absent in HIV-1 [35]. The virus can be engineered to package Vpx by placing the SIV Vpx packaging motif in Gag P6, resulting in a two order of magnitude increase in infectivity of myeloid cells [36].
In this study, we investigated the effect of the TLR7/8 agonist R848 on HIV-1 replication in primary myeloid and lymphoid cells using Vpx-containing HIV-1 and HIV-2. The agonist potently restricted the replication of both viruses in monocytes. The restriction was not mediated by SAMHD1 or other known restriction factors including APOBEC3A. The restriction was post-entry, preventing reverse transcription and was independent of type-I IFN signaling. The restriction was associated with destabilization of the virion genomic RNA of the in-coming virus suggesting a role for a restriction factor with ribonuclease activity or with an ability to interfere with capsid stability. In addition to inducing a novel IFNindependent restriction factor, R848 caused monocytes to release proinflammatory cytokines that protected bystander monocytes and activated CD4+ T cells from HIV-1 infection.

Cell culture
293T and HL116 cells were cultured in Dulbecco's modified Eagle medium (DMEM) supplemented with 10% fetal bovine serum (FBS) and penicillin/streptomycin. PBMC were prepared by Ficoll density gradient centrifugation of blood from anonymous donors provided by the New York Blood Center. The monocytes were purified by plastic adherence and cultured in RPMI containing 10 mM HEPES, 24 µg/ml gentamicin, and 5% heat inactivated pooled human serum (PHS). Monocyte purity was determined by flow cytometry using a PE-conjugated anti-CD14 antibody (BD biosciences). MDDC were prepared by culturing the monocytes for 5 days in medium containing 110 U/mL GM-CSF and 300 U/mL IL-4, replacing the cytokines every 2 days. MDM were prepared by culturing the monocytes for 5 days in medium containing 50 ng/ml GM-CSF. CD4+ T cells were isolated by negative selection of the PBMCs on EasySep human CD4+ T cell magnetic beads (Stem Cell Technologies). The CD4+ T cells were activated for 2 days with CD3/ CD28 beads (LifeTechnologies) using 2 cells per bead and cultured in RPMI containing 5% PHS, 1 mM HEPES, 2 mM l-glutamine, MEM non-essential amino acids, penicillin/streptomycin and 100 U/mL recombinant IL-2. CD4+ T cell purity was evaluated by staining with Alexa 700-anti-CD3 and allophycocyanin-anti-CD4 monoclonal antibodies (BioLegend) and analyzed by flow cytometry. BMDCs were prepared by flushing the marrow cells from C57BL/6 SAMHD1 knock-out mouse femurs. The red blood cells were removed with ammonium chloride lysing buffer and the cells were cultured for 6-8 days in RPMI supplemented with 1 mM sodium pyruvate, 2 mM l-glutamine and 10 ng/ml murine GM-CSF (Peprotech). R848 to stimulate TLR7/8 was obtained from Invivogen and diluted to the indicated final concentration(s) in the respective culture medium.

Plasmids
HIV-2 GFP reporter virus plasmids pHIV2.GFPΔVpr and pHIV2.GFPΔVprΔVpx were constructed by subcloning the BsmB-I to Avr-II fragment of pHIV2.E-.GFP that contains the vpx/vpr genes. Translational stop codons were introduced into vpx at amino acids 22 and 24 without altering the overlapping amino acids encoded by vif. The vpr translational initiation codon was removed by mutation to ATC and amino acids 2, 3 and 4 were changed to translational termination codons by overlapping PCR (TAA TAA TGA). The amplicon was digested with BsmBI and Avr-II and cloned back into pHIV2.E-. GFP. Plasmid sequences were confirmed by nucleotide sequence analysis.

