HIV-1 pathogenicity and virion production are dependent on the metabolic phenotype of activated CD4+ T cells
© Hegedus et al.; licensee BioMed Central Ltd. 2014
Received: 5 August 2014
Accepted: 24 October 2014
Published: 25 November 2014
HIV-1, like all viruses, is entirely dependent on the host cell for providing the metabolic resources for completion of the viral replication cycle and the production of virions. It is well established that HIV-1 replicates efficiently in activated CD4+ T cells, whereas resting CD4+ T cells are refractory to infection with HIV-1. A hallmark of T cell activation is the upregulation of glycolysis to meet the biosynthetic and bioenergetic needs of cell proliferation and the execution of effector functions by the secretion of cytokines. To date, it has remained unknown if HIV-1 requires the high glycolytic activity of activated T cells to support its replication.
We report that in primary CD4+ T cells, the flux through the glycolytic pathway is increased upon infection with HIV-1. This increase in glycolytic activity does not occur in T cell lines when infected with HIV-1. By providing cells with galactose instead of glucose, the former being a poor substrate for glycolysis, we monitored the effect of preventing glycolysis in CD4+ T cells on virus replication cycle and cell fate. We observed that HIV-1 infected primary CD4+ T cells cultured in galactose have a survival advantage over those cultured in glucose and this coincides with reduced caspase 3 activation and apoptosis in cultures with galactose. T cell lines do not recapitulate this difference in cell death. Finally, we demonstrate that virion production is dependent on glycolysis as cultures containing galactose yield reduced amounts of HIV-1 virions compared with cultures containing glucose.
The replication of HIV-1 in primary CD4+ T cells causes an increase in glycolytic flux of the cell. Glycolysis is particularly required for virion production and additionally increases the sensitivity of the infected cell to virus-induced cell death.
As obligate intracellular parasites, viruses are dependent on the host for provision of the biosynthetic and bioenergetic resources required for the completion of the viral life cycle. The study of viral exploitation and manipulation of cellular metabolism is an emerging field that has yielded novel insights into viral replication strategies and their therapeutic intervention in recent years ,. Numerous viruses have now been shown to cause significant alterations in the metabolism of the host cell, including hepatitis C, influenza, herpes simplex and human cytomegalovirus -.
The best-studied case of changes to the cellular metabolism in response to viral infection is that of human cytomegalovirus (HCMV). Cells that are infected with HCMV show a greater uptake of glucose , elevated glycolytic activity , efflux of citrate from the tricarboxylic acid cycle (TCA cycle) , enhanced glutaminolysis  and increased fatty acid and pyrimidine synthesis ,,. Together, these studies have elucidated that the production of the enveloped virus HCMV requires additional fatty acid and nucleotide synthesis for the supply of membrane and viral genomes to progeny virions, respectively . These biosynthetic processes are supported by the upregulation of glycolysis and the TCA cycle. Importantly, the increased demand for fatty acid synthesis in infected cells is met by cataplerosis of citrate from the TCA cycle, which is replenished by anaplerosis of glutamine. It has been noted that these changes are similar to the metabolic reprogramming observed upon oncogenesis , suggesting that the biosynthetic needs of virus replication are similar to those of proliferating cells.
The human immunodeficiency virus type 1 (HIV-1) replicates most efficiently in activated CD4+ T cells and it is the depletion of this compartment that heralds the onset of AIDS. In contrast, quiescent or resting T cells are refractory to infection by HIV-1 and this is in part due to a block to reverse transcription as a result of the low levels of nucleotides that are present in resting T cells -. The activation of T cells upon antigen presentation is associated with a dramatic change in the metabolic activity of the cell that is similar to oncogenic transformation. T cell activation is initiated by a burst of increased oxidative phosphorylation, which is followed by a substantial upregulation of glycolysis as well as glutaminolysis ,. Because the upregulation of glycolysis exceeds oxidative phosphorylation in activated T cells, secretion of lactic acid is increased. The upregulation of glycolysis was long thought to support the proliferation and execution of effector functions of the activated T cells. However, recent work by the Pearce group has shown that activation and proliferation of T cells can be supported by oxidative phosphorylation alone, but that the synthesis of cytokines requires glycolytic metabolism .
