Originally published In Press as doi:10.1074/jbc.M307625200 on September 2, 2003
J. Biol. Chem., Vol. 278, Issue 45, 44424-44428, November 7, 2003
Discovery of a Small Molecule That Inhibits Cell Division by Blocking FtsZ, a Novel Therapeutic Target of Antibiotics*
Jun Wang
,
Andrew Galgoci,
Srinivas Kodali,
Kithsiri B. Herath,
Hiranthi Jayasuriya,
Karen Dorso,
Francisca Vicente,
Antonio González,
Doris Cully,
David Bramhill, and
Sheo Singh
From the
Department of Human and Animal Infectious Disease and Department of Medicinal Chemistry, Merck Research Laboratories, Rahway, New Jersey 07065
Received for publication, July 15, 2003
, and in revised form, August 29, 2003.
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ABSTRACT
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The emergence of bacterial resistance to antibiotics is a major health problem and, therefore, it is critical to develop new antibiotics with novel modes of action. FtsZ, a tubulin-like GTPase, plays an essential role in bacterial cell division, and its homologs are present in almost all eubacteria and archaea. During cell division, FtsZ forms polymers in the presence of GTP that recruit other division proteins to make the cell division apparatus. Therefore, inhibition of FtsZ polymerization will prevent cells from dividing, leading to cell death. Using a fluorescent FtsZ polymerization assay, the screening of >100,000 extracts of microbial fermentation broths and plants followed by fractionation led to the identification of viriditoxin, which blocked FtsZ polymerization with an IC50 of 8.2 µg/ml and concomitant GTPase inhibition with an IC50 of 7.0 µg/ml. That the mode of antibacterial action of viriditoxin is via inhibition of FtsZ was confirmed by the observation of its effects on cell morphology, macromolecular synthesis, DNA-damage response, and increased minimum inhibitory concentration as a result of an increase in the expression of the FtsZ protein. Viriditoxin exhibited broad-spectrum antibacterial activity against clinically relevant Gram-positive pathogens, including methicillin-resistant Staphylococcus aureus and vancomycin-resistant Enterococci, without affecting the viability of eukaryotic cells.
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INTRODUCTION
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Bacterial infection is a global health hazard. There are a number of very good clinically efficacious antibiotics in use today; however, because bacteria render almost all of these antibiotics less effective because of the development of resistance, new antibiotics with novel mechanisms of action are needed to overcome the emerging resistance problem. To date, there are
150670 essential proteins that have been identified in bacteria as potential drug targets (15). Of those, only 15 are proven therapeutic targets. To overcome resistance, existing antibiotics have been modified extensively in an attempt to maintain activity against their targets. Because efficacious modification is becoming increasingly difficult, targeting new, unexplored essential proteins to identify new classes of small molecular weight compounds is critical for the discovery of new, non-cross resistant antibacterial agents. FtsZ is a GTPase and an essential protein for cell division with homologs in almost all species of eubacteria and archaea (68). FtsZ shows limited sequence similarity to tubulin; however, the three-dimensional structure of FtsZ shows significant similarities with
and
tubulin (9). FtsZ is the most abundant of all bacterial cell division proteins, totalling
10,00020,000 copies per single bacterium (10). During vegetative growth, bacterial cells divide into two identical copies. The first stage in the cell replication process is localization of the FtsZ protein at the site of cell division where self-polymerization occurs. The polymerized FtsZ recruits other cell division proteins, including FtsA (1113), ZipA (14, 15), FtsK (16), FtsQ (17, 18), FtsL (19, 20), FtsW (21, 22), FtsI (22, 23), and FtsN (24), either by direct physical interaction or by secondary protein-protein interactions, leading to the formation of a Z-ring and the initiation of the complex process of septation. All of these cell division proteins are localized at mid-cell, working in concert to constrict the cell and resulting in cell division. Because FtsZ is essential for bacterial cell division and shows a high degree of similarity among bacterial species, it presents an excellent novel target for antibacterial drug discovery. In this study, we identified viriditoxin as an inhibitor of bacterial cell division and studied its mechanism of action and broad-spectrum antibacterial properties.
