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Kai, Takeshi; Toigawa, Tomohiro; Matsuya, Yusuke*; Hirata, Yuho; Tsuchida, Hidetsugu*; Yokoya, Akinari*
Journal of Chemical Physics, 162(15), p.154102_1 - 154102_11, 2025/04
Times Cited Count:0Scientific knowledge of low-energy electrons resulting from water radiolysis is required to estimate radiation DNA damage. However, since the analysis of water radiolysis is very complex, this study focuses on the experimental values of low-energy electrons related to simple water photolysis and those generated by photoirradiation of electrodes in water. Both experimental analyses involve the presence or absence of a Coulomb field in the parent ion. In this study, we analyzed these experimental values using a calculation code that combines Monte Carlo and molecular dynamics methods. As a result, it was shown that the code reproduced the experimental values even under different experimental conditions, and the code was validated. The calculation code will be a powerful tool for analyzing the interaction between low-energy electrons and DNA, and is expected to be applied to elucidate the formation mechanism of radiation DNA damage.
Kai, Takeshi; Toigawa, Tomohiro; Matsuya, Yusuke*; Hirata, Yuho; Tsuchida, Hidetsugu*; Ito, Yuma*; Yokoya, Akinari*
Communications Chemistry (Internet), 8, p.60_1 - 60_9, 2025/03
Times Cited Count:1 Percentile:0.00(Chemistry, Multidisciplinary)Radiation DNA damage is formed from direct and indirect effects. The direct effect is the interaction between DNA and a radiation, while the indirect effect is the chemical reaction between DNA and radiolytic chemical species. We believed that when the direct effect is induced, multiple lesions are formed within 10 base pairs (about 3.4 nm) of DNA. The damage reduces repair efficiency and induces biological effects. In this study, DNA damage induced by only indirect effects was quantitatively evaluated. Our results indicated that the multiple damage is formed when only 10s of eV energy is deposited to water in the vicinity of DNA, although its formation probability is less than 1%. In other words, the possibility of late biological effects cannot be excluded simply by imparting energy to water in the extreme vicinity of DNA without direct interaction between radiation and DNA. Our results are one of the most important findings for understanding low-dose radiation risk.
Takagi, Honoka*; Yabutsuka, Takeshi*; Hayashida, Hirotoshi*; Song, F.; Kai, Tetsuya; Shinohara, Takenao; Kurita, Keisuke; Iikura, Hiroshi; Yamamoto, Norio*; Nakajima, Minoru*; et al.
Solid State Ionics, 417, p.116716_1 - 116716_7, 2024/12
Times Cited Count:0 Percentile:0.00(Chemistry, Physical)Ogawa, Tatsuhiko; Hirata, Yuho; Matsuya, Yusuke; Kai, Takeshi; Sato, Tatsuhiko; Iwamoto, Yosuke; Hashimoto, Shintaro; Furuta, Takuya; Abe, Shinichiro; Matsuda, Norihiro; et al.
EPJ Nuclear Sciences & Technologies (Internet), 10, p.13_1 - 13_8, 2024/11
The latest updates on PHITS, a versatile radiation transport code, focusing specifically on track-structure models are presented. Track structure calculations are methods used to simulate the movement of charged particles while explicitly considering each atomic reaction. Initially developed for radiation biology, these calculation methods aimed to analyze the radiation-induced damage to DNA and chromosomes. Several track-structure calculation models, including PHITS-ETS, PHITS-ETS for Si, PHITS-KURBUC, ETSART, and ITSART, have been developed and implemented to PHITS. These models allow users to study the behavior of various particles at the nano-scale across a wide range of materials. Furthermore, potential applications of track-structure calculations have also been proposed so far. This collection of track-structure calculation models, which encompasses diverse conditions, opens up new avenues for research in the field of radiation effects.
Matsuya, Yusuke; Kai, Takeshi; Sato, Tatsuhiko
Shototsu, 21(3), p.R008_1 - R008_8, 2024/11
Particle and Heavy Ion Transport code System PHITS is a Monte Carlo code that enables the simulation of the behavior of radiation using a computer. Since 2018, a track-structure mode has been developed that allows the simulation of each atomic interaction in liquid water, which is a main component of living organisms. This development has made it possible to perform high-spatial resolution radiation track-structure analysis on the DNA scale. Meanwhile, based on the spatial information of atomic interactions calculated in the track-structure mode, we have also succeeded in developing an analysis code that enables the estimate of the various types of DNA damage yields efficiently and with high accuracy. In this review, we introduce an overview of the track-structure mode and DNA damage estimation model implemented in the latest version of PHITS, and show examples of applications of PHITS in the field of life sciences.
