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Antimicrobial Agents and Chemotherapy, September 2003, p. 2951-2957, Vol. 47, No. 9
0066-4804/03/$08.00+0 DOI: 10.1128/AAC.47.9.2951-2957.2003
Copyright © 2003, American Society for Microbiology. All Rights Reserved.
Rega Institute for Medical Research, Katholieke Universiteit Leuven, B-3000 Leuven, Belgium
Received 9 January 2003/ Returned for modification 14 April 2003/ Accepted 10 June 2003
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We recently reported the discovery and structure-activity relationship of a group of pyridine oxide derivatives that are endowed with pronounced anti-HIV properties in cell culture (5). It was found that a number of them were very selective in inhibiting HIV-1 but not HIV-2. Other pyridine oxide derivatives, however, were also inhibitory to HIV-2, presumably through another mechanism of action. In this study, the antiviral properties and the resistance pattern of HIV-1 for those pyridine oxide compounds that show selective anti-HIV-1 activity will be reported.
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TABLE 1. Structural formulae of pyridine oxide derivatives
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Antiviral activity assays. The procedures for assessing the anti-HIV activity in cell culture have been described previously (2, 3) and are based on the inhibition of HIV-induced giant cell formation in CEM, C8166, and MT-2 cell cultures at day 4 postinfection by microscopic examination. Briefly, cells were suspended at 250,000 cells ml1 in culture medium and infected with HIV at approximately 100 times the 50% cell culture infectious dose per ml. Then 100 µl of the infected cell suspension was added to a 96-well plate containing 100 µl of serial dilutions of the test compounds. After 4 days of incubation at 37°C, the cell cultures were examined for syncytium formation. The 50% effective concentration (EC50) was defined as the compound concentration required to inhibit virus-induced syncytium formation by 50%. The anti-HIV activity in MT-4 cells was based on cell viability. The cells had been infected with 100 50% cell culture infectious doses of HIV in the presence of various concentrations of the test compounds. After the MT-4 cells had been allowed to proliferate for 5 days at 37°C, the number of viable cells was quantified by the trypan blue exclusion method. The EC50 was defined as the compound concentration required to inhibit virus-induced cell death by 50%.
Selection of HIV-1(IIIB) mutant strains.
HIV-1(IIIB)-infected CEM cells in 1-ml cell cultures (
1.2 x 105 cells/ml) were subjected to serial passages (i.e., every third or fourth day of cultivation) in the presence of a variety of pyridine oxide derivatives at different fixed concentrations. Virus breakthrough became visible as syncytium formation in the virus-infected CEM cell cultures and was estimated as the percentage of the cell cultures that contained HIV-1-induced syncytia. HIV-1-infected CEM cell cultures that were not exposed to the test compounds served as the control. The number of giant cells that appeared in these HIV-1-infected control cell cultures 4 days postsubcultivation were estimated microscopically and arbitrarily designated as 100%.
Determination of the amino acid sequence of the RT of drug-resistant virus strains. CEM cells infected with the HIV-1 mutant strains were incubated for 3 days, centrifuged, washed twice with phosphate-buffered saline, and resuspended in 200 µl of phosphate-buffered saline. The cell suspension was subjected to total DNA isolation with the QIAamp DNA blood kit (Qiagen, Leusden, The Netherlands). Amplification of proviral DNA (40 cycles) was performed in 10 mM Tris-HCl (pH 8.8), 50 mM KCl, 1.5 mM MgCl2, 0.1% Triton X-100, 2.5 U of thermostable DNA polymerase (Dyna Zyme, Finnzymes), and 15 µM concentrations of all primers in a final volume of 50 µl. The primers 5'-AATTGTTTTACATCATTAGTGTG and 5'-GGGGTTAAATAAAATAGTAAG gave a 2,060-bp product of the proviral RT gene. A new 30-cycle PCR with a second set of primers (5'-GCTACACTAGAAGAAATGATGAC and 5'-CTTGATAAATTTGATATGTCCATTG) generated a 1,770-bp RT fragment. The PCR products were purified on Microspin S-400 HR columns (Pharmacia, Montreal, Quebec, Canada), sequenced with a Taq dye deoxy terminator sequencing kit (Applied Biosystems), and analyzed with a DNA sequencer (model 373A from Applied Biosystems).
RT assay. The RT assays using recombinant HIV-1 RT were performed as described previously (1). Briefly, the reaction mixture (50 µl) contained 50 mM Tris-HCl (pH 7.8), 5 mM dithiothreitol, 300 mM glutathione, 500 µM EDTA, 150 mM KCl, 5 mM MgCl2, 1.25 µg of bovine serum albumin, a fixed concentration of the labeled substrate (2 µCi per assay for either [3H]dTTP [0.72 µM], [3H]dCTP [2.1 µM] or [3H]dGTP [13.8 µM]), a fixed concentration of the template-primer [poly(rA · dT) (0.015 mM), poly(rC · dG) (0.1 mM), or poly(rI · dC) (0.015 mM)], 0.06% Triton X-100, 10 µl of inhibitor solution (containing various concentrations of the compounds), and 5 µl of the purified recombinant HIV-1 RT preparation. The reaction mixtures were incubated at 37°C for 60 min, at which time 200 µl of calf thymus DNA in H2O (2 mg ml1) and 1 ml of saturated sodium phosphate buffer (equimolar amounts of NaH2PO4 and Na2HPO4) in a 5% (vol/vol) aqueous trichloroacetic acid solution were added. The solutions were kept on ice for 30 min, after which the acid-insoluble material was washed and analyzed for radioactivity.
