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Antimicrobial Agents and Chemotherapy, July 2002, p. 2116-2123, Vol. 46, No. 7
0066-4804/02/$04.00+0 DOI: 10.1128/AAC.46.7.2116-2123.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.
Department of Microbiology and Immunology,1 Division of Infectious Diseases, Department of Medicine, Faculty of Medicine, Dalhousie University, HaliFax, Nova Scotia B3H 4H7,4 GlaxoSmithKline, Collegeville, Pennsylvania,2 Department of Molecular Microbiology and Department of Genetics, Washington University Medical School, St. Louis, Missouri3
Received 17 December 2001/ Returned for modification 27 February 2002/ Accepted 10 April 2002
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Nitazoxanide (NTZ) is a nitrothiazolyl-salicylamide derivative with a predicted redox potential in the
-360-mV range that is active against H. pylori (21, 35), anaerobic bacteria (6), helminths, and protozoa (5, 25) but not against enteric bacteria or aerobes and that is well tolerated by humans (1). The drug was particularly efficacious in eradicating infection and curing disease in a hamster model of antibiotic-induced diarrhea caused by Clostridium difficile compared to the standard vancomycin and metronidazole treatments (20). The drug and its deacylated prodrug form (tizoxanide [TIZ]) are effective in treatment of persistent diarrhea caused by Cryptosporidium parvum, Giardia intestinalisis, and Entamoeba histolytica (25, 26, 27). These drugs display antimicrobial activity against Mtzr strains of H. pylori (19, 21), and high-level resistance to them has not been found clinically. The Mtzr phenotype results from mutational inactivation of rdxA and often frxA as well, genes that encode two nitroreductases of H. pylori (11, 17, 18). Some strains display low-level resistance to furazolidone and nitrofurantoin and, where studied, are also Mtzr. This suggests that these nitroreductases contribute to drug activation (19). However, frxA and rdxA knockout mutations constructed in laboratory strains are not resistant to furazolidone and nitrofurantoin, which indicates that mutations in other genes are also needed for resistance (19).
To better understand the role of redox active enzymes of H. pylori in the activation of MTZ, NTZ, and the nitrofurans, we purified RdxA, FrxA, and pyruvate oxidoreductase (POR) following overexpression in Escherichia coli and examined each enzyme's substrate specificity. We also tested whether these drugs are mutagenic or cause DNA fragmentation. Here we report that RdxA, FrxA, and POR reduce NTZ, while FrxA and to a lesser extent POR (but not RdxA) reduce the nitrofurans, and only RdxA exhibits MTZ reductase activity, as previously established (11). Reductive products of MTZ activation were mutagenic and DNA damaging (29), while reductive products of NTZ and nitrofuran activation caused no DNA damage and only nitrofuran substrates were weakly mutagenic. Our studies show that the selective toxicity of nitazoxanide for H. pylori is due to its efficient activation by POR, an essential key enzyme of central intermediary metabolism.
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(lac proB)/F' lacI lacZ proAB+] contains a mutation in lacZ that renders it unable to ferment lactose (4). The rdxA gene from H. pylori strain 950 was amplified by PCR, and cloned into the pBluescript (pBSK) cloning vector, and introduced into E. coli CC104 as previously described (29). E. coli strains AB1157 (wild type) and JVQ2 (nfsA nfsB) were obtained from I. B. Lambert (34) and used as host strains for expression of POR from pBSK. MTZ susceptibility of E. coli strains expressing RdxA or FrxA was determined by dilution and plating on Luria-Bertani (LB) medium supplemented with various concentrations of MTZ (0 to 250 µg/ml). DNA manipulations and cloning of rdxA, frxA, and porDGAB. H. pylori genomic DNA was isolated from confluent cultures grown on BA plates using the cetyltrimethyl-ammonium bromide-phenol method (28). PCR was carried out in 20-µl volumes containing 10 ng of genomic DNA, 10 pmol of each primer, 1 U of Taq DNA polymerase (MBI Fermentas) or high-fidelity pwo Taq (Roche Diagnostics), and 0.25 mmol of each deoxynucleoside triphosphate in standard PCR buffer. Reaction mixtures were preincubated for 2 min at 94°C and subjected to 30 cycles of 94 oC (30 s), 50°C (30s), and 72 oC (30 s or 3 min for long sequences) and a final extension period of 7 min.