There is mounting evidence that HIV-1 replication is sensitive to, and modulates the activity of, host metabolism. For instance, the recent discovery of the restriction factor SAMHD1 has led to the insight that it hydrolyses deoxynucleotide triphosphates (dNTPs) to levels that are insufficient to support reverse transcription in monocytes, macrophages, dendritic and quiescent CD4+ T cells -. In addition, a recent metabolic profiling analysis has revealed increased levels of glycolytic intermediates in HIV-1 infected activated CD4+ T cells as well as an increase in glucose uptake . However, dependency of HIV-1 replication on the metabolic activity of activated CD4+ T cells has not previously been demonstrated. We report here that infection with HIV-1 further increases the glycolytic activity of activated primary CD4+ T cells and that preventing glycolysis in infected cells is associated with increased cell survival. Finally, we show that virion production is dependent on the availability of glucose to T cells.
Infection with HIV-1 increases the rate of glycolysis of primary CD4+ T cells but not T cell lines
We observed that the addition of glucose to primary CD4+ T cells infected with HIV-1 NL4.3 consistently resulted in a higher stimulation of ECAR over the baseline than their uninfected counterparts (Figure 1A). While uninfected cells showed an average fourfold induction of the ECAR after addition of glucose, in HIV-1 NL4.3 infected cells the ECAR always exceeded this with an average of a sixfold induction. Indeed, the ECAR of HIV-1 NL4.3 infected cells in the presence of glucose was therefore of a similar magnitude as the maximal ECAR of uninfected cells in the presence of oligomycin. HIV-1 infected primary CD4+ T cells showed little if any increase of the ECAR after the addition of oligomycin (Figure 1A), indicating that the infected cells are operating at or near their maximum glycolytic capacity. In addition, the suppression of the OCR after addition of glucose was more substantial in infected than in uninfected cells, with the OCR dropping to an average of 60% of the baseline instead of 80%, respectively (Figure 1B). Similar results were obtained when cells were infected with the HIV-1 isolate YU2 (Additional file 2). Together, these results demonstrate that primary CD4+ T cells have an increased rate of glycolysis upon infection with HIV-1. This is consistent with a previous study that reported elevated levels of glycolytic intermediates in the cytoplasm of HIV-1 infected cells as well as a moderate increase in glucose uptake compared with uninfected cells . In order to investigate if this may be related to changes in active glucose transport, we assessed the levels of GLUT1 expression in HIV-1 infected and uninfected cells by flow cytometry (Additional file 3). GLUT1 is the main glucose transporter in activated T cells; its expression on the cell surface is upregulated upon T cell activation - (Additional file 3D) and its silencing by RNAi inhibits HIV-1 replication . In these as well as subsequent experiments, we distinguished three populations of cells: uninfected cells that received an inoculum of Δ Env virions or control supernatant; bystander cells that are the p24Gag/GFP/DSredX-negative population of cultures that received wild type or reporter NL4.3 virus; and p24Gag/GFP/DSredX-positive cells that are productively infected with HIV-1 NL4.3. We observed no difference in the intracellular expression levels of GLUT1 in HIV-1 NL4.3 infected and uninfected primary CD4+ T cells. When we assessed the surface-expressed levels of GLUT1 in uninfected cells and cells infected with HIV-1 NL4.3-DSredX we noted no large difference between uninfected, bystander and infected cells. However, a small shift in the median fluorescence intensity of the GLUT1-positive cells in the NL4.3-DSredX infected population compared with uninfected and bystander cells was consistently observed. This suggests that there may be a slight increase in the levels of surface-expressed GLUT1 in HIV-1 infected cells (Additional file 3C).
We performed the same extracellular flux experiments with Jurkat and CEM-ss cell lines (Figure 1A and B, and Additional file 2). Unexpectedly, these experiments revealed that neither cell lines are subject to an increased glycolytic rate upon infection with HIV-1. In fact, Jurkat cells infected with HIV-1 NL4.3 showed a lower ECAR than their uninfected counterparts at all conditions tested (Figure 1A). Both Jurkat and CEM-ss cell lines are derived from leukemic T cells , and it has long been appreciated that cancer causes considerable metabolic changes to cells . Evidently, this extends to the metabolic response to the infection of these cells by HIV-1.
Manipulating the metabolism of activated T cells by the provision of glucose or galactose
We also monitored the proliferation of HIV-1 NL4.3 infected cells and observed that proliferation of infected primary CD4+ T cells cultured with glucose or galactose was retarded compared with uninfected cells cultured with glucose. The effect of culturing infected primary CD4+ T cells in galactose on proliferation was variable, with two donors presenting delayed proliferation compared with infected cells provided with glucose whereas the cells from donor 1 did not (Figure 3B and Additional file 5). A difference in proliferation between infected cells in media containing galactose or glucose was completely absent with CEM-ss cells (Figure 3B).