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TABLE 2. Anti-HIV-1(IIIB) activity of test compounds in CEM, C8166, MT-2, and MT-4 cellsa
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TABLE 3. Antiviral activity of pyridine oxide derivatives against different HIV strains in CEM cell cultures
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5 µg/ml), inhibited HIV-1 RT at IC50 values of 107 and 94 µg/ml, respectively. For all the pyridine oxide derivatives that had been evaluated for their anti-HIV-1 RT activity [using poly(rC · dG) as the template and dGTP as the radiolabeled substrate], the IC50 values were plotted against their EC50 values for antiviral activity (Fig. 1). A very close correlation between anti-HIV-1 RT activity and antiviral activity in CEM cell cultures was found. The drug concentrations required to inhibit HIV-1 RT were, as a rule, 15- to 50-fold higher than those required to inhibit HIV-1 replication in cell culture. The inhibitory effect on HIV-1 RT in the presence of other artificial homopolymeric templates was also examined (Table 4). The compounds showed comparable inhibitory effects against HIV-1 RT in the presence of poly(rC · dG) (using [3H]dGTP as substrate) and poly(rA · dT) (using [3H]dTTP as substrate) but were, as a rule,
50-fold less effective when poly(rI · dC) (using [3H]dCTP as substrate) was used as the template-primer. Interestingly, none of the pyridine oxide derivatives, including JPL-10, JPL-27, and JPL-30, that were active against both HIV-1 and HIV-2 in cell culture were inhibitory to HIV-2 RT at concentrations as high as 500 µg/ml (Table 4). |
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TABLE 4. Inhibitory effects of pyridine oxide derivatives on HIV-1 RT and HIV-2 RT activity in the presence of different homopolymeric template-primers
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FIG. 1. Log IC50 for inhibition of HIV-1 RT activity [using poly(rC · dG) as the template and dGTP as the radiolabeled substrate] versus log EC50 for inhibition of HIV-1(IIIB) replication in CEM cell cultures.
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TABLE 5. Genotypic analysis of the RT of mutant HIV-1 strains after exposure to pyridine oxide derivatives
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A) or transition of adenine to guanine (A
G) (Table 6). Several RT mutants were also formed through transversion of adenine to thymine (A
T) or transition of cytosine to thymine (C
T) or vice versa (T
A or T
C). No mutations emerged through conversion of guanine to thymine (G
T), cytosine to adenine (C
A), cytosine to guanine (C
G), or vice versa (T
G, A
C, or G
C). |
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TABLE 6. Genotypic analysis of the RT mutations that appeared in 22 independently obtained HIV-1(IIIB) mutants in CEM cell cultures
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TABLE 7. Sensitivity of mutant HIV-1(IIIB) strains towards various HIV-1 RT inhibitors
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760. Similar EC50 values were found when JPL-133 was evaluated in other cell lines or against HIV-1 strains other than IIIB. All pyridine oxide derivatives, both those that were HIV-1-specific and those that were inhibitory against HIV-1 and HIV-2, selected for NNRTI-characteristic mutations within the first six subcultivations. This speed of emergence of mutant HIV-1 strains is comparable to the speed reported earlier for NNRTIs such as nevirapine, TIBO, pyridinone, delavirdine, or TSAO derivatives to elicit virus-mediated drug resistance (2, 3). At higher drug concentrations, the Tyr181Cys RT mutant was predominantly selected, whereas lower drug concentrations rather resulted in the appearance of a larger variety of NNRTI-characteristic mutations, such as Lys103Asn, Val108Ile, and Tyr188His. Also, exposure to increasing drug concentrations resulted in the appearance of additional RT mutations (i.e., Lys103Asn/Asp237Asn and Tyr188Leu/Thr139Ile double-mutant viruses and even an Arg83Lys/Val108Ile/Lys101Glu triple mutant), resulting in full resistance to the particular pyridine oxides. Several unusual mutations were observed: Tyr181Asn has never been reported before, and Pro313Ser, Asp237Asn, and Arg83Lys have never been previously associated with NNRTI resistance. It is currently unclear what, if any, role these amino acid mutations play in viral resistance to the pyridine oxide derivatives, since they invariably appeared in the presence of other NNRTI-specific mutations.