The rdxA and frxA genes were amplified from H. pylori strain 26695 or HP950 using primer pairs RDXBMHIF (5' GCGGATCCGATGAAATTTTTGGATCAAG) and RdxXHO1R (5' CCGCTCGAGCAACCAAGTAATCGC) for rdxA and FrxBMF (5' GGATCGATGGACAGAGAACAAATT) and FrxXHO1R (5' CCGCTCGAGTTCAATCACTTCATA) for frxA, and the amplicons were cloned into the expression vector pET29b (Novagen) to place six histidine residues at the C termini. The plasmids were transformed into E. coli strain BL21 by electroporation. The pyruvate oxidoreductase operon (porDGAB), contained in a 3.1-kbp DNA fragment, was amplified by PCR from strain HP439 using the primer pairs PORF NdeI (5' AGGAGACATATTCATATGTTTCAAATTAG) and PORR EcoRI (5' GTGAATTCACGCAAAAAGCGCCTTGA) and ligated into pBluescript (pBSK). The orientation was determined by PCR, and the nucleotide sequence of the POR operon cloned in pBSK was determined by automated sequencing at the NRC Institute for Marine Biosciences (accession number AF013980). The isopropyl-ß-D-thiogalactopyranoside (IPTG) inducibility of pBSK:porDGAB was optimized and verified by sodium dodecyl sulfate-polyacrylamide gel electrophoresis as previously described (13).
Preparation of cell extracts and POR assays. For enzyme assays, H. pylori strains were grown to late log phase in Brucella broth (BB) and harvested as previously described (14). For E. coli strains expressing POR, the bacteria were grown in LB broth at 37°C and following IPTG (final concentration, 1 mM) induction for 2 h (optical density at 660 nm, 0.5 to 0.8), the bacteria were harvested for the enzyme assay. Bacteria were pelleted by centrifugation (6,000 x g) for 5 min at 4°C, washed once in phosphate-buffered saline (PBS) (4°C), suspended in 100 mM potassium phosphate buffer (pH 7.0), and subjected to 10-s bursts from an ultrasonic probe (Heat Systems-Ultrasonics Inc. [Plainview, N.Y.] sonifier). Following five cycles of bursts interspersed by 1 min of cooling in an ice bath, the crude extract was centrifuged at 10,000 x g for 30 min at 4°C to remove unbroken cells and debris. The supernatant was supplemented with 10 mM dithiothreitol during preparation to protect oxygen-sensitive enzymes. POR enzyme assays were carried out at 25°C in 1-ml-volume cuvettes in a modified Cary-14 spectrophotometer equipped with an OLIS data acquisition system (On Line Instrument Co., Bogart, Ga.) (14). POR (EC 1.2.7.1) was assayed under anaerobic conditions with a solution containing 100 mM potassium phosphate (pH 7.0), 10 mM sodium pyruvate, 5 mM benzyl viologen (BV), 0.18 mM CoA, 1 mM MgCl2 and 5 µM thiamine pyrophosphate. A few grains of sodium dithionite was added to render the cuvette anaerobic, and pyruvate-dependent reduction of BV at 546 nm was monitored (E = 9.2 mM-1 cm-1). The reference cuvette contained no sodium pyruvate. POR was also assayed under aerobic conditions with NTZ as the electron acceptor. For this assay, benzyl viologen and dithionite were omitted, and nitroreduction of NTZ at 412 nm was monitored (E = 0.55 mM-1 cm-1). NTZ was prepared as a 20-mg/ml stock solution in dimethyl sulfoxide. Enzymatic activities are reported as nanomoles or micromoles per minute per milligram of protein. Protein determinations were done using the Bradford procedure (Bio-Rad) with bovine serum albumin as a standard. All assays were performed in triplicate, and a mean and standard deviation were computed. Variation in enzyme activity from batch to batch was also examined in triplicate in bacterial extracts prepared on different days.