Tamura, Jun; Kondo, Yasuhiro; Yee-Rendon, B.; Meigo, Shinichiro; Maekawa, Fujio; Kako, Eiji*; Umemori, Kensei*; Sakai, Hiroshi*; Domae, Takeshi*
Proceedings of 32nd Linear Accelerator Conference (LINAC 2024) (Internet), p.496 - 498, 2024/10
Kai, Takeshi; Toigawa, Tomohiro; Matsuya, Yusuke*; Hirata, Yuho; Tezuka, Tomoya*; Tsuchida, Hidetsugu*; Yokoya, Akinari*
Scientific Reports (Internet), 14, p.24722_1 - 24722_15, 2024/10
Times Cited Count:1 Percentile:0.00(Multidisciplinary Sciences)Scientific insight of water radiolysis is essential to estimate the direct and indirect effects of radiation DNA damage. Secondary electrons produced by water radiolysis are responsible for both effects. Here, we use a first-principles code to calculate the femtosecond dynamics of secondary electrons produced as a result of 20-30 eV energy deposition to water and analyze the formation mechanism of radiolytic chemical species produced in a nano-size ultra-small space region. From the results, it was clarified that the chemical species produced by water radiolysis begin to densify in the ultra-small region of a few nanometers when the deposition energy exceeds 25 eV. Our results provide important scientific insights into the formation of clustered DNA damage, which is believed to cause biological effects such as cell death.
Tsuchida, Hidetsugu*; Tezuka, Tomoya*; Kai, Takeshi; Matsuya, Yusuke*; Majima, Takuya*; Saito, Manabu*
Journal of Chemical Physics, 161(10), p.104503_1 - 104503_8, 2024/09
Times Cited Count:0 Percentile:0.00(Chemistry, Physical)Although fast ion beams can damage DNA by chemical products such as secondary electrons produced by their interaction with water in living cells, the process of formation of these chemical products in the Bragg peak region used in particle therapy is not fully understood. To investigate this process, we performed experiments to evaluate the yields of radiolytic products produced when a liquid water jet in vacuum is irradiated with a MeV-energy carbon beam. In addition, ionization processes in water due to incident ions and secondary electrons were simulated using a radiation transport Monte Carlo code. The results indicated that the primary source of ionization in water is secondary electrons. Finally, we show that these elementary processes contribute to the development of radiation biophysics and biochemistry to study the formation mechanism of DNA damage.
Uchida, Kazuto*; Masuda, Tsukuru*; Hara, Shintaro*; Matsuo, Yoichi*; Liu, Y.*; Aoki, Hiroyuki; Asano, Yoshihiko*; Miyata, Kazuki*; Fukuma, Takeshi*; Ono, Toshiya*; et al.
ACS Applied Materials & Interfaces, 16(30), p.39104 - 39116, 2024/07
Times Cited Count:1 Percentile:41.44(Nanoscience & Nanotechnology)Toigawa, Tomohiro; Kai, Takeshi; Kumagai, Yuta; Yokoya, Akinari*
Journal of Chemical Physics, 160(21), p.214119_1 - 214119_9, 2024/06
Times Cited Count:3 Percentile:70.16(Chemistry, Physical)The spur reaction is crucial for determining radiolysis or photolysis in liquid, but the spur expansion process has yet to be elucidated. One reason is the need to understand the role of the dielectric response of the solvating molecules surrounding the charged species generated by ionization. The dielectric response corresponds to the time evolution of the permittivity and might affect the chemical reaction-diffusion of the species in a spur expansion process. This study examined the competitive relationship between reaction-diffusion kinetics and the dielectric response by solving the Debye-Smoluchowski equation while considering the dielectric response. The Coulomb force between the charged species gradually decreases with the dielectric response. Our calculation results found a condition where fast recombination occurs before the dielectric response is complete. Although it has been reported that the primary G-values of free electrons depend on the static dielectric constant under low-linear-energy transfer radiation-induced ionization, we propose that considering the dielectric response can provide a deeper insight into fast recombination reactions under high-linear-energy transfer radiation- or photo-induced ionization. Our simulation method enables the understanding of fast radiation-induced phenomena in liquids.
Rapp, L.*; Matsuoka, Takeshi*; Firestein, K. L.*; Sagae, Daisuke*; Habara, Hideaki*; Mukai, Keiichiro*; Tanaka, Kazuo*; Gamaly, E. G.*; Kodama, Ryosuke*; Seto, Yusuke*; et al.