qPCR quantification of HIV-1 reverse transcripts
Monocytes were isolated by plastic adherence from 1.5 × 10 7 PBMC plated in 6-well plates. The cells were treated with 10 μM R848 or 100 U/mL IFNα. After 24 h, the cells were infected with benzonase-treated Vpx-containing HIV-1 luciferase reporter virus (1.5 × 10 7 cps) in the presence or absence of 10 μM nevirapine. At 40 h post-infection, DNA was isolated and 250 ng were analyzed by qRT-PCR using SYBR green (Molecular Probes) with primers that amplified early or late HIV-1 reverse transcripts (early RT: fw 5′-GTG CCC GTC TGT TGT GTG AC and rev 5′-GGC GCC ACT GCT AGA GAT TT; late RT: fw 5′-TGT GTG CCC GTC TGT TGT GT and rev 5′-GAG TCC TGC GTC GAG AGA GC) [40]. The data were normalized to a standard curve generated with proviral plasmid DNA serially diluted in 293T cell genomic DNA.

Reverse transcriptase qRT-PCR mRNA quantification
RNA was isolated from 5.0 × 10 7 monocytes using Trizol and treated with RNase-free DNase I (Roche). cDNA was synthesized using an oligo-dT primer and Transcriptor RT (Roche). cDNA corresponding to 50 ng of RNA was analyzed by qRT-PCR using SYBR green to quantify mRNA transcripts for p21 (fw 5′-GCA GAC CAG CAT GAC AGA TTT and rev 5′-GGA TTA GGG CTT CCT CTT GGA), RRM2 (fw 5′-AAG AAG AAG GCA GAC TGG GC and rev 5′-CCA GGC ATC AGT CCT CGT TT) IL-1β (fw 5′-ATG ATG GCT TAT TAC AGT GGC AA and rev 5′-GTC GGA GAT TCG TAG CTG GA-) and GAPDH (fw 5′-TGG AAG GAC TCA TGA CCA CAG and rev 5′-CAG TCT TCT GGG TGG CAG TGA). Reactions without RT were included to control for genomic DNA contamination. The ΔΔCT relative to GAPDH in the untreated samples was set to 1.

Cell viability assays
Cell viability was determined by trypan blue staining, MTS assay (Promega) and flow cytometry with Pacific Blue fixable viability dye eflour450 (eBiosciences) staining.

Cytokine quantification
Monocytes were treated for 2 h with 1 μM R848 after which the drug was removed by extensive washing. After 22 h, the supernatant was harvested and type-I IFN was quantified on HL116 IFN reporter cells [41] and the proinflammatory cytokines were quantified by cytometric bead array (BD Biosciences).