Purification and enzyme assays for FrxA and RdxA. FrxA and RdxA were purified by nickel interaction chromatography following overexpression from pET29 in BL21. Protein purification included denaturation of proteins in 6 M urea and slow renaturation and elution from the nickel interaction column (details to be published elsewhere). The substrate specificities of each enzyme were determined spectrophotometrically in a 700-µl reaction volume containing the following (final concentration in 1-ml volume): 50 mM Tris-HCl at pH 7.5, 0.1 mM NADPH, and 0.1 mM substrate. The reaction was initiated following addition of the enzyme, and the initial rate was measured with a Beckman DU 520 spectrophotometer at the appropriate wavelength for each substrate at 23°C. The oxidation of NADPH by RdxA or FrxA at 340 nm was monitored (E = 6.22 mM-1 cm-1). The reduction of various substrates was also monitored at the appropriate wavelengths, which include the following: MTZ, 320 nm (E = 9.0 mM-1 cm-1); nitrofurazone, 400 nm (E = 12.6 mM-1 cm-1); nitrofurantoin, 420 nm (E = 12 mM-1 cm-1); furazolidone, 400 nm (E = 18.8 mM-1 cm-1); and NTZ, 412 nm (E = 0.55 mM-1 cm-1). All extinction coefficient values were verified experimentally. Each assay was performed in triplicate, and the mean and standard deviation was determined. All enzyme activities reported are within a 5% error, and this includes variation from batch to batch purified by these methods.
Determination of mutation frequency and susceptibility to NTZ, MTZ, and the nitrofurans. New mutations to rifampin resistance were quantified as a measure of drug-induced mutation in H. pylori strain 26695 (Mtzs and Mtzr) and in the E. coli tester strain CC104 as previously described (29). E. coli strains were grown for 12 h in LB broth containing furazolidone, nitrofurazone, nitrofurantoin, NTZ, and MTZ (0, 1, 3, 5, and 10 µg/ml, respectively), and aliquots were spread on LB agar containing 25 µg of rifampin/ml and on rifampin-free LB agar. For H. pylori strains, the bacteria were first grown for 3 days on BA plates supplemented with various concentrations of NTZ, furazolidone, or MTZ (0.5 to 15 µg/ml), and the growth was scraped off, suspended in PBS, and plated in triplicate on BA in the presence or absence of 5 µg of rifampin/ml. The data were normalized to 108 bacteria, and the mutation frequency was computed. Susceptibility of bacteria to the various drugs was determined by spotting 10-fold dilutions of exponentially growing cells, suspended in PBS, onto solid media (BA or LB) supplemented with various concentrations of NTZ, MTZ, or nitrofurans (0, 0.1, 0.25, 0.5, 1, 2, 3, 5, 10, and 25 µg/ml). A strain was considered susceptible to concentrations of a drug that caused at least a 10-fold decrease in the efficiency of colony formation by individual cells (efficiency of plating [EOP]). We have previously established that quantitative bacterial counts (EOP) were more reliable in scoring MTZ susceptibility and resistance of H. pylori than the traditional agar dilution method, which relies on growth versus nongrowth after spotting of suspensions of at least >105 cells on MTZ-containing medium (17, 18, 29). For consistency, the EOP protocol was employed for all the drugs used in this study.
Alkaline gel DNA analysis. DNA fragmentation analysis was performed as described previously for MTZ (29). Briefly, H. pylori strain 26695 was grown overnight and used to inoculate 500-ml flasks containing 100 ml of BB to a standardized optical density at 600 nm of 0.25. A defined amount of nitrofurazone, NTZ, or MTZ was added to the culture and incubated with shaking at 37°C for 30 min. Aliquots (1 ml) of the cultures were then harvested and prepared for assessment of DNA fragmentation. As a control, 100 µl of cell suspension was treated with 20 mM hydrogen peroxide (H2O2) at 37°C for 15 min to fragment DNA.
Agarose plugs were prepared and treated as described previously (8) with modifications outlined previously (29). Alkaline agarose gel electrophoresis generally followed the protocols of Zirkle and Krieg (36). Briefly, the agarose plugs were placed into the preformed wells of a 0.8% agarose (Vector Biosystems or Roche Diagnostics) gel prepared under alkaline conditions (30 mM NaOH, 10 µM EDTA). The agarose plugs were sealed in the wells with molten agarose and then subjected to electrophoresis for 6 h at 25 mV. The gel was neutralized for 1 h in 30 mM NaCl-50 mM Tris-HCl (pH 6.0), stained for 1 h with 0.5 µg of ethidium bromide (Sigma)/ml, destained in distilled water (2 h), and visualized under UV light.