HIV-1 infected primary CD4+ T cells have a survival advantage when cultured in galactose compared with glucose
As we had previously observed that the nature of the carbohydrate does impact on the proliferation rate of primary cells, we considered that the differential proportion of HIV-1 infected cells could be affected by outgrowth of uninfected cells. This could particularly affect cultures containing glucose as this carbohydrate supports faster proliferation. Thus, we sought to determine if the differences between cultures containing galactose or glucose might be caused by an outgrowth of uninfected cells in cultures containing glucose, thereby reducing the relative proportion of infected cells. We therefore determined the actual number of cells in each sample using CountBright beads (Additional file 7). When this adjustment was applied, counts of HIV-1 infected primary CD4+ T cells remained higher in cultures containing galactose than in cultures containing glucose.
We performed the same experiment with the YU2 isolate and again observed that cultures containing galactose had a higher proportion of infected cells compared with cultures containing glucose (Additional file 8). We note that, compared with NL4.3, the magnitude of this effect was lower in cells infected with YU2. The difference in the corrected amount of p24Gag positive cells in cultures containing galactose or glucose was readily discernable in the presence of RTI for primary CD4+ T cells infected with YU2. As with NL4.3, Jurkat and CEM-ss cells infected with YU2 showed no difference in the amount of p24Gag positive cells in response to the carbohydrate provided.
Caspase 3 activation is increased in primary CD4+ T cells cultured in glucose compared with galactose
To investigate the nature of the survival advantage that HIV-1 infected cells experience in media containing galactose, we measured the expression of several cellular proteins that are known to impact on cell survival or apoptosis. In particular, we assessed the intracellular expression of the pro-apoptotic activated caspase 3, the regulator of cell survival pathways phosphorylated AKT1 (p-AKT1) and the anti-apoptotic Bcl2 by flow cytometry. These cellular factors have all previously been implicated in controlling cell death in HIV-1 infections -.
The protein kinase AKT1 acts as a master regulator of cell fate by controlling processes such as metabolism, proliferation and apoptosis, and its kinase activity is activated by phosphorylation ,. We observed that p-AKT1 is more abundant in HIV-1 infected CEM-ss and primary CD4+ T cells, regardless of the carbohydrate provided in the cultures. A slight increase of p-AKT1 in NL4.3 infected cells cultured in galactose compared with glucose was consistently observed in primary CD4+ T cells but not in CEM-ss cells (Figure 5C). No differences in the levels of p-AKT1 in response to the carbohydrate provided was observed when primary CD4+ T cells were infected with the HIV-1 YU2 isolate (Additional file 9). Thus, although we cannot rule out that activation of AKT1 by phosphorylation may contribute to the survival advantage that HIV-1 infected primary CD4+ T cells experience in cultures containing galactose, our current data do not support a major role for AKT1 in regulating cell survival in this context. Likewise, investigation of the intracellular expression of Bcl2 by flow cytometry did not show a dependency on the carbohydrate substrate (not shown). We did observe that Bcl2 expression was increased in HIV-1 infected cells as is consistent with a recent report .
It has recently been demonstrated that the translation of the cytokines IL-2 and IFNγ is dependent on glycolytic metabolism in murine CD4+ T cells . IL-2 in particular is known to affect T cell proliferation and its translational regulation may therefore impact on the survival and expansion of the different cell populations in our experiments. In addition, the provision of galactose or glucose in the culture media may skew the proportion of effector T cell subsets in our experiments through glycolysis-driven control mechanisms. We therefore determined the intracellular expression levels of IL-2, IL-4, IFNγ and TNFα in the infected and uninfected CD4+ T cell populations. These analyses indicated that there was no effect of the choice of carbohydrate on the production of these cytokines or the composition of Th1 and Th2 compartments during the course of our experiments (Additional file 11). It is important to note that in our experiments primary CD4+ T cells were activated and expanded in standard RPMI containing glucose for up to five days prior to infection with HIV-1 and subsequent provision of either glucose or galactose. Therefore, the initial burst of cytokine production after activation would not have been subject to the effects mediated by the provision of glucose or galactose in the culture media . We conclude therefore that, once activated, the differential survival of HIV-1 infected primary CD4+ T cells in cultures containing glucose or galactose is not due to expression and autocrine action of IL-2, IL-4, IFNγ or TNFα.
