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CmtDNA: A Geometrical Model of the Circular Mitochondrial DNA Configuration for Evaluation of Radiation-Induced Damage

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M Tavakoli

M Tavakoli*, H Moradi , H Khanahmad , M Hosseini , Isfahan university of Medical Sciences, Isfahan, Isfahan


SU-I-GPD-T-90 (Sunday, July 30, 2017) 3:00 PM - 6:00 PM Room: Exhibit Hall

Purpose: The aim of this study was to develop an open source nucleotide geometrical model of the circular mitochondrial DNA (mt-DNA)structure using Geant4-DNA toolkit to predict the radiation induced damages such as single-strand breaks (SSB), double strand breaks and some other physical parameters.

Methods: Our model covers the organization of a circular human mitochondrial genetic system. The current model includes all 16,659 base pairs of human mitochondrial DNA. An optimization process is used to determine the geometrical dimensions of the structure. This new mt-DNA model has been preliminarily tested in this work by determining SSB and DSB DNA damage yields and site-hit probabilities due to the impact of protons particles.

Results: The accuracy of the geometry determined by 3-D visualization in various ring element numbers. SSB and DSB calculation was verified in complete molecular structure. The hit locations were determined with respect to a reference coordinate system, and the corresponding base pairs were stored in the ROOT output file. The coordinate determination according to the algorithm was consistent with the expected results. The output results are containing the information about the energy transfers in the backbone region of the DNA double helix. The output file analyzed by root analyzing tools.

Conclusion: Estimation of single-strand breaks yielded similar results with the increment of incident particle LET. In addition, these values seem to be consistent with the corresponding experimental determinations. This model can be used in numerical simulations of mt-DNA radiation interactions to perform realistic evaluations of DNA–free radical reactions. This work will be extended to supercoiled conformation in the near future.

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