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Wierzbicka P, Abdoul-Carime H, Kopyra J. Fragmentation of 5-fluorouridine induced by low energy (< 12 eV) electrons: insights into the radiosensitization of DNA. Phys Chem Chem Phys 2024; 26:8761-8766. [PMID: 38419552 DOI: 10.1039/d3cp04745h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/02/2024]
Abstract
5-Fluorouracil is now routinely used in chemo- and radiotherapy. Incorporated within DNA, the molecule is bound to the sugar backbone, forming the 5-fluorouridine sub-unit investigated in the present work. For the clinical usage of the latter, no information exists on the mechanisms that control the radiosensitizing effect at the molecular level. As low energy (< 12 eV) electrons are abundantly produced along the radiation tracks during cancer treatment using beams of high energy particles, we study how these ballistic secondary electrons damage the sensitizing molecule. The salient result from our study shows that the N-glycosidic bonds are principally affected with a cross-section of approximately two orders of magnitude higher than the canonical thymidine, reflecting to some degree the surviving factor of radiation-treated carcinoma cells with and without 5-fluorouracil incorporation. This result may help in the comprehension of the radiosensitizing effect of the fluoro-substituted thymidine in DNA.
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Affiliation(s)
- Paulina Wierzbicka
- Faculty of Sciences, Siedlce University, 3 Maja 54, Siedlce 08-110, Poland.
| | - Hassan Abdoul-Carime
- Université de Lyon, Université Claude Bernard Lyon 1, CNRS, Institut Lumière Matière, UMR5306, Villeurbanne F-69622, France
| | - Janina Kopyra
- Faculty of Sciences, Siedlce University, 3 Maja 54, Siedlce 08-110, Poland.
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2
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Vetritti L, Kopyra J, Wierzbicka P, Varella MTDN. Fragmentation of the DNA Lesion 8-oxo-Guanine by Low-Energy Electrons. J Phys Chem A 2023; 127:7470-7478. [PMID: 37661383 DOI: 10.1021/acs.jpca.3c03704] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/05/2023]
Abstract
8-oxo-Guanine is a mutagenic lesion produced by reactions involving reactive oxygen species and guanine in DNA. Its production induces mispairing between the canonical nucleobases during DNA replication such that various types of cancers are associated with the DNA lesion. Since radiation therapy is used in some cases, the interaction of low-energy electrons with 8-oxo-guanine can in turn produce other reactive species, which in principle could have either a detrimental or protective effect on the organism. Motivated by these facts, we report a comparative experimental study of electron-induced fragmentation of guanine and 8-oxo-guanine, along with a theoretical study of the π* shape resonances and bound anion states, which may trigger those dissociation reactions. The electron-induced fragmentation of 8-oxo-guanine is remarkably distinct from the native form. More complex reactions were observed for the oxidized species, which may produce several anion fragments at very low energies (∼0 eV). The dehydrogenated parent anion, which is already a minor fragment in guanine, was completely suppressed in 8-oxo-guanine. The calculated thermodynamical thresholds also suggest that NH2 elimination in guanine, at sub-excitation energies, proceeds via a complex reaction involving rearrangement steps.
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Affiliation(s)
- Leonardo Vetritti
- Instituto de Física, Universidade de São Paulo, Caixa Postal 66318, 05315-970 São Paulo, São Paulo, Brazil
| | - Janina Kopyra
- Faculty of Sciences, Siedlce University of Natural Sciences and Humanities, 3 Maja 54, 08-110 Siedlce, Poland
| | - Paulina Wierzbicka
- Faculty of Sciences, Siedlce University of Natural Sciences and Humanities, 3 Maja 54, 08-110 Siedlce, Poland
| | - Márcio T do N Varella
- Instituto de Física, Universidade de São Paulo, Caixa Postal 66318, 05315-970 São Paulo, São Paulo, Brazil
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3
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Repurposing Antimalarial Pyronaridine as a DNA Repair Inhibitor to Exploit the Full Potential of Gold-Nanoparticle-Mediated Radiation Response. Pharmaceutics 2022; 14:pharmaceutics14122795. [PMID: 36559288 PMCID: PMC9783290 DOI: 10.3390/pharmaceutics14122795] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2022] [Revised: 12/01/2022] [Accepted: 12/09/2022] [Indexed: 12/15/2022] Open
Abstract
Radiation therapy (RT) is frequently used to locally treat tumors. One of the major issues in RT is normal tissue toxicity; thus, it is necessary to limit dose escalation for enhanced local control in patients that have locally advanced tumors. Integrating radiosensitizing agents such as gold nanoparticles (GNPs) into RT has been shown to greatly increase the cure rate of solid tumors. The objective of this study was to explore the repurposing of an antimalarial drug, pyronaridine (PYD), as a DNA repair inhibitor to further enhance RT/GNP-induced DNA damage in cancerous cell lines. We were able to achieve inhibitory effects of DNA repair due to PYD at 500 nM concentration. Our results show a significant enhancement in DNA double-strand breaks of 42% in HeLa cells treated with PYD/GNP/RT in comparison to GNP/RT alone when irradiated with a dose of 2 Gy. Furthermore, there was a significant reduction in cellular proliferation for both HeLa and HCT-116 irradiated cells with the combined treatment of PYD/GNP/RT. Therefore, the emergence of promising novel concepts introduced in this study could lay the foundation for the transition of this treatment modality into clinical environments.
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4
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Arthur-Baidoo E, Ončák M, Denifl S. Electron attachment to fluorodeoxyglucose: Dissociation dynamics in a molecule of near-zero electron affinity. J Chem Phys 2022; 157:074301. [PMID: 35987575 DOI: 10.1063/5.0101726] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Fluorodeoxyglucose (FDG) is a glucose derivative with fluorine at the C2 position. The molecule containing the radioactive F-18 isotope is well known from its application in positron emission tomography as a radiotracer in tumor examination. In the stable form with the F-19 isotope, FDG was proposed as a potential radiosensitizer. Since reduction processes may be relevant in radiosensitization, we investigated low-energy electron attachment to FDG with a crossed electron-molecule beam experiment and with quantum chemical calculations as well as molecular dynamics at elevated temperatures to reveal statistical dissociation. We experimentally find that the susceptibility of FDG to low-energy electrons is relatively low. The calculations indicate that upon attachment of an electron with a kinetic energy of ∼0 eV, only dipole-bound states are accessible, which agrees with the weak ion yields observed in the experiment. