TOPAS-nBio validation for simulating water radiolysis and DNA damage under low-LET irradiation. (3rd September 2021)

• Record Type: Journal Article
• Authors: Ramos-Méndez, J; LaVerne, J A; Domínguez-Kondo, N; Milligan, J; Štěpán, V; Stefanová, K; Perrot, Y; Villagrasa, C; Shin, W-G; Incerti, S; McNamara, A; Paganetti, H; Perl, J; Schuemann, J; Faddegon, B
• Is Part Of: Physics in medicine & biology. Volume 66:Number 17(2021)
• Publication Date: 2021-09-03
• Subjects: TOPAS-nBio -- validation -- radiation chemistry -- track structure -- DNA damage -- plasmid DNA -- Geant4-DNA; Biophysics -- Periodicals; Medical physics -- Periodicals; 610.153
• DOI: 10.1088/1361-6560/ac1f39
• Languages: English
• ISSNs: 0031-9155

Abstract

Abstract: The chemical stage of the Monte Carlo track-structure simulation code Geant4-DNA has been revised and validated. The root-mean-square (RMS) empirical parameter that dictates the displacement of water molecules after an ionization and excitation event in Geant4-DNA has been shortened to better fit experimental data. The pre-defined dissociation channels and branching ratios were not modified, but the reaction rate coefficients for simulating the chemical stage of water radiolysis were updated. The evaluation of Geant4-DNA was accomplished with TOPAS-nBio. For that, we compared predicted time-dependent G values in pure liquid water for · OH, e – aq, and H2 with published experimental data. For H2 O2 and H ·, simulation of added scavengers at different concentrations resulted in better agreement with measurements. In addition, DNA geometry information was integrated with chemistry simulation in TOPAS-nBio to realize reactions between radiolytic chemical species and DNA. This was used in the estimation of the yield of single-strand breaks (SSB) induced by 137 Cs γ -ray radiolysis of supercoiled pUC18 plasmids dissolved in aerated solutions containing DMSO. The efficiency of SSB induction by reaction between radiolytic species and DNA used in the simulation was chosen to provide the best agreement with published measurements. An RMS displacement of 1.24 nm provided agreement with measured data within experimental uncertainties for time-dependent G values and under the presence of scavengers. SSB efficiencies of 24% and 0.5% for · OH and H ·, respectively, led to an overall agreement of TOPAS-nBio results within experimental uncertainties. The efficiencies obtained agreed with values obtained with published non-homogeneous kinetic model and step-by-step Monte Carlo simulations but disagreed by 12% with published direct measurements. Improvement of the spatial resolution of the DNA damage model might mitigate such disagreement. In conclusion, with these improvements, Geant4-DNA/TOPAS-nBio provides a fast, accurate, and user-friendly tool for simulating DNA damage under low linear energy transfer irradiation.