Simulation of Radiation-Induced DNA Damage and Protection by Histones Using the Code RITRACKS

IF 2.7 Q3 BIOTECHNOLOGY & APPLIED MICROBIOLOGY
BioTech Pub Date : 2024-06-05 DOI:10.3390/biotech13020017
Ianik Plante, Devany W. West, Jason Weeks, Viviana I. Risca
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引用次数: 0

Abstract

(1) Background: DNA damage is of great importance in the understanding of the effects of ionizing radiation. Various types of DNA damage can result from exposure to ionizing radiation, with clustered types considered the most important for radiobiological effects. (2) Methods: The code RITRACKS (Relativistic Ion Tracks), a program that simulates stochastic radiation track structures, was used to simulate DNA damage by photons and ions spanning a broad range of linear energy transfer (LET) values. To perform these simulations, the transport code was modified to include cross sections for the interactions of ions or electrons with DNA and amino acids for ionizations, dissociative electron attachment, and elastic collisions. The radiochemistry simulations were performed using a step-by-step algorithm that follows the evolution of all particles in time, including reactions between radicals and DNA structures and amino acids. Furthermore, detailed DNA damage events, such as base pair positions, DNA fragment lengths, and fragment yields, were recorded. (3) Results: We report simulation results using photons and the ions 1H+, 4He2+, 12C6+, 16O8+, and 56Fe26+ at various energies, covering LET values from 0.3 to 164 keV/µm, and performed a comparison with other codes and experimental results. The results show evidence of DNA protection from damage at its points of contacts with histone proteins. (4) Conclusions: RITRACKS can provide a framework for studying DNA damage from a variety of ionizing radiation sources with detailed representations of DNA at the atomic scale, DNA-associated proteins, and resulting DNA damage events and statistics, enabling a broader range of future comparisons with experiments such as those based on DNA sequencing.
使用 RITRACKS 代码模拟辐射诱导的 DNA 损伤和组蛋白的保护作用
(1) 背景:DNA 损伤对于了解电离辐射的影响非常重要。暴露于电离辐射可导致各种类型的 DNA 损伤,其中聚类损伤被认为对辐射生物学效应最为重要。(2) 方法:RITRACKS(相对论离子轨道)代码是一个模拟随机辐射轨道结构的程序,用于模拟光子和离子对DNA的损伤,其线性能量传递(LET)值范围很广。为了进行这些模拟,对传输代码进行了修改,以包括离子或电子与 DNA 和氨基酸在电离、离解电子附着和弹性碰撞时的相互作用截面。放射化学模拟采用逐步算法,跟踪所有粒子的时间演变,包括自由基与 DNA 结构和氨基酸之间的反应。此外,还记录了详细的 DNA 损伤事件,如碱基对位置、DNA 片段长度和片段产量。(3) 结果:我们报告了在不同能量下使用光子和离子 1H+、4He2+、12C6+、16O8+ 和 56Fe26+ 的模拟结果,涵盖了从 0.3 到 164 keV/µm 的 LET 值,并与其他代码和实验结果进行了比较。结果表明,有证据表明 DNA 与组蛋白的接触点受到了保护,免受损伤。(4) 结论:RITRACKS 可为研究各种电离辐射源造成的 DNA 损伤提供一个框架,详细描述原子尺度上的 DNA、DNA 相关蛋白以及由此产生的 DNA 损伤事件和统计数据,从而在未来与 DNA 测序等实验进行更广泛的比较。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
BioTech
BioTech Immunology and Microbiology-Applied Microbiology and Biotechnology
CiteScore
3.70
自引率
0.00%
发文量
51
审稿时长
11 weeks
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