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EXPERIMENTAL PROCEDURES
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Isolation, Purification, and Identification of ViriditoxinAspergillus sp. (MF6890) was isolated from herbivore dung collected in Arizona. It was grown on a seed medium consisting of 4 g of yeast extract, 8 g of malt extract, 4 g of glucose, and 1.5 g of junlon (Nihon Junyaku Co. Ltd, Tokyo, Japan) in 1 liter of distilled water at pH 7.0. After 4 days, it was transferred to a vermiculite-based production medium consisting of (per liter) 150 g of glucose, 20 g of glycerol, 4 g of yeast extract, 1 g of sodium nitrate, 3 g of monosodium glutamate, 0.5 g of Na2HPO4, 1 g of MgSO4.7H2O, and 8 g of CaCO3. The fermentation broth was extracted with methyl ethyl ketone and successively chromatographed on Sephadex LH 20 in methanol followed by reversed phase high pressure liquid chromatography affording 2 mg/liter of viriditoxin. The structure of viriditoxin was elucidated by 1H, 13C, and two-dimensional NMR methods and mass spectral studies.
Protein PurificationFtsZ and FtsZT65C were purified as described (25) with some modification. Briefly, BL21(DE3)pLysS (Novagen) was transformed with plasmid pET11a-ftsZwt or pET11a-ftsZT65C and induced by adding 1 mM IPTG1 to mid-log culture (A600 = 0.5
0.6). Cultures were harvested after 1 h at 37 °C. To purify FtsZ and FtsZT65C, the cells were allowed to lyse for 30 min at 0 °C in Buffer A (40 mM Tris-Cl, pH 8.0, 5 mM EDTA, 140 mM NaCl, and 10% sucrose) containing 1 mg/ml lysozyme and Complete protease inhibitor cocktail (Roche Applied Science). The lysed cells were then sonicated with four 30-s bursts using a microprobe. After centrifugation at 40,000 rpm in a 45 Ti rotor for 1 h at 4 °C, the supernatant was adjusted to 10 mM MgCl2, solid ammonium sulfate was added (0.17 g/ml), and the cells were centrifuged for 1 h again. Ammonium sulfate pellets of FtsZwt (wild type) were resuspended in Buffer B (100 mM Tris-Cl, pH 7.4, 5 mM MgCl2, 80 mM KCl, and 10% glycerol) while ammonium sulfate pellets of FtsZT65C were suspended in buffer B with 1 mM reducing agent Tris-(2-carboxyethyl)phosphine hydrochloride (TCEP-HCl). FtsZwt or FtsZT65C was loaded separately onto a DEAE-Sepharose Fast Flow column (Amersham Biosciences) and eluted with a KCl gradient from 80 to 600 mM KCl. The fractions were analyzed by SDS-gel electrophoresis. The FtsZ- or FtsZT65C-containing fractions were pooled and concentrated using Amicon. The fluorescein-labeled FtsZT65C was prepared by incubating the purified FtsZT65C with 2 mM fluorescein iodoacetamide for 25 min in the same buffer on ice, and the free dye was removed by using a Sephadex G25 column. All proteins were aliquoted and stored at 80 °C.
FtsZ Polymerization AssayThe assay was done as described previously (25) with a minor modification. Briefly, the NUNC 96-well Silent Screen filter plates were pre-washed with wash Buffer C (100 mM Tris-Cl, pH 7.4, 67.5 mM KCl, 1.5 mM magnesium acetate, and 0.1% Tween.) followed by centrifugation at 3,000 rpm at room temperature for 15 min in a Beckman tabletop centrifuge. The fluorescence-labeled FtsZT65C (FtsZT65C-fluorescein) was pre-centrifuged at 100,000 x g for 20 min at 4 °C to removes any pre-existing polymers. The FtsZ polymerization assay was done by mixing 1 µM fluorescence-labeled FtsZT65C with a serial dilution of inhibitors in 200 µl of Buffer D (50 mM Tris pH 7.4, 34 mM KCl, 0.75 mM magnesium acetate, 2.5 mM CaCl2, 0.5 mM GTP, and 2% Me2SO) and initiated with 50 µg/ml DEAE-dextran. After incubation at 37 °C for 15 min, the filter plates were centrifuged at 3,000 rpm for 15 min, and the fluorescence units were read on the Tecan SpectraFluor with 485/535-nm filters. The range of reading was between 3,000 and 40,000 fluorescence units. IC50 was determined using Prism Graph.