Physical Review Research (Internet), 6(2), p.023101_1 - 023101_18, 2024/04
It is generally known that irradiating a solid surface with a laser pulse of ultra-relativistic intensity generates a plasma on the surface, which in turn creates an ultrahigh pressure inside. In this study, the crystal structure analysis of high-pressure phases generated inside silicon single-crystals irradiated by this laser was performed using the diffraction system at the Stress and Imaging apparatus of BL22XU, which is a JAEA-BL. The results obtained confirm the existence of high-pressure phases that silicon is said to possess: body-centered, rhombohedral, hexagonal, and tetragonal phases in the interior. We can get the results that the crystal structure of silicon polymorphs of being include body-centered, rhombohedral, hexagonal-diamond, tetragonal exists. In the future, we will accumulate data and apply them to control the internal structure, strength, and functionality of materials.
Sekikawa, Takuya; Matsuya, Yusuke; Hwang, B.*; Ishizaka, Masato*; Kawai, Hiroyuki*; Ono, Yoshiaki*; Sato, Tatsuhiko; Kai, Takeshi
Nuclear Instruments and Methods in Physics Research B, 548, p.165231_1 - 165231_6, 2024/03
Times Cited Count:1 Percentile:63.95(Instruments & Instrumentation)One of the main causes of radiation effects on the human body is thought to be damage to DNA, which carries genetic information. However, it is not fully understood what kind of molecular structural changes DNA undergoes upon radiation damage. Since it has been reported that various types of DNA damage are formed when DNA is irradiated, our group has investigated the relationship between DNA damage and various patterns of radiation-induced ionization induced by radiation. Although we have so far analyzed DNA damage in a simple system using a rigid body model of DNA, more detailed calculations are required to analyze the molecular structural changes in DNA, which are considered to be important in considering the effects on the human body. In this study, we attempted to clarify the molecular conformational changes of DNA using OpenMX, a first-principles calculation software that can discuss electronic states based on molecular structures. Specifically, we calculated the most stable structure, band dispersion, and wave function of DNA under the assumption that one and two electrons are ionized by various radiation. In the presentation, we will discuss the relationship between the energy dependence of each incident radiation type and the molecular conformational change of DNA. In addition, the radiation-induced changes in the basic physical properties of DNA (corresponding to the initial stage of DNA damage) will be discussed from the viewpoints of both radiation physics and solid state physics.
Hirata, Yuho; Kai, Takeshi; Ogawa, Tatsuhiko; Matsuya, Yusuke; Sato, Tatsuhiko
Nuclear Instruments and Methods in Physics Research B, 547, p.165183_1 - 165183_7, 2024/02
Times Cited Count:0 Percentile:0.00(Instruments & Instrumentation)The luminescence efficiency of the phosphors for swift ions is known to decrease because of the quenching effects. To obtain the precise dose distributions using phosphor detectors, understanding the mechanisms of quenching effects is mandatory. Here, we developed a new model for estimating the luminescence intensity of phosphors based on the track-structure modes for arbitrary materials implemented in PHITS. The developed model enabled the simulation of the quenching effects of the BaFBr detector and was verified by comparing the results to the corresponding measured data. The present model is expected to contribute to developing phosphor detectors worldwide.
Matsuya, Yusuke; Yoshii, Yuji*; Kusumoto, Tamon*; Akamatsu, Ken*; Hirata, Yuho; Sato, Tatsuhiko; Kai, Takeshi
Physics in Medicine & Biology, 69(3), p.035005_1 - 035005_12, 2024/02
Times Cited Count:3 Percentile:78.29(Engineering, Biomedical)Time-dependent yields of chemical products resulted in water radiolysis play a great role in evaluating DNA damage response after exposure to ionizing radiation. Particle and Heavy Ion Transport code System (PHITS) is a general-purpose Monte Carlo simulation code for radiation transport, which allows to determine several atomic interactions such as ionizations and electronic excitations as physical stage. However, a chemical code for simulating products of water radiolysis does not exist in the PHITS package. Here, we developed a chemical simulation code dedicated for the PHITS code, hereafter called PHITS-Chem code, which enables calculating G values of water radiolysis species (OH radical, e, H
, H
O
etc) by electron beams. The estimated G values during 1
s are in agreement with the experimental ones and other simulations. This PHITS-Chem code enables simulating the dynamics in the presence of OH radical scavenger, and is useful for evaluating contributions of direct and indirect effects on DNA damage induction. This code will be included and be available in the future version of PHITS.
Sato, Tatsuhiko; Iwamoto, Yosuke; Hashimoto, Shintaro; Ogawa, Tatsuhiko; Furuta, Takuya; Abe, Shinichiro; Kai, Takeshi; Matsuya, Yusuke; Matsuda, Norihiro; Hirata, Yuho; et al.