R848 induces a block to HIV-1 infection of monocytes
The TLR7/8 agonist R848 has been found to induce a block to HIV-1 replication in monocytes and MDMs [7,8,10]. To further investigate the mechanism by which the drug interferes with HIV-1 replication we used a VSV-G-pseudotyped reporter virus engineered to package the SIVmac accessory protein Vpx [36]. Vpx degrades SAMHD1, overcoming the block to HIV-1 infection of resting T cells and primary monocytes [33,34,42,43] allowing us to test how well the drug blocks infection and to investigate its antiviral mechanism. To determine which cell-types are protected by the agonist, we treated PBMCs from healthy donors for 24 h with R848 and then infected them with Vpx-containing, HIV-1 luciferase reporter virus. For comparison, we treated the PBMCs with type-I IFN, an inducer of multiple antiviral pathways. To ensure that the activity measured was due to bona fide infection, control PBMCs were treated with the reverse transcriptase inhibitor nevirapine. Infectivity was measured by intracellular luciferase assay 72 h post-infection. The results showed that R848 potently blocked infection of the PBMCs, with 10 μM drug reducing infectivity 20to 175-fold in 18 different donors ( Fig. 1a and Additional file 1). This effect was at least as strong as a high dose of IFNα. The infectability of PBMCs was highly dependent upon Vpx in the virions which increased the infection by 200-fold.
PBMCs are a mixture of resting lymphocytes and myeloid cell-types. Because Vpx facilitates the infection of monocytes and resting lymphocytes, it was unclear which cell-types in the PBMC population had become infected. To determine the cell-types that had been infected by Vpx-containing virus, we infected PBMCs with VSV-G pseudotyped, Vpx-containing HIV-1 GFP reporter virus and after 3 days, analyzed the cells by flow cytometry to determine the numbers of infected CD4+ T cells (CD4+/CD3+/CD14−) and monocytes (CD4−/ CD3−/CD14+). The results showed that the infection was Vpx-dependent and that it was the monocytes (CD14+) that had been infected (Fig. 1b). Despite the packaged Vpx, the resting CD4+ T cells were not appreciably infected. We concluded that Vpx allowed for efficient infection of the monocytes and that R848 blocked their infection.
To confirm that it was the monocytes that had been protected by R848 and to test whether this was a direct effect or whether it was mediated by another cell-type in the culture such as pDCs that had released a soluble inhibitor, we tested the effect of R848 on monocytes purified from the PBMCs of three healthy donors. The results showed that the drug protected the monocytes from infection (Fig. 1c). Further analysis of monocytes purified from 15 donor PBMCs showed that the drug was active on monocytes from all of the donors, reducing the number of infected cells 15-to 100-fold (Fig. 1d). The effect of the drug was not the result of toxicity as an analysis using three cell viability assays showed no effect on cells treated with R848 at concentrations that induced the block to infection (Additional file 2).
The experiments above used virions engineered to package Vpx. To determine whether R848 would block the infection of monocytes by a virus for which these cells are a natural target and that naturally encodes Vpx, we tested its effect on infection by HIV-2. We infected monocytes with wild-type or Vpx-mutated HIV-2 GFP reporter virus. For comparison, the monocytes were infected with Vpx-containing or lacking HIV-1 GFP reporter virus and after 3 days analyzed infectivity by flow cytometry. The results showed that infection of the monocytes by HIV-2 was dependent upon Vpx and that the infection was blocked by R848 (Fig. 1e, g). The effect on HIV-2 was somewhat more pronounced than on HIV-1 (Fig. 1f, h), perhaps because of the decreased infectivity of this virus. For both viruses, the drug decreased the number of GFP+ cells and not the mean fluorescence intensity, indicating that the drug prevented infection rather than decreased LTR-driven transcription of the GFP reporter. The findings demonstrate that R848 induces a block to HIV-2 in monocytes, a cell-type that is a natural target of the virus.

The R848-induced restriction is SAMHD1-independent
SAMHD1 is expressed in monocytes where it acts as the major block to infection, as is clear from the ability of Vpx-containing viruses to efficiently infect these cells. The fact that R848 blocked the infection of monocytes with Vpx-containing virus suggests that SAMHD1 was not the mechanism by which R848 protected these cells from infection. However, this finding does not definitively rule-out a role for SAMHD1-mediated restriction, as R848 could prevent SAMHD1 degradation by Vpx or activate its phosphohydrolase activity. To test whether the R848-induced block to infection was mediated by SAMHD1, we treated monocytes with the drug for 24 h and then infected them with Vpx-containing HIV-1 or control supernatant. The next day we quantified SAMHD1 protein by immunoblot analysis. R848 did not affect the amount of SAMHD1 nor did it interfere with the ability of Vpx to induce SAMHD1 degradation (Fig. 2a). To determine whether R848 inhibition was dependent on SAMHD1, we tested whether the drug blocked the infection of SAMHD1 knock-out mouse bone marrow derived DCs (BMDC). R848 treatment caused a 100-fold block to infection of the knockout BMDCs by HIV-1 reporter virus, an effect that was similar to that in human monocytes (Fig. 2b). The drug had no effect on the viability of the BMDCs (Additional file 2).