GTPase AssayGTPase activity was measured and analyzed as described (25, 26) with a small modification. Briefly, this assay was performed at 37 °C in a 50-µl buffer containing 50 mM Tris, pH 7.4, 34 mM KCl, 0.75 mM magnesium acetate, 2.5 mM CaCl2, 50 µg/ml DEAE-dextran, 2% Me2SO, GTP, and pre-centrifuged FtsZ or FtsZT65C-fluorescein. The concentrations of GTP and the proteins as well as the time of the reaction are indicated in the legends to Figs. 3, 4, 5. Assays were stopped by the addition of activated charcoal, and the supernatant was counted.

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FIG. 3. Mechanistic similarities between wild type FtsZ and FtsZT65C-fluorescein GTPase activities. Purified recombinant wild type FtsZ ( ) and FtsZT65C-fluorescein (), both at 1 µM, were assayed at the increasing concentrations of GTP shown on the abscissa. A trace amount of [ -32P]GTP (PerkinElmer Life Sciences) was added and yielded 119 cpm/pmol GTP. The GTP hydrolysis was initiated by adding FtsZ or FtsZT65C-fluorescein at 37 °C for 10 and 15 min, respectively. The concentrations of FtsZ and FtsZT65C-fluorescein were based on protein concentration corrected for purity as determined by SDS-gel electrophoresis. GTP concentration was adjusted by OD252 ( = 13.7/mM/cm, pH 7.0). Data (in duplicate) were fit to the MichaelisMenten equation as well as to a Hanes-Wolff plot (inset) using Prism Graph. Three similar experiments with FtsZT65C-fluorescein yielded Km = 19.6 ± 2.2, 17.6 ± 2.2, and 22 ± 2.2 µM, with Vmax = 1.17 ± 0.05, 1.15 ± 0.04, and 1.13 ± 0.04 mol of Pi/mol of FtsZ/min. Two experiments with wild type FtsZ yielded Km = 19.9 ± 2.5 and 18.5 ± 2.4, with Vmax = 1.35 ± 0.05 and 1.45 ± 0.04 mol of Pi/mol of FtsZ/min.
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FIG. 5. Effect of viriditoxin on GTPase activity of FtsZ. GTP hydrolysis was described in the legend of Fig. 3 and under "Experimental Procedures." In this study, GTPase activity was measured at 37 °C for 15 min with the addition of a serial dilution of viriditoxin. The final concentration of GTP was 40 µM with the addition of a trace amount of [ -32P]GTP, yielding 85.6 cpm/pmol. Similar experiments were performed twice in duplicate providing IC50 values of 6.6 ± 1.3 and 7.4 ± 1.4 µg/ml, respectively.
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Morphology AssayCell morphology was observed with an inverted microscope, Axiovert 135M (Zeiss), at 20 x 650 magnification.
Minimum Inhibitory Concentration (MIC)The MIC against each of the strains was determined according to the National Committee for Clinical Laboratory Standards guidelines. MIC is defined as the lowest concentration of antibiotic inhibiting visible growth.
Whole Cell-labeling AssayThe effect of viriditoxin on macromolecular synthesis was performed as described (27).
MIC Assay with FtsZ ExpressionA permeable (envA) BL21(DE3)pLysS-derivative Escherichia coli strain was constructed using standard P1 transduction methodology (28), utilizing a Tn10 transposon linked to the envA1 gene (29). The cells were transformed with the plasmid pET11a-ftsZT65C. The MICs of viriditoxin against the transformed cells were assayed at increasing concentrations of IPTG in LB medium containing 25 µg/ml of ampicillin and 5 µg/ml chloramphenicol at 37 °C for 20 h. All reagents were purchased from Sigma unless indicated otherwise.