Because cells grown in galactose are mostly dependent on oxidative phosphorylation for their metabolic needs, we considered that this might impact on their sensitivity to oxidative stress. The generation of reactive oxygen species (ROS) in HIV-1 infected cells has been reported to affect viral gene expression as well as HIV-induced cell death -. In addition, it has been shown that glucose protects epithelial cells and lymphocytes from oxidative damage through the generation of ROS-scavenging species such as lactate and pyruvate as well as by the maintenance of reducing equivalents -. In order to assess if oxidative damage may impact on the differential survival of CD4+ T cells in media containing glucose or galactose, we subjected the cells to oxidative damage by the nitric oxide (NO) donor molecule PAPANONOate and monitored cell death by staining with propidium iodide (Figure 5D). Cells that were grown in glucose consistently showed resistance to NO-induced cell death compared with cells grown in galactose, and this was true of primary CD4+ T cells, CEM-ss (Figure 5D) and Jurkat cells (not shown). As glucose therefore confers resistance to oxidative stress, we conclude that the increased survival of HIV-1 infected cells grown in galactose is not attributable to mechanisms involving differences in oxidative damage.
Glucose supports virion production during the HIV-life cycle
We next set out to determine what stages of HIV-1 replication are affected by the nature of carbohydrate provided to target cells. To investigate the early stages of HIV-1 replication, we seeded cells in media containing either glucose or galactose and subsequently added equal amounts of virus. After 24 hours, cells were harvested and assessed for intracellular HIV-1 p24Gag levels. At 24 hours only a single round of HIV-1 infection would have been completed and the amount of p24Gag expressed in cells would therefore be the result of successful entry, integration and viral gene-expression. We observed a small but reproducible reduction of cells that stained positive for p24Gag in cultures containing galactose compared with glucose (Additional file 12). This indicates that early steps of virus replication from entry to gene-expression are moderately affected by the ability of the target cell to perform glycolysis at the time of infection.
We report an investigation into the dependency of HIV-1 infections on the highly glycolytic metabolism of its main target cells, the activated CD4+ T cells. The elevated state of glycolysis that persists in activated T cells is required to support their effector functions, which place high biosynthetic demands on the cells to produce cytokines. Although it was previously thought that the proliferation of activated T cells is driven mainly by glycolysis, recent work has demonstrated that cell proliferation can be fuelled by oxidative phosphorylation alone, whereas cytokine production is inhibited in the absence of glucose . We therefore asked whether the anabolic metabolism provided by activated T cells undergoing glycolysis might be exploited by HIV-1 to support virus replication. Indeed, we observed that both the fate of the HIV-1 infected cell and HIV-1 virion production are dependent on glycolysis.
It had previously been demonstrated that HIV-1 infected CD4+ T cells contain higher levels of glycolytic intermediates . However, increased levels of metabolites may indicate either a higher rate of production or a lower rate of depletion, and are therefore not indicative of the activity of the pathway in question. Although Hollenbaugh et al. demonstrated an increase in glucose uptake in HIV-1 infected cells, intracellular levels of lactic acid were similar to those of uninfected cells. In addition, increased uptake of 2-deoxyglucose in HIV-1 infected H9 cells in culture has previously been reported . Our study complements those observations by demonstrating that there is indeed increased flux through the glycolytic pathway in primary CD4+ T cells upon infection with HIV-1. Extracellular flux measurements in the presence of oligomycin suggested that HIV-1 infected cells could be operating at their maximal glycolytic capacity. We did note a small shift in the median fluorescence intensity of the surface-expressed glucose transporter GLUT1 on HIV-1 infected cells, which may suggest a small increase in the abundance of the transporter in comparison with uninfected cells. However, this would only account for an increase in glycolytic activity if glucose transport were rate limiting to glycolysis in HIV-1 infected primary CD4+ T cells. This remains to be established. In this context, we note that increased expression of GLUT1 in CD4+ T cells from HIV-1 infected individuals has recently been suggested as a marker of T cell activation as well as being prognostic of disease progression .
Western blotting of several glycolytic enzymes suggested that increased glycolytic flux proceeds without altering the expression levels of these proteins in HIV-1 infected primary CD4+ T cells. The HIV-1 mediated increase of glycolysis may also be achieved by several possible mechanisms including assembly of higher order complexes, post-translational modification or allosteric regulation of glycolytic enzymes. For example, it was recently reported that the binding of the hepatitis C virus protein NS5A increased the enzymatic activity of HK2, leading to a general increase in glucose consumption and lactic acid production . On the other hand, infection of Vero cells with mayaro virus was shown to increase the activity of phosphofructokinase (PFK) . Cells infected with herpes simplex virus were recently shown to have increased glucose uptake and lactate efflux that correlated with upregulation and phosphorylation of PFK . In cancers, glycolytic flux is responsive to the assembly of PKM2 into dimers or tetramers, which determines the fate of glucose-derived carbon towards biosynthesis or oxidative phosphorylation, respectively . Exactly how HIV-1 exerts control over glycolysis remains to be determined.