R848 acts rapidly and is active against HIV-1 bearing a primary CCR5-using HIV-1 envelope glycoprotein
To characterize the antiviral activity of R848, we tested whether the effect could be saturated by increasing the MOI, as is the case for some of the other restriction factors by treating monocytes with 1 or 10 μM R848 and infecting with increasing MOI. The results showed that the degree of inhibition remained constant regardless of the MOI (Fig. 3a). Similar results were obtained with an analysis of two additional donors (Additional file 3). A dose-response curve for the drug on monocytes from three donors showed an average IC 50 of 0.05 μM (Fig. 3b). The drug was most active when added 24 h prior to infection, causing a 100-fold reduction of HIV-1 reporter virus infection. When added at the same time as the virus, the block was still active, causing a 6.5-and 33-fold inhibition of infection in the two donors tested (Fig. 3c). To show that the restriction is not limited to VSV-G pseudotyped virus, we tested whether R848 would inhibit infection by reporter virus pseudotyped with a transmitted-founder envelope glycoprotein [38].
The results showed that virus pseudotyped by an HIV-1 envelope glycoprotein was senstive to the drug, resulting in a 2.5-to 8.5-fold reduction in the number of infected monocytes (Fig. 3d). While the reduction in infectivity was not as pronounced as that of the VSV-G pseudotype, this most likely results from the reduced infectivity of the reporter virus bearing HIV-1 envelope glycoprotein. The effect of which is a reduced dynamic range of the analysis, and does not reflect an ability of the virus to evade the R848-induced restriction. Taken together, R848 is a potent inhibitor of monocyte infection by HIV-1 that acts regardless of the route of entry and is not saturated by a high dose of virus.

The block to infection is post-entry at reverse transcription
To determine the step at which R848 blocks HIV-1 infection, we tested whether the drug prevents envelope glycoprotein-mediated fusion using the Vpr.βlaM fusion assay [44]. The results showed that R848 did not affect VSV-G-mediated fusion on monocytes (Fig. 4a). To test the effect of the drug on reverse transcription, we treated monocytes with R848, IFNα or nevirapine and then infected them with Vpx-containing HIV-1. After 40 h, we quantified the early and late HIV-1 reverse transcripts by qRT-PCR. The results showed that R848 decreased the copy number of early reverse transcripts 2-to 100fold (Fig. 4b) and the number of late reverse transcripts 10-to 200-fold (Fig. 4c). IFNα had no effect on the number of viral DNA copies, consistent with its post-reverse transcription effect. The nevirapine control confirmed that the DNA copies were the result of reverse transcription. We concluded that R848 induces a block to reverse We also considered the possibility that the antiviral activity was mediated by APOBEC3A, an antiviral host factor that has been proposed to restrict HIV-1 replication in monocytes [45,46]. Immunoblot analysis showed that R848 did not induce the expression of APOBEC3A in monocytes (Additional file 4). We further considered the possibility that R848 acts on p21, which is thought to regulate the intracellular dNTP concentration by decreasing the expression of ribonucleotide reductase [47] or by regulating SAMHD1 activity [48]. However, qRT-PCR analysis showed R848 did not affect the abundance of p21 mRNA transcripts in monocytes and that it increased rather than decreased the number of RNR mRNA transcripts (Fig. 4d). Taken together, the findings demonstrate that the SAMHD1-independent block is post-entry at reverse transcription and is not mediated by APOBEC3A or p21 expression.

R848 destabilizes HIV-1 virion genomic RNA
The effect on viral DNA copy number could result from a block to reverse transcriptase or from degradation of the viral genomic RNA template. To test for an effect of R848 on viral genomic RNA stability, we treated monocytes with the drug and then infected monocytes with HIV-1 To synchronize the infection, the cells were spinnoculated and to prevent degradation of the viral genomic RNA by reverse transcriptase RNaseH, nevirapine was added. At time points shortly after infection, the cultures were harvested and the viral RNA copy number was quantified by RT qRT-PCR. The results showed that over the course of the experiment R848 caused a decrease in the number of viral genomic RNA copies (Fig. 5a). RT qRT PCR analysis using primers specific for the 5′ or 3′ ends of the viral RNA showed that both ends of the RNA were lost with similar kinetics (Fig. 5b, c). The results suggest that the block to reverse transcription is associated with degradation of the viral RNA and that the degradation occurs at both ends of the molecules.