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In related experiments, we examined the MIC for nitrofurantoin of H. pylori strains containing defined rdxA and frxA loss-of-function mutations. Strains carrying mutations in rdxA exhibited the same plating efficiency as the parental strain for nitrofurantoin, whereas some strains carrying mutations only in frxA exhibited a modest twofold increase in resistance (data not presented). This suggests a possible role for frxA in nitrofuran activation. Since H. pylori strains containing loss-of-function mutations in both rdxA and frxA were still quite susceptible to NTZ and the nitrofurans, other enzymes must be able to activate these drugs.
Cloning and expression of POR in E. coli. The genes encoding subunits of POR are essential for survival of H. pylori (3, 15). To test the possible role of POR in activation of nitrofurans and NTZ, a 3.1-kbp DNA fragment containing the POR operon of H. pylori strain 439 was cloned into pBSK and introduced into E. coli. IPTG-induced POR activity was demonstrated in cell extracts of E. coli carrying pBSK-POR using an assay based on pyruvate-dependent reduction of BV as described previously (14). No BV reduction was detected in the absence of pyruvate (data not presented). DNA sequence analysis revealed near-identity (3 to 5% DNA difference) of POR operon sequences from H. pylori strain 439 (accession number AF013980) to those of strains J99 and 26695, as expected.
NTZ reduction by POR. POR enzyme activity can be assayed spectrophotometrically with several redox-active viologen dyes (14, 15). To test whether NTZ could also serve as an electron acceptor in this assay, we first determined if NTZ could compete with BV for reducing equivalents generated during the oxidative decarboxylation of pyruvate by POR. As seen in Fig. 1A, POR activity in cell extracts prepared from H. pylori was ca. 500 nmol/min/mg of protein. Addition of NTZ led to a concentration-dependent decrease in the rate of BV reduction. There was no time lag in BV reduction (BV was in excess), indicating that NTZ did not directly reduce BV. These results indicated that NTZ effectively competed with BV for reducing equivalents (competitive inhibition), possibly by serving as an electron acceptor.
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FIG. 1. POR assay and competition with benzyl viologen. (A) Competitive inhibition of POR activity (benzyl viologen reduction) in H. pylori extracts as a function of NTZ concentration was monitored spectrophotometrically at 546 nm. The specific activity at each concentration of nitazoxanide was recorded. (B) POR was assayed in cell extracts of H. pylori by monitoring the pyruvate-dependent reduction of nitazoxanide at 412 nm (A) as described in the text.
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Substrate specificity of POR overexpressed in E. coli. POR activity was determined in high-speed supernatants prepared from extracts of pBSK-POR plasmid-containing derivatives of E. coli strains AB1157 (wild type) and JVQ2, null alleles of nfsA and nfsB, the genes that encode nitroreductases that are also active with nitrofuran substrates (34). POR specific activity (pyruvate dependent) was first determined with BV for each batch of cell extract. Control extracts of E. coli strains not carrying cloned POR genes displayed no BV reductase activity, indicating that activity from strains expressing the POR operon was due to POR itself. As seen in Table 1, recombinant POR efficiently reduced NTZ (high specific activity, about 3,000 nmol/min/mg of protein). Pyruvate-dependent POR activity was also 100-fold lower with each of the nitrofurans, and no POR activity was detected when MTZ was used as the electron acceptor (Table 1). This result is consistent with previous reports that POR in extracts from H. pylori did not reduce MTZ (11, 14).
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TABLE 1. POR activity of PORGDAB expressed in E. colia
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TABLE 2. Substrate specificity of RdxA and FrxA nitroreductases
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60 µg/ml versus <10 µg/ml for recombinant expressed rdxA). However, FrxA reduced nitrofuran substrates (0.5 to 2 µmol/min/mg of protein) and was even more active with NTZ (22.2 µmol/min/mg of protein). Like RdxA, FrxA activity was NADPH dependent (data not presented). The nitrofuran substrate specificity of FrxA was similar to that of the classical nitroreductases of enteric bacteria (2).