We found no evidence to suggest that oxidative phosphorylation was affected in HIV-1 infected cells, which is also in agreement with generally unaffected levels of TCA cycle intermediates . This suggests therefore that HIV-1 replication has a specific requirement for resources that derive from glycolysis. We only observed an increase in glycolytic flux in primary CD4+ T cells after infection with HIV-1 but not in the T cell lines Jurkat and CEM-ss. Both these cell lines are derived from leukemic patients and it is well established that a hallmark of transformed cells is the Warburg effect, which is characterised by increased glycolytic activity despite the presence of sufficient oxygen to support oxidative phosphorylation . Our results suggest that in these cell lines glycolysis is de-regulated to the extent that HIV-1 exerts no further control over the upregulation of glycolysis.
By monitoring the number of cells that expressed HIV-1 p24Gag in media containing galactose or glucose we noted that a higher proportion of infected primary CD4+ T cells was maintained in those cultures containing galactose. By the addition of reverse transcriptase inhibitors, we showed that this was independent of subsequent rounds of infection and therefore suggested that galactose provides infected cells with a survival advantage over glucose. Indeed, a greater proportion of cells expressing activated caspase 3 was observed in the infected primary CD4+ T cells cultured in glucose. We noted that an increased proportion of cells expressing activated caspase 3 was not only observed in infected cells but also in uninfected cells cultured in glucose, suggesting a more general connection between glycolytic metabolism and apoptotic cell death in activated CD4+ T cells. This was furthermore reflected in experiments that revealed a greater proportion of infected as well as uninfected cells that stained positive with annexin V in cultures containing glucose compared with galactose. Increased sensitivity of activated T cells to apoptosis under conditions that favour glycolysis has been reported  as well as the requirement for glycolytic ATP production for apoptosis of Jurkat cells . It was recently reported that IL-2-dependent activation-induced cell death of murine effector T cells is mediated by activated caspase 3 and this was correlated with increased glycolytic activity . In addition, glycolysis-dependent activation of caspase 3 was recently reported to limit inflammatory cytokine production by a negative feedback mechanism in macrophages after sustained activation . In conjunction with our present work, these studies point to a central role of caspase 3 in mediating metabolism-dependent contraction of immune responses as well as pathogen-induced cell death. We emphasise that we are not advocating a strict caspase 3-dependent mechanism of HIV-1 induced apoptotic cell death. Necrosis  and necroptosis  have been observed in HIV-1 infected cells in addition to several possible modes of apoptosis -,, and non-productively infected cells were recently shown to die by caspase 1-mediated pyroptosis .
In addition to an effect of cellular metabolism on HIV-1 induced cell death, we also observed that virus production is more efficient in cells provided with glucose compared with galactose. This is not unexpected, as glycolysis generates intermediates that support biosynthesis of amino acids, lipids, nucleotides, glycolipids and glycoproteins. In fact, it is likely that our experiments comparing cultures containing galactose or glucose have underestimated the dependency of HIV-1 virion production on glycolysis to some extent. Galactose can be metabolised via the Leloir pathway to produce UDP-galactose that can support nucleotide sugar metabolism or be used to generate glucose-1-phosphate that can enter glycolysis, albeit inefficiently. Nevertheless, we observed that virus production in cultures containing galactose was reduced to between 20% and 60% of the amount produced in cultures containing glucose. Likewise, the addition of 2-deoxyglucose to infected cell cultures reduced the viral output severely, but there is also some cellular toxicity associated with 2-deoxyglucose. To our knowledge, this is the first time that a dependence of HIV-1 virion production on glycolysis has been demonstrated.