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RESULTS AND DISCUSSION
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A high-throughput FtsZT65C-fluorescein polymerization assay has been developed (25) for identification of novel inhibitors. Using this assay, we screened >100,000 extracts of microbial fermentation broths and plants, getting a hit rate of 0.043%. All the active extracts were tested secondarily for filament morphology and also in an SOS induction assay (30) to further refine the quality of the actives providing only eight promising hits. Although many of these are still under active investigation, bioassay-guided purification of one of the most promising active extracts derived from an Aspergillus sp. led to the isolation of viriditoxin (Fig. 1), which was first reported in 1971 from Aspergillus viridinutans (31). At the time of original discovery, the structure of viriditoxin was incorrectly assigned and was reported to have an LD50 of 2.8 mg/kg to mice (31). The structure was corrected in 1990 (32). The spectral data (NMR, mass spectroscopy, and UV) of the isolated compound was identical to the reported data of viriditoxin (32). However, a subsequent report in 1976 suggested that it showed a lower level of toxicity to pregnant mice at up to 3.5 mg/kg for 10 days (33). Interestingly, it was reported that it had little effect on prenatal survival or growth (33).
The activity of purified viriditoxin was first confirmed in the FtsZT65C-fluorescein polymerization assay. It inhibited the polymerization with an IC50 average value of 8.2 µg/ml (n = 3) (Fig. 2).

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FIG. 2. Effect of viriditoxin on FtsZ polymerization. A serial dilution of viriditoxin at final concentrations of 2000.0002 µg/ml was used. Similar experiments were done three times in duplicate, and IC50 values were 8.0 ± 1.3, 7.3 ± 1.3 and, 9.2 ± 1.4 µg/ml, respectively.
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To confirm that viriditoxin inhibits wild type FtsZ polymerization, we compared the GTPase activity of the wild type FtsZ directly with FtsZT65C-fluorescein. For this study, we used purified wild type FtsZ and FtsZT65C-fluorescein. The Km values for GTP of wild type FtsZ and FtsZT65C-fluorescein are similar, providing an average value of 19.4 µM (n = 2) and 19.7µM (n = 3), respectively. The Vmax of FtsZT65C-fluorescein is 1.15 mol of Pi/mol of protein/min, whereas the Vmax of wild type FtsZ is 1.40 mol of Pi/mol of protein/min (an 18% difference; Fig. 3). The Km of wild type FtsZ was comparable with data reported in previous publications (34), and the Vmax of wild type FtsZ was also comparable with published data (35), although the assay conditions were not identical. At a fixed concentration of 40 µM GTP with 1 µM wild type FtsZ or 1 µM FtsZT65C-fluorescein, at 37 °C, the t
values of steady-state GTP hydrolysis were 11.7 and 15.9 min, respectively (Fig. 4). Because GDP/GTP exchange (35) is not rate-limiting, the apparent rate constants of GTP hydrolysis of both wild type FtsZ and FtsZT65C-fluorescein are apparently 0.059 and 0.043 min1, respectively, further indicating that both proteins have similar GTPase properties.
Because the polymerization of FtsZ is GTP-dependent and the GTPase activity of FtsZ is activated by self-polymerization (34), we first measured GTP hydrolysis under conditions in which the polymerization of FtsZT65C-fluorescein was not detectable (0.2µM FtsZT65C-fluorescein; Fig. 4,
). GTP hydrolysis in 120 min was only 2 mol per mol of protein. Second, we tested the effect of viriditoxin on GTPase activity with prepolymerized FtsZT65C-fluorescein (Fig. 4,
). In the presence of 200 µg/ml viriditoxin, GTP hydrolysis was 2 mol per mol of protein in 120 min, consistent with the near total inhibition of polymerization by this level of viriditoxin. In contrast, the GTP hydrolysis of both wild type FtsZ and FtsZT65C-fluorescein under identical conditions but without the inhibitor was 32.7 and 33.7 mol per mol of protein, respectively (Fig. 4,
and ). Titration of viriditoxin into the GTP hydrolysis assay (Fig. 5) yielded an average IC50 of 7.0 µg/ml (n = 2).