NTZ- and furazolidone-induced mutagenicity tests.
Partially inhibitory (near MIC) concentrations of MTZ were highly mutagenic for Mtzs and also Mtzr strains of H. pylori (29) (Table 3). In contrast, NTZ, at or near its MIC, did not increase the frequency of mutation to Rifr (Table 3). NTZ at concentrations up to 5 µg/ml for HP26695 and 10 µg/ml for HP26695:
rdxA decreased viability by 2 or more logs without increasing the frequency of mutation to Rifr. In contrast, partially inhibitory concentrations of furazolidone were somewhat mutagenic for HP26695 (6-fold) and more mutagenic for the rdxA mutant (16-fold). In general, H. pylori was susceptible to lower concentrations of furazolidone (MIC, <1 µg/ml) than of NTZ (MICs,
2 to 5 µg/ml).
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TABLE 3. Mutagenic action of sublethal concentrations of MTZ, NTZ, and furazolidone on Mtzs and Mtzr H. pylori
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TABLE 4. Frequency of rifampin resistance in E. coli tester strain CC104
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FIG. 2. Lack of NTZ- or nitrofuran-induced DNA fragmentation in H. pylori. The MTZs strain H. pylori (Hp) 26695 was challenged with various concentrations of NTZ or nitrofurazone for 30 min as described in the text. The bacteria were suspended and lysed in agarose plugs, and agarose gels were run under alkaline conditions to display the extent of DNA fragmentation of denatured genomic DNA. Bacteria were treated with hydrogen peroxide (20 mM) for 15 min (positive controls). wt, wild type.
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FIG. 3. Lack of drug-induced DNA fragmentation of E. coli strain CC104 carrying pBSK. The bacteria were grown in the presence of the nitrofuran drugs as described in the text. The preparation of agarose plugs is as described in Fig. 2. Hydrogen peroxide was added at a 20 mM concentration as a positive control. The distinct bands noted in each of the lanes are pBSK plasmid DNA.
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FIG. 4. Lack of nitazoxanide-induced DNA fragmentation of E. coli strains carrying rdxA of H. pylori. E. coli strain CC104 containing either pBSK (control) or pGS950 (rdxA+) was grown in the presence of NTZ, and bacteria were suspended and lysed in agarose plugs and electrophoresed as described for Fig. 2 and detailed in the text. Hydrogen peroxide was added at a 20 mM concentration as a positive control. The distinct bands noted in the various lanes are plasmid DNA.
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-360 mV), indicating functional overlap in this redox range. The substrate preferences of FrxA resemble those of the classical nitroreductases of enteric bacteria, to which FrxA is most closely related (11, 34). While some classical nitroreductases exhibit weak MTZ reductase activity as indicated by mutagenicity of MTZ in the Ames test and the increased susceptibility of E. coli to MTZ when expressing a cloned frxA gene (17), the substrate preference and high specific activity displayed by the RdxA nitroreductase for MTZ is unprecedented and apparently unique to this H. pylori enzyme. The expression of several nitroreductases of differing substrate specificities is rather common among bacteria, and they likely contribute to maintenance of cytoplasmic redox potential or to the regeneration of NAD(P) through the oxidation of a wide range of redox active substrates (2, 11, 34). In H. pylori POR, ferredoxin is a subunit of the holoenzyme and does not serve as a carrier of reducing equivalents (14, 15). The POR operon is essential for viability, which explains why null mutations that might produce an Ntzr phenotype have not been isolated. In contrast, null mutations in the nonessential rdxA and then in frxA genes are responsible for most or all of the high-level Mtz resistance observed with clinical isolates (17, 18). These Mtzr variants remain susceptible to NTZ and the nitrofurans because they must retain POR activity.