There are several possibilities by which glucose would be required for the synthesis of biomolecules that make up the virion. For instance, there is evidence that lipid metabolism is modulated in HIV-1 infected cells to support the formation of lipid microdomains that are the preferred assembly sites for HIV-1 virions ,. This may pose an increased demand on the production of precursor metabolites for lipid metabolism that are derived from glycolysis, such as acetyl-CoA. In addition, the gp120 subunit of the viral Env protein is one of the most heavily glycosylated proteins found in nature and its synthesis may well require an increase in sugar molecules that are targeted into protein glycosylation pathways. Alternatively, there may be host factors that are required for HIV-1 particle production whose expression or activity depends on glycolytic metabolism. For example, the translation of IFNγ and IL-2 mRNA is repressed by the binding of GAPDH to the 3′ UTR when it is not engaged in glycolytic catalysis . It is conceivable that other host protein that support HIV-1 replication may be subject to similar control mechanisms. Our observation that HIV-1 Gag protein and its mRNA levels are similar in cultures containing galactose or glucose indicates that these components of the HIV-1 virion are not subject to translational control by GAPDH. Interestingly, we observed that virus production was dependent on the provision of glucose in cell lines as well as primary cells. Together, these results indicate that the process of virion assembly has a metabolic requirement that is conserved in primary CD4+ T cells and T cell lines.
We have demonstrated that the infection of primary CD4+ T cells, but not T cell lines, with HIV-1 results in an increased glycolytic flux. Furthermore, we have shown that the engagement of glycolysis in infected primary CD4+ T cells makes them more susceptible to virus-mediated cell death while at the same time supporting virion production. Increased apoptosis and activation of caspase 3 was shown to correlate with glycolytic activity of primary CD4+ T cells, both in the presence and absence of HIV-1.
Extracellular flux measurements
Oxygen consumption and extracellular acidification rates, OCR and ECAR respectively, were measured on an XF24 apparatus from Seahorse Biosciences. All extracellular flux experiments were carried out in Dulbecco Modified Eagle Medium (DMEM) reconstituted from powder formulation (Sigma) supplemented with 10 mM pyruvate and 1 mM glutamine but without sodium bicarbonate, phenol red or serum. The DMEM was prepared on the day of the experiment and adjusted to a pH between 7.2 and 7.4 at 37°C, and subsequently filter-sterilised. Cells were washed once in DMEM and seeded at a density of 1.5 to 2.0 × 105 per well in XF24 culture plates that were coated with Cell-Tak (BD biosciences) or poly-D-Lysine (Sigma) and centrifuged for 5 minutes at 135 g at medium acceleration. No differences in results were observed when using Cell-Tak or poly-D-Lysine. After centrifugation, the cell plate was directly loaded into the instrument. Glucose and galactose were injected to a final concentration of 1 g/L and oligomycin to a final concentration of 1 μM. HIV-1 and uninfected cells were assayed 48 hours after infection, HIV-1 infected cells stained at least 70% positive for viral p24Gag antigen as determined by flow cytometry. In experiments comparing addition of glucose, galactose and a combination of the two, 7 wells were designated for each condition with 3 wells dedicated to background detection. In experiments comparing the addition of glucose and galactose, 10 wells were dedicated to each condition and 4 for background detection. All results were normalised to the baseline OCR and ECAR values recorded prior to the injection of substrate. Data are represented as the average with error bars indicating the standard deviation.
Peripheral blood mononuclear cells (PBMCs) were isolated from whole blood by density centrifugation using Lymphoprep (StemCell Technologies). CD4+ T cells were isolated by magnetic activated cell sorting (MACS) by negative selection (Miltenyi Biotec). The purity of the isolated CD4+ T cell population was determined by flow cytometry and was typically ≥95%. Cells were frozen in 30% foetal bovine serum (FBS)/10% dimethyl-sulfoxide (DMSO) until needed; upon which aliquots were thawed, activated with CD3/CD28 T-cell activator Dynabeads (12.5 μl per 106 cells) (Invitrogen) and cultured in RPMI-1640 containing 10% FBS, 1% penicillin/streptomycin (P/S) and 15 international units/ml (IU/ml) IL-2 for 4 days to expand (all Invitrogen). CD4+ T cells lines, Jurkat and CEM-ss were maintained in RPMI-1640 containing 10% FBS and 1% P/S. Human Endothelial Kidney 293 T (HEK 293 T) and TZM-bl cells , were maintained in DMEM (Invitrogen) supplemented with 10% FBS and 1% P/S. DMEM containing 1 g/L galactose or glucose carbohydrate was made up using the powder formulation of DMEM (Sigma) that lacks glucose, pyruvate, sodium bicarbonate, glutamine and phenol red: these components (Sigma) were added to obtain the standard DMEM formulation. In addition, 10% dialysed FBS (Sigma), 1% P/S and 15 IU/ml IL-2 (both Invitrogen) were added and media passed through 0.2 μm filter to sterilise.