To measure directly the effect of viriditoxin on cell division, a morphology assay was employed (36). Highly permeable E. coli (MB5431) cells lacking the SulA protein, the natural inhibitor of FtsZ polymerization and GTPase that is normally induced by the SOS response leading to filamentation (36), were used to reduce the likelihood of any inhibitors of DNA replication causing an indirect block of cell division. Mid-log (A600 = 0.3) MB5431 cells were treated with the addition of a serial dilution of viriditoxin for 75 min. The cells were observed under a microscope for the formation of filaments. The viriditoxin-treated cells formed filaments at 50 (Fig. 6A) as well as at 12.5, 25, and 100 µg/ml (data not shown). Without viriditoxin treatment, cells in mid-log did not form filaments (Fig. 6B). For comparison, we tested a strain in which SulA production is under lac promoter control. The strain, HMS174 (DE3, plysS) containing pET11-SulA, was grown to log phase and then induced with IPTG for 75 min, resulting in morphological behavior similar to what was seen with viriditoxin-treated cells (Fig. 6C). Without induction by IPTG, the cells did not form filaments (Fig. 6D).

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FIG. 6. Effect of viriditoxin on cell division.
A and B, an overnight culture of the SOS negative, sulA K12-derivative E. coli strain MB5431 (sulA::MUD, uvrA155, envA, Tn10, lexA102) was diluted in fresh LB broth (A600 = 0.1) and cultured at 37 °C for 1 h with shaking at 200 rpm (A600 03). A serial dilution of viriditoxin was added to the culture, and the cells were further cultured at 37 °C with constant shaking for 75 min. For panel A, treatment was with 50 µg/ml of viriditoxin in 2% Me2SO; for panel B, treatment was with 2% Me2SO (control). C and D, strain HMS174 (DE3, pLysS; Novagen) containing pET11-SulA (36). In panel C, mid-log (A600 = 0.6) cultured cells were induced by the addition of 1 mM IPTG for 75 min. In panel D, mid-log culture cells were used as control.
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To confirm that viriditoxin interacts with FtsZ in bacteria, we performed a MIC assay with the permeable E. coli-bearing pET11a-ftsZT65C. First, we tested the lethal dose of IPTG induction without the addition of viriditoxin and found that 8 µM IPTG had little effect (10% decrease) on the viability of the transformed cells under the conditions described under "Experimental Procedures." The concentrations of IPTG below 8 µM did not affect cell growth and viability. Second, we tested the effect of the expression of FtsZ on MICs of viriditoxin using a serial dilution of IPTG at final concentrations of 8, 4, 2, 1, 0.5, and 0.25 µM. Without the addition of IPTG, the MIC of viriditoxin was 25 µM. With the addition of 0.25, 0.5, or 1 µM IPTG, the MIC increased to 50 µM. At 2, 4, or 8 µM IPTG, the MIC increased to 100 µM. The experiment was repeated twice with standard controls of antibiotics.
Lastly, viriditoxin was evaluated for its effect against clinically relevant bacterial pathogens. The MIC values of viriditoxin are shown in Table I. It inhibited the growth of various strains of methicillin-sensitive and methicillin-resistant Staphylococcus aureus with MIC values of 48 µg/ml. The growth of methicillin-sensitive and resistant coagulase negative strains of Staphylococcus was inhibited with similar MIC values. Viridotoxin showed MIC values of 216 µg/ml against various strains of vancomycin-sensitive and vancomycin-resistant Enterococcus faecalis and Enterococcus faecium. It inhibited the growth of all drug-resistant strains of Staphylococcus, Enterococcus, and Streptococcus pneumoniae tested including quinolone-, tetracycline-, macrolide-, penicillin-, and ciprofloxacin-resistant strains with MICs similar to comparable drug-sensitive strains (232 µg/ml). Although the MIC of viriditoxin was >64 µg/ml against a wild type E. coli strain (MB2884), it did show inhibitory activity against the permeable (envA) Gram-negative strain (E. coli, MB5431) with a MIC value of 25 µg/ml, indicating that penetration plays a role in the insensitivity of the compound of Gram-negative bacterial strains. In comparison, it did not show activity against Candida albicans (MIC >64 µg/ml) and human HeLa cells (MTS, IC50 >66.7 µg/ml), indicating a selectivity for prokaryotic over eukaryotic cells.