R848 is specific for monocytes and MDM
To determine the cell-type specificity of R848, we tested it on activated CD4+ T cells, MDDC and MDM and compared its effect to that of IFNα. R848 did not significantly protect activated CD4+ T cells or MDDCs from infection (Fig. 6a, b) but decreased the infection of MDMs 3 to sixfold (Fig. 6c). The effect on MDM was significant but less pronounced than the effect on monocytes (compare to Fig. 1). These results demonstrate that R848-induced blocked to HIV-1 infection is most pronounced in monocytes.

The block to a single-round infection is independent of type-I IFN or IL-1β
R848 could act directly on the target cells or could induce the production of soluble factors that provoke cellular innate immune defenses by both autocrine and paracrine mechanisms. To determine which proinflammatory cytokines are induced by R848, we treated monocytes for 24 h with increasing concentrations of the drug and then measured type-I IFN, IL-1β, IL-6, IL-8, IL-10, IL-12 and TNFα in the culture medium. The results showed that R848 strongly induced type-I IFN as measured in a biological assay (Fig. 7a). In addition, R848 induced the release of the other cytokines tested starting with as little at 0.3-1 μM R848, a concentration similar to that which induced the block to monocyte infection (Fig. 7b). Similar results were obtained for 2 additional donors (Additional file 5). TNFα, IL-1β, IL-6 and IL-8 were induced by more than a 100-fold. Among the cytokines induced, type-I IFN and IL-1β are known inhibitors of HIV-1 replication. To determine whether type-I IFN played a role in the inhibition, we incubated monocytes with a cocktail of antibodies to IFNα, IFNβ and the type-I IFN receptor and then treated the cells with R848. The following day, we infected the cells with Vpx-containing HIV-1 luciferase reporter virus. To test the effectiveness of the antibody cocktail, IFNα was added to control cultures without R848. The results showed that R848 maintained its ability to inhibit infection in the presence of the antibody cocktail (Fig. 7c). The ability of the antibody cocktail to neutralize the antiviral effect of IFNα was confirmed in the control cultures. To test for a role for IL-1β in the R848-induced protection, we incubated PBMC with increasing concentrations of IL-1β for 24 h and then infected the cells with Vpx-containing or lacking HIV-1 luciferase reporter virus. IL-1β did not block the infection of PBMC (Fig. 7d and Additional file 6). Thus,

R848 treatment of monocytes protects bystander cells
While IL-1β and IFNα are not involved in the block to single-cycle infection, it is possible that cytokines released in response to R848 protect bystander monocytes as well as T cells which themselves do not respond to R848. To test for bystander protection, we prepared conditioned medium from R848-treated monocytes, transferred it to fresh monocyte cultures and then infected the cells with Vpx-containing HIV-1 luciferase reporter virus. The results showed that the conditioned medium from R848treated monocytes protected the monocytes from becoming infected (Fig. 8a). Similar results were obtained in a transwell experiment in which monocytes were seeded in the bottom compartment and treated with R848 for 2 h. The drug was washed out, unstimulated, autologous  (Fig. 8b,  c). To determine whether the supernatants would protect activated T cells, we incubated CD3/CD28-activated CD4+ T cells with conditioned medium from drugtreated or untreated monocytes and infected them with HIV-1 GFP reporter virus. The results showed that supernatant from the R848-treated monocytes blocked infection of the activated CD4+ T cells (Fig. 8d). Supernatant produced by R848-treated activated CD4+ T cells did not protect monocytes from infection, demonstrating that the results with drug-treated monocytes were not caused by carry-over of residual R848 in the cultures (Fig. 8e). To determine whether the major inhibitory factor released by the monocytes was type-I IFN, we tested whether the addition of the IFN blocking antibody cocktail to the supernatant derived from R848-treated monocytes would neutralize its inhibitory effect. The results showed that the antibody cocktail neutralized its antiviral activity (Fig. 8f ). We concluded that treatment of monocytes with R848 results in dual mechanism of HIV-1 restriction: the cell-intrinsic destabilization of the viral RNA, and a cellextrinsic inhibition in which bystander monocytes and T