Virus production and infection
HIV-1 YU2 , NL4.3-nef-IRES-GFP (NL4.3-GFP) ,, NLRX-IRES (NL4.3-DSredX) , NL4.3  and negative control Env-deleted virus (NL4.3 Δ Env ,) virus were produced by transfection of the molecular clones with PEI (Polysciences) into HEK 293 T cells. YU2 viruses were pseudotyped with the vesicular stomatitis virus glycoprotein (VSV-G) by co-transfection of a VSV-G expression vector. Supernatant from transfected cells was purified by filtering through a 0.45 μm mixed cellulose membrane (Millipore) and subsequent ultra-centrifugation over a 20% sucrose cushion for 75 minutes at 28,000 rpm. Virus pellets were resuspended in glucose-free DMEM and virus infectivity was then determined by titration on CEM-ss and Jurkat cells with subsequent intracellular p24Gag staining and flow cytometry analysis. The volume of viral stock needed to achieve the desired percentage of infected cells was then calculated for each experiment. For infection experiments, primary CD4+ T cells were re-activated with anti-CD3/CD28 beads and infected in RPMI + IL-2. Jurkat and CEM-ss cells were infected in RPMI only. Following 24 hours incubation at 37°C, cells were washed with PBS and seeded into DMEM, containing IL-2 and 1 g/L galactose, glucose or a combination of the two. Cells were infected and cultured in the presence or absence of reverse transcriptase inhibitors (RTI) Zidovudine and Lamivudine (10 μM each: obtained through the NIH AIDS Reagent Program, Division of AIDS, NIAID, NIH).
Infected cells were washed in PBS and treated with TrypLE (Sigma) to remove membrane bound HIV-1, before being permeabilised and fixed with Cytofix/Cytoperm (BD Biosciences). Cells were then incubated with either p24Gag antibody only or in combination with Bcl2 or caspase 3 antibodies in Permwash (BD Biosciences). p-AKT1 was detected by washing cells in PBS, treating with TrypLE, fixing in 4% paraformaldehyde and incubating with cold Perm Buffer III (BD Biosciences) to capture the protein in its phosphorylated form. Cells were incubated with anti-p24Gag and p-AKT1 antibodies in FACS buffer (PBS containing 2% FBS and 1% P/S). For detection of intracellular cytokines (IL-2, IL-4, TNFα and IFNγ) Brefeldin A (Biolegend) was added at 1:1000 to primary CD4+ T cells and incubated for 6 hours at 37°C. Cells were then washed in PBS and incubated with Live/Dead Fixable Dead Cell Stain Kit violet (Invitrogen) for 30 minutes in the dark at room temperature (RT). Next cells were washed, treated with TrypLE, fixed and permeabilised with Cytofix/Cytoperm (BD Biosciences) and stained with anti-p24Gag antibody plus either anti-TNFα; IL-2 and IFNγ; or IL-4 and IFNγ. GLUT1 expression was detected in cells infected with NL4.3-GFP virus after permeabilisation and fixing with Cytofix/Cytoperm and incubated with mouse anti-human GLUT1 antibody at RT for 30 minutes. After washing with FACS buffer cells were incubated with anti-mouse-PE secondary antibody at RT for 30 minutes in the dark. Cells were washed in FACS buffer 3 times then resuspended in FACS buffer before being acquired on a FACSCantoII and analysed on FlowJo software (Treestar). Where required, CountBright Absolute Counting Beads (Invitrogen) were vortexed for 30’seconds and 50 μl added to each sample prior to acquisition. The following antibodies were used at concentrations indicated in the manufactures’ instructions: anti-p24Gag-FITC and anti-p24Gag-RD1 KC57-RD1 (Beckman Coulter), anti-Bcl2-PE-CF594 clone 100, anti-activated caspase 3-FITC clone C92-605, anti-p-AKT1-pacific blue clone M89-61, anti-TNFα-APC clone 6401.1111, anti-IL-2-FITC clone 5344.11, anti-IL-4-PE clone 3010.211, anti-IFNγ-APC clone 25723.11, anti-CD4-PE RPA-T4 (all from BD Biosciences), anti-GLUT-1 Ab40084 (Abcam), GLUT1-RBD-GFP (Metafora Biosystems) and anti-mouse-PE secondary antibody F0102B (R&D Systems).
