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Parallel High Throughput Single Molecule Kinetic Assay for Site-Specific DNA Cleavage
Published on: May 6, 2020
Modulation of gyrase-mediated DNA cleavage and cell killing by ATP
1Department of Pharmacology, University of Medicine and Dentistry of New Jersey-Robert Wood Johnson Medical School, Piscataway 08854, USA.
Abstract:
An uncoupler of oxidative phosphorylation, 2,4-dinitrophenol, and an aconitase inhibitor, fluoroacetic acid, both of which are known to lower the cellular ATP pool, protected Escherichia coli cells from the bactericidal actions of gyrase poisons including quinolone antibiotics, nalidixic acid and ciprofloxacin, and the epipodophyllotoxins VP-16 and VM-26. Using purified E. coli DNA gyrase, we examined the effect of ATP on gyrase-mediated DNA cleavage in the presence of these gyrase poisons. ATP was shown to stimulate gyrase-mediated DNA cleavage from 10- to more than 100-fold in the presence of these gyrase poisons. ADP antagonized the stimulatory effect of ATP. Consequently, gyrase-mediated DNA cleavage induced by gyrase poisons is modulated by the ATP concentration/ADP concentration ([ATP]/[ADP]) ratio. Coumermycin A1, an inhibitor of the ATPase subunit of DNA gyrase, like ADP, also effectively antagonized the stimulatory effect of ATP on gyrase-mediated DNA cleavage induced by gyrase poisons. Furthermore, coumermycin A1, like DNP and fluoroacetic acid, also protected cells from the bactericidal action of gyrase poisons. In the aggregate, our results are consistent with the notion that the [ATP]/[ADP] ratio, through its modulatory effect on the gyrase-mediated DNA cleavage, is an important determinant of cellular susceptibility to gyrase poisons.
Insights
Cellular ATP levels regulate bacterial susceptibility to gyrase poisons like antibiotics. Lowering ATP protects E. coli from these bactericidal agents by modulating DNA gyrase activity.
Area of Science:
- Microbiology
- Molecular Biology
- Biochemistry
Background:
- Gyrase poisons, including quinolone antibiotics and epipodophyllotoxins, are bactericidal agents.
- Cellular energy status, particularly the ATP pool, may influence bacterial response to these agents.
Purpose of the Study:
- To investigate the role of cellular ATP levels in the bactericidal action of gyrase poisons.
- To elucidate the mechanism by which ATP influences DNA gyrase activity in the presence of these poisons.
Main Methods:
- Utilized Escherichia coli cells and purified E. coli DNA gyrase.
- Assessed the protective effects of ATP-lowering agents (2,4-dinitrophenol, fluoroacetic acid) against gyrase poisons.
- Examined the impact of ATP and ADP concentrations on gyrase-mediated DNA cleavage in vitro.
Main Results:
- ATP significantly stimulates gyrase-mediated DNA cleavage in the presence of quinolones and epipodophyllotoxins.
- The ATP/ADP ratio modulates DNA cleavage, with higher ratios increasing cleavage.
- Coumermycin A1, an ATPase inhibitor, antagonized ATP's effect and protected cells, similar to ATP-lowering agents.
Conclusions:
- Cellular susceptibility to gyrase poisons is determined by the ATP/ADP ratio.
- This ratio modulates gyrase-mediated DNA cleavage, impacting bacterial survival.
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