Discussion
We show that the TLR7/8 agonist R848 potently blocks HIV-1 replication by acting through two different mechanisms. It induces a post-entry block in monocytes that prevents reverse transcription and it causes monocytes to secrete type-I IFN that protects bystander T cells. The post-entry block results in a major reduction in the number of viral DNA reverse transcripts and destabilization of the viral genomic RNA. The restriction was independent of SAMHD1, a restriction factor in myeloid cells that also prevents reverse transcription. The R848-induced block to infection was active in mouse myeloid cells, which were also protected from infection. Because the mouse genome encodes a nonfunctional TLR8, this finding suggests that TLR7 activation is sufficient to induce the block to HIV-1 replication [19,49,50]. The effect was largely specific to monocytes as the drug had no effect on HIV-1 replication in activated T cells and a more minor effect on replication in MDM. R848 induced monocytes to secrete high levels of proinflammatory cytokines, including type-I IFN which protected bystander activated T cells from infection. Thus, the drug inhibits HIV-1 replication by two pathways, one in which a restriction is induced in the target monocytes and another in which cytokines are produced that protect bystander monocytes and T cells. R848 treatment of monocytes was associated with a significant increase in the post-entry half-life of the viral genomic RNA, consistent with a direct inhibition of reverse transcription or a prior block to uncoating. The decreased stability of the viral genomic RNA could result from the induction of a host ribonuclease that attacks the reverse transcription complex, or, alternatively, from aberrant virion uncoating that subjects the viral genomic RNA molecules to attack by host ribonucleases. The effect was not the result of HIV-1 reverse transcriptase RNaseH, as the addition of nevirapine had no effect on viral genomic RNA half-life. In this analysis, we could not rule-out that a portion of the viral RNA measured was from virions that were either bound to the target cell plasma membrane or in endosomes; however, it remains the case that R848 treatment results in decreased stability of the viral RNA suggesting that much of the RNA measured originated from virus that had entered the cell.
Although SAMHD1 is known to inhibit HIV-1 reverse transcription in monocytes, our findings argue against a role for it in the R848-induced block to virus replication. The block to infection was strongly induced in mouse SAMHD1 knock-out BMDCs which are otherwise highly susceptible to HIV-1. In addition, the R848induced block to infection of monocytes was not relieved by Vpx, which causes the rapid degradation of SAMHD1. R848 did not increase the expression level of SAMHD1 and did not interfere with the ability of Vpx to degrade SAMHD1. Furthermore, the block to infection is not consistent with any of the known monocyte-expressed restriction factors. MX2 acts post-reverse transcription, at nuclear import [51]; IFITMs act at entry [52]; SER-INC3, SERINC5 [53,54], REAF [55] and Lv2 [56] do not act on VSV-G pseudotyped virus. Moreover, virus produced in 293T cells is not significantly affected by SER-INC3 and SERINC5 which are poorly expressed in 293T cells. Other known resrtriction factors are also unlikely to play a role in the restriction induced by R848. GBP5 and tetherin act post-integration [57,58]. While Rhesus macaque TRIM5α destabilizes the HIV-1 capsid, human TRIM5α has little activity against the virus [59,60]. In addition, while TRIM5α restriction is saturable, the R848 effect was not.