Cell proliferation assay
Cells were washed twice in PBS (400 g/5mins) and resuspended in 1 μM CFSE for 10 minutes at RT in the dark (Invitrogen). The staining was quenched with sterile FACS buffer for 2 minutes and then cells were washed in fresh FACS buffer. Cells were seeded into media containing glucose, galactose or a combination of the two and left to grow for the indicated times with subsequent analysis by flow cytometry. For analysis of infected cells, staining was performed in the same manner and cells were subsequently seeded into RPMI and given an inoculum of virus. After 24 hours, the cells were washed and split into DMEM containing glucose or galactose. At the indicated time, cells were analysed by flow cytometry: cells were gated for p24Gag expression to obtain the CFSE signal for the HIV-1 infected population.
Cell death by oxidative damage
Uninfected cells were seeded in DMEM with galactose or glucose and incubated for 24 hours at 37°C. PAPANONOate (Cayman chemical) was added at the indicated concentrations from a 30 mM stock solution in DMSO and the cells were incubated at 37°C for a further 24 hours. Cells were then washed in PBS and stained with propidium iodide (PI) as per the Vybrant Apoptosis Assay Kit instructions (Invitrogen) and analysed by flow cytometry.
Cell and supernatant samples were separated by SDS-PAGE on an 11% SDS gel at 27 μmA for 1 hour. Proteins were then transferred onto nitrocellulose membranes at 16 μV over night and blocked for 1 hour in 1% skimmed milk in 0.1% Tween/PBS. Membranes were blotted with primary antibodies for 1 hour at room temperature and washed in 0.1% Tween/PBS. Subsequently, membranes were blotted with secondary conjugated antibody for 1 hour at room temperature and washed again before being visualised on a LI-COR Quantitative Imager. The following antibodies were used according to the manufactures’ instructions: anti-HSP90 sc7947 (Santa Cruz), anti-PKM2 ab38237 (Abcam), anti-HK2 ab104830 (Abcam), anti-GAPDH ab8245 (Abcam), anti-caspase-3 9668S (Cell Signaling), 800CW goat anti-rabbit 926 μ32211 (LI-COR) and 680RD goat anti-mouse 926 μ68070 (LI-COR). HIV-1 Gag was detected with supernatant from the mouse hybridoma 183-H12-5C, which was a kind gift from Prof. M. Malim.
TZM-bl cells were plated at 1.5 × 105 per well in a 24-well plate and incubated at 37°C O/N. The next day, 100 μl of supernatant from infected cultures was added to each well. After 24 hours incubation at 37°C, media was aspirated off and 100 μl of Galacto-Star Lysis solution (Applied Biosciences) added to each well. Galacto-Star Reporter Assay Kit for the detection of β-galactosidase activity was then used to determine the infectivity of the lysate according to the manufacturers’ instructions. The value from negative control wells that received no supernatant was subtracted from all experimental values to account for any autoluminesence present in TZM-bl cells.
Quantitative real-time PCR
RNA was extracted using the Qiagen miRNeasy Mini kit according to the manufacturer’s instructions. cDNA was synthesised using High Capacity cDNA Reverse Transcription Kit (Applied Biosystems) according to the manufacturer’s instructions. qPCR reactions were performed in triplicate, using TaqMan Universal PCR master mix (Applied Biosystems) with 900 nM of each primer and 250 nM probe. After 10 μmin at 95°C, reactions were cycled through 15’sec at 95°C followed by 1 μmin at 60°C for 40°Cycles. To detect HIV-1 genomic RNA the primers used were GagupNL4.3 (AGGCTGTAGACAAATACTGGG) and GagdownNL4.3 (TTTGATGCACACAATAGAGGA) with the probe GagProbegRNA (FAM-CCCTTCAGACAGGATCAGAAGAACTTAGATCA-TAM) (all from Eurofins). As a cellular control β-actin mRNA was amplified (Life technologies), which all data were normalised against.
Graphpad Prism software was used to perform paired t-test, unpaired t-test and ANOVA with Tukey post-test to calculate p-values as indicated.
HH conceived the study. HH, MKW and AH performed experiments. HH, MKW and AH analysed and interpreted data. HH wrote the manuscript with input from all authors. All authors read and approved the final manuscript.
Thanks to Chad Swanson, Katie Doores, Stuart Neil and Maria Teresa Catanese for critical reading of the manuscript. We thank Dr. David N. Levy for the kind gift of NLRX-IRES. This work was supported by a Wellcome Trust Research Career Development Fellowship (083498/Z/07/Z) and an MRC New Investigators Research Grant (MR/J008125/1) to HH.
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