Genotypic analysis of the mutant HIV-1 RTs of 22 independent drug-resistant HIV-1 strains revealed the predominant appearance of the transition mutations G
A and A
G (Table 6). G
A (hyper)mutations in the HIV-1 RT gene have been directly linked to a dCTP pool imbalance during reverse transcription (10, 13, 14) and have been shown to occur in the codons for Arg83Lys (AGA
AAA), Val108Ile (GTA
ATA), Glu138Lys (GAG
AAG), Val189Ile (GTA
ATA), and Asp237Asn (GAT
AAT). In contrast, the A
G transition mutation most prominently occurred in the codon for Tyr181Cys (TAT
TGT). Among the silent mutations that emerged under drug pressure, the G
A transition was again predominant, followed by the C
T transition, which, in turn, appeared more frequently than the A
G transition mutation.
Remarkably, JPL-10 and JPL-30, which are inhibitory to both HIV-1 and HIV-2 replication, also selected for NNRTI-specific mutations in the HIV-1 RT. Whereas there was a close correlation between inhibition of HIV-1 RT activity and antiviral activity of all pyridine oxide derivatives evaluated (r = 0.98) (Fig. 1), none of the pyridine oxide derivatives, including JPL-10, JPL-27, and JPL-30, inhibited HIV-2 RT. Poly(rC ·dG) and dGTP have been routinely used as the most optimal homopolymeric template-primer and substrate for HIV-1 RT inhibition measurements in the presence of NNRTIs. It cannot be excluded that due to the artificial template-primer used to measure RT inhibition, the RT inhibitory values are not fully reflecting the RT inhibition in the intact virus-infected cells. However, it should be noted that a very close correlation was found between anti-HIV-1 inhibition and anti-HIV-1 RT inhibition (r = 0.98), pointing to the likely relevance of our findings. Clearly, the latter compounds exert their inhibitory activity against HIV-1 by interfering with RT, but their activity against HIV-2 may be attributed to another mechanism. Also, the fact that these pyridine oxide derivatives partially retained anti-HIV-1 activity against the virus strains that harbored NNRTI-specific mutations suggests that this residual anti-HIV-1 activity may be ascribed to another mode of antiviral action common for HIV-1 and HIV-2. One possibility to explain the additional anti-HIV-2 activity of a number of pyridine oxide derivatives is that this activity is due to toxicity of the test compounds. However, in contrast with many toxic pyridine oxide derivatives where abundant giant cell formation was observed at partially toxic compound concentrations (i.e., at their 50% cytotoxic concentration [CC50] values), marked suppression of virus-induced giant cell formation was noted for several other pyridine oxide derivatives at their CC50 values (i.e., JPL-10, JPL-27, and JPL-30). Moreover, the anti-CMV activity of JPL-10, JPL-27, and JPL-30 (5) in addition to their anti-HIV-1 and HIV-2 activity may rather lead to the hypothesis that pyridine oxide derivativesat least those that show activity against both HIV-1 and HIV-2may be targeted at a cellular event that may be in common between HIV and CMV and may be required for efficient HIV and CMV replication in cell culture.
It should be mentioned that liver microsomes may easily oxidize sulfide derivatives to sulfoxides and subsequently to sulfones. Several antivirally active pyridine oxides are in the sulfide form (i.e., JPL-133), but other active compounds are in the sulfone form (i.e., JPL-71). An extensive structure-activity relation study for almost 200 pyridine oxides revealed that oxidation of the sulfides to sulfoxides or sulfones does not necessarily result in decreased antiviral activity (5). Therefore, it is expected that this particular liver metabolic activity will not compromise the antiviral potential of most of these drugs.
In conclusion, we have described an entirely new class of HIV inhibitors for which several members of the class of pyridine oxide derivatives display specific anti-HIV-1 activity, whereas others are endowed with both anti-HIV-1 and -HIV-2 activity. These compounds have been accredited with a dual mechanism of antiviral action. These findings, together with the huge number of possible modifications that can be introduced in the chemical structure of the flexible pyridine oxide derivatives, open interesting perspectives to develop more potent and selective anti-HIV congeners and to further exploit and unravel their dual mechanism of antiviral action.
Financial support by the Belgian Fonds voor Wetenschappelijk Onderzoek (FWO project no. G.0104.98), the Belgian Geconcerteerde Onderzoeksacties (project no. GOA-00/12), Crompton Corporation (Middlebury, Conn.), and the European commission (Krediet no. QLRT 2000-00291 and 2001-01311 and the Rene Descartes Prize 2001 no. HPAW-2002-90001) is gratefully acknowledged.
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A hypermutation affecting human immunodeficiency virus. AIDS Res. Hum. Retrovir. 9:833-838.[Medline]
A hypermutation of human immunodeficiency virus type 1 genomes. J. Virol. 65:1779-1788.
A hypermutation of the human immunodeficiency virus type 1 genome: evidence for dCTP pool imbalance during reverse transcription. Proc. Natl. Acad. Sci. USA 91:3092-3096.
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