Both, TLR7/8 and the cytoplasmic sensors MAVS and RIG-I play roles in sensing the RNA of several viruses [17,18,[61][62][63]. While several reports suggest that TLR7/8 sense HIV-1 genomic RNA [19,20], our findings argue against such a role in monocytes. TLR7/8 activation by R848 induces a strong block to reverse transcription in monocytes. If HIV-1 virions were to similarly activate these TLRs, the infection would be terminated, as is the case when the cells are treated with R848. This, however, was not the case: Vpx-containing viruses infected the monocytes to high levels. R848 prevented HIV-1 infection when added prior to, or at the same time as the virus, demonstrating that the block to infection is activated rapidly upon TLR7/8 activation and is capable of terminating the infection. The ability of HIV-1 to avoid activating the TLRs suggest that the virus has evolved a strategy to shield its RNA from sensing, as is the case for HIV-1 DNA reverse transcripts which are shielded from the cytoplasmic double stranded DNA sensor cGAS by the viral capsid [64,65].
A previous study by Wang et al. [8] showed that LPS, R848 and double-stranded RNA induced a postentry block to HIV reverse transcription in MDMs but not activated T cells. Here, we measured single-cycle reporter gene expression rather than released p24 and used undifferentiated monocytes rather than MDMs. In addition, they found that LPS treatment of MDMs induced the secretion of an antiviral factor that was not IFNβ. In our experiments, the primary soluble inhibitory factor induced by R848-treated monocytes was type-I IFN. These differences may be due to the use of Vpxcontaining virus that efficiently infects myeloid cells to induce high levels of cytokine production. Alternatively, monocytes may respond more strongly to TLR activation than MDMs.
Buitendijk et al. [7] demonstrated that TLR7 and TLR8 activation inhibit HIV-1 replication. Treatment of MDMs with the TLR7 agonist gardiquimod induced a block to infection of co-cultured, activated PBMC and treatment of activated PBMC with agonists specific for TLRs 3, 7, 8 and 9 blocked HIV-1 replication [10]. In both cases, the block was to infection of stimulated PBMCs where the major target cells targeted for HIV-1 infection are activated T cells. We and Wang et al. [8] find that TLR7/8 agonist treatment of activated T cells has no effect on HIV-1. Thus, the R848-induced restriction in stimulated PBMC is mediated by a soluble factor such as type-I IFN released by MDMs, monocytes or pDC, while the post-entry block in a single-cycle infection is due to an intrinsic restriction and not a soluble factor.
TLR agonists are under development for clinical use in attacking the latent HIV-1 reservoir [66]. Such agonists stimulate transcription of latent proviruses in resting T cells without activating the cell [67][68][69][70][71]. Such agonists would have the added advantages that they induce a potent block to the replication of HIV-1 in myeloid cells and induce the production of type-I IFN that protects CD4 T cells from infection. In addition, the induced production of cytokines such as TNFα by monocytes would activate proviruses in latently infected cells. While the treatment of patients with TLR agonists may be accompanied by inflammatory responses including lymphopenia, elevated cytokines and splenomegaly as is the case in mice treated with R848, agonists under development may be less inflammatory.

Conclusion
We show here that R848 induces two independent block to HIV-1 replication. The first, is a cell-intrinsic block that acts in monocytes to prevent reverse transcription, most likely by inducing a novel restriction factor. The restriction was associated with the post-entry destabilization of the HIV-1 genomic RNA, possibly caused by the induction of a ribonuclease or by a factor that interferes with capsid uncoating. The second, is a cell-extrinsic block caused by the R848-induced release of proinflammatory cytokines, primarily type-I IFN, by monocytes that protects both bystander monocytes and CD4+ T cells. The fact that the restriction was not induced by HIV-1 infection itself argues that the viral RNA is shielded upon uncoating, preventing sensing in monocytes by TLR7/8. These findings highlight the existence of yet unidentified host restriction factors and suggest that the activity identified here may constitute "Lv5".