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TABLE I MIC (µg/ml) against antibiotic resistant clinical strains
The abbreviations used in this table include the following: CAMHB, cation-adjusted Mueller Hinton broth; CFU, colony-forming units; cipro, ciprofloxacin; eryth, erythromycin; mac, macrolide; MR, methicillin-resistant; MRSA, methicillin-resistant Staphylococcus aureus; MS, methicillin-sensitive; MSSA, methicillin-sensitive Staphylococcus aureus; pen, penicillin; quin, quinolone; R (superscript), resistant; S (superscript), sensitive; tet, tetracycline; van, vancomycin.
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Our in vitro results indicated that viriditoxin inhibits FtsZ polymerization and GTPase activity. To our knowledge, this is the first small organic non-peptide molecule (molecular mass, 662 Da) shown to act as a cell division inhibitor by blocking FtsZ polymerization. Because the three-dimensional structure of FtsZ is strikingly similar to tubulin, we titrated the known tubulin inhibitors (albendazole, colchicine, nocodazole, paclitaxel, 3-methoxybenzamide, and thiabendazole) in FtsZ polymerization and GTPase assays. Up to 167 µg/ml, none of these compounds showed any inhibition of FtsZ polymerization or GTPase activity in vitro (data not shown), thus differentiating the FtsZ from tubulin and the viriditoxin from classical tubulin inhibitors. The results obtained from the whole cell experiments, particularly the filamentation experiment with the E. coli (SOS, SulA) strain, showed that filaments were not formed because of DNA damage and confirmed the target selectivity of viriditoxin. Viriditoxin was not active (data not shown) in a modified SOS chromo test (30), further corroborating that it was not involved in DNA damage. The increased MIC by induction of FtsZ expression indeed gives solid evidence that viriditoxin interacts with FtsZ in the cell. In whole cell labeling experiments using wild type S. aureus MB2985 (MIC = 3.25 µg/ml) and the permeable E. coli MB5431 (MIC = 25 µg/ml), viriditoxin did not block DNA, RNA, protein, fatty acid, and cell wall synthesis (for all macromolecular syntheses in both strains the IC50 was >100 µg/ml; data not shown), further supporting the activity as a result of a new mode of action. The broad-spectrum antibacterial activity of this compound, including methicillin-resistant S. aureus, vancomycin-resistant Enterococci, and other antibiotic resistant strains, would indicate that the activity of this compound is due to blockage of a new target, i.e. FtsZ. Furthermore, although viriditoxin was identified initially by its activity against the purified E. coli (Gram-negative) FtsZ protein, the in vivo activity of viriditoxin against many Gram-positive bacteria indicates a high functional conservation of the target in these clinically important species. Presumably, the structure of the FtsZ molecule is very highly conserved in the pocket that is engaged by viriditoxin, and this may limit the ability to develop resistance in the target. Although viriditoxin may not be a drug itself, it could be a lead for drug discovery as well as an important tool for biological studies in the field of cell division.
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FOOTNOTES
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* The costs of publication of this article were defrayed in part by the payment of page charges. This article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. Section 1734 solely to indicate this fact. 
To whom correspondence should be addressed. Merck & Co., Inc., P. O. Box 2000, R80Y-205, Rahway, NJ 07065. Tel.: 732-594-2776; Fax: 732-594-1399; E-mail: jun_wang2{at}merck.com.
1 The abbreviations used are: IPTG, isopropyl-1-thio-
-D-galactopyranoside; MIC, minimum inhibitory concentration; MTS, 3-(4,5-dimethylthiazol-2yl)-5-(3-carboxymethoxyphenyl)-2-(4-sulfophenyl)-2H-tetrazolium, inner salt; wt, wild type. 
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ACKNOWLEDGMENTS
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We are grateful to Drs. Lynn Silver, Zhiqiang An, Karen Overbye, and John Barrett for the critical reading of the manuscript. We thank Ms. Katherine Young and Mr. Ronald Painter for their help and the gift of the permeable BL21(DE3)pLysS strain. We also thank Dr. Guy Harris and Ms. Tamara Connelly for their contribution to the program.
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