Journal of Nuclear Science and Technology, 61(1), p.127 - 135, 2024/01
Times Cited Count:119 Percentile:99.97(Nuclear Science & Technology)The Particle and Heavy Ion Transport code System (PHITS) is a general-purpose Monte Carlo radiation transport code that can simulate the behavior of most particle species with energies up to 1 TeV (per nucleon for ions). Its new version, PHITS3.31, was recently developed and released to the public. In the new version, the compatibility with high-energy nuclear data libraries and the algorithm of the track-structure modes have been improved. In this paper, we summarize the upgraded features of PHITS3.31 with respect to the physics models, utility functions, and application software introduced since the release of PHITS3.02 in 2017.
Tamura, Jun; Kondo, Yasuhiro; Yee-Rendon, B.; Meigo, Shinichiro; Maekawa, Fujio; Kako, Eiji*; Umemori, Kensei*; Sakai, Hiroshi*; Domae, Takeshi*
Journal of Physics; Conference Series, 2687(5), p.052008_1 - 052008_6, 2024/01
Times Cited Count:0 Percentile:0.00(Physics, Atomic, Molecular & Chemical)Yoshida, Shogo*; Haga, Yoshinori; Fujii, Takuto*; Nakai, Yusuke*; Mito, Takeshi*; 8 of others*
Journal of the Physical Society of Japan, 93(1), p.013702_1 - 013702_5, 2024/01
Times Cited Count:0 Percentile:0.00(Physics, Multidisciplinary)Tobita, Minoru*; Goto, Katsunori*; Omori, Takeshi*; Osone, Osamu*; Haraga, Tomoko; Aono, Ryuji; Konda, Miki; Tsuchida, Daiki; Mitsukai, Akina; Ishimori, Kenichiro
JAEA-Data/Code 2023-011, 32 Pages, 2023/11
Radioactive wastes generated from nuclear research facilities in Japan Atomic Energy Agency are planning to be buried in the near surface disposal field as trench and pit. Therefore, it is required to establish the method to evaluate the radioactivity concentrations of radioactive wastes until the beginning of disposal. In order to contribute to the study of radioactivity concentration evaluation methods for radioactive wastes generated from nuclear research facilities, we collected and analyzed concrete samples generated from JRR-3, JRR-4 and JAERI Reprocessing Test Facility. In this report, we summarized the radioactivity concentrations of 23 radionuclides (H,
C,
Cl,
Ca,
Co,
Ni,
Sr,
Nb,
Ag,
Cs,
Ba,
Eu,
Eu,
Ho,
U,
U,
U,
Pu,
Pu,
Pu,
Am,
Am,
Cm) which were obtained from radiochemical analysis of the samples in fiscal years 2021-2022.
Kai, Takeshi; Toigawa, Tomohiro; Matsuya, Yusuke; Hirata, Yuho; Tezuka, Tomoya*; Tsuchida, Hidetsugu*; Yokoya, Akinari*
RSC Advances (Internet), 13(46), p.32371 - 32380, 2023/11
Times Cited Count:4 Percentile:35.92(Chemistry, Multidisciplinary)Although scientific knowledge of photolysis and radiolysis of water is widely used in the life sciences and other fields, the formation mechanism of the spatial distribution of hydrated electrons (spur) resulting from energy deposition to water is still not well understood. The chemical reaction times of hydrated electrons, OH radicals, and HO
in the spur strongly depend on the spur radius. In our previous study, we elucidated the mechanism at a specific given energy (12.4 eV) by first-principles calculations. In the present study, we performed first-principles calculations of the spur radius at the deposition energies of 11-19 eV. The calculated spur radius is 3-10 nm, which is consistent with the experimental prediction (~4 nm) for the energy range of 8-12.4 eV, and the spur radius gradually increases with increasing energy. The spur radius is a new scientific knowledge and is expected to be widely used for estimating radiation DNA damage.
Hirata, Yuho; Kai, Takeshi; Ogawa, Tatsuhiko; Matsuya, Yusuke*; Sato, Tatsuhiko
Japanese Journal of Applied Physics, 62(10), p.106001_1 - 106001_6, 2023/10
Times Cited Count:4 Percentile:52.19(Physics, Applied)Optimization of semiconductor detector design requires theoretical analysis of the process of radiation conversion to carriers (excited electrons) in semiconductor materials. We, therefore, developed an electron track-structure code that can trace an incident electron trajectory down to a few eV and simulate many excited electron productions in semiconductors, named ETSART, and implemented it into PHITS. The accuracy of ETSART was validated by comparing calculated electron ranges in semiconductor materials with the corresponding data recommended in ICRU Report 37 and obtained from another simulation code. The average energy required to produce a single excited electron (epsilon value) is an important value that describes the characteristics of semiconductor detectors. Using ETSART, we computed the epsilon values in various semiconductors and found that the calculated epsilon values cannot be fitted well with a linear model of the band-gap energy. ETSART is expected to be useful for initial and mechanistic evaluations of electron-hole generation in undiscovered materials.