Mutations in FrxA and RdxA appear to influence the relative MICs of nitrofurans and nitazoxanide for a strain, but these increases are small and not sufficient to confer clinically significant resistance. In general, clinical isolates with confirmed MTZ resistance displayed a fourfold-lower susceptibility to NTZ (MIC of
5 µg/ml) and are assumed (based on previous findings [17,18]) to be rdxA or both rdxA and frxA deficient. Tests with isogenic mutant lab strains showed that frxA inactivation caused at best a twofold increase in nitrofuran resistance, while rdxA inactivation did not affect nitrofuran resistance. FrxA levels vary among strains (17), and we note here that variability was similarly seen in resistance to nitrofurans. These strain susceptibility data agree with enzymological data showing that only FrxA is active with nitrofurans. MIC levels for furazolidone- and nitrofurantoin-resistant strains of H. pylori are in the 4-µg/ml range (16, 19), suggesting that genes other than frxA are involved in this low-level resistance to nitrofurans.
We isolated H. pylori mutants resistant to NTZ (MIC, 8 to 16 µg/ml). One of these strains contained an rdxA null allele (frame shift) and displayed high-level Mtz resistance (32 µg/ml). Susceptibility to both NTZ and MTZ was restored by introduction of a functional rdxA gene on a shuttle plasmid, indicating that cross-resistance to NTZ is conferred by mutations that cause MTZ resistance, a result that disagrees with an earlier assessment of NTZ (21). No cross-resistance between nitrofurans and MTZ was found however, since laboratory-induced mutations in rdxA and frxA did not increase resistance to nitrofurans (19). It is curious, however, that all nitrofuran-resistant clinical isolates studied to date are also resistant to MTZ (19). Perhaps rdxA inactivation confers some selective advantage during exposure to nitrofurans in vivo, or perhaps these strains have acquired additional mutations affecting drug transport or efflux or having subtle effects on POR substrate ranges that do not abolish its essential enzyme activity.
Mechanism of action of NTZ and nitrofurans. The antimicrobial action of nitrofurans, nitrothiazoles, and nitroimidazoles is generally believed to result from a 4-electron reduction of the 5-nitro group to short-lived redox active intermediates, including hydroxylamine adducts that are biologically active (7, 12, 22). We had found that MTZ reduction leads to transversion and transition base mutations and sufficient DNA fragmentation to cause lethality (29). The lack of DNA fragmentation by nitrofurans and NTZ suggests that the activated forms of these drugs act differently from MTZ. Furthermore, NTZ was not mutagenic for either H. pylori or E. coli strains expressing enzymes that activate NTZ. We confirmed here previous studies showing that the nitrofurans were weakly mutagenic (Ames test), but less so than MTZ (7, 32). Based on the relatively high specific activity of POR, RdxA, and FrxA for NTZ, we suggest that NTZ killing involves competition for reducing equivalents and disruption of bioenergetic processes. For example, NTZ reduction by the nitroreductases might drain cellular NADPH pools; in the case of POR, reducing equivalents generated from the oxidative decarboxylation of pyruvate would not be available for NADP reduction, the recipient of its generation (15). Also tenable, however, are models in which NTZ or nitrofuran activation generates novel biologically active intermediates that target a different enzyme function or process.
NTZ exhibits broad-spectrum activity against anaerobic bacteria in general (6) and against parasites such as Giardia, Entamoeba, Trichomonas, Cryptosporidium (27), and helminths. This suggests a common mechanism of action: our preliminary studies indicate that pyruvate:ferredoxin oxidoreductase is the target of action of NTZ in Trichomonas vaginalis, E. histolytica, and Clostridium perfringens (9).
In summary, we have identified three enzymes in H. pylori that activate NTZ, a promising therapeutic agent with a broad spectrum of activity against microaerobic bacteria, anaerobic protozoa, anaerobic bacteria, and helminths. Our development of a spectrometric assay for NTZ reduction should aid the identification of redox active enzymes in other susceptible pathogens that also mediate reduction of NTZ. Our work also suggests that the mode of action of NTZ differs from that of MTZ but may overlap with that of the nitrofurans. The inability of H. pylori to mutate to high or clinically significant levels of resistance to NTZ and the lack of mutagenicity of this agent especially emphasize its potential utility in combination therapies to treat H. pylori infections worldwide.
This research was supported grants from the Canadian Institutes for Health Research (MT11318, RP14292, and ROP37514), Astrazeneca Canada, and Romark Laboratories to P.S.H. and grants from the U.S. Public Health Service (AI38166, AI49161, DK53727, and P30 DK52574) to D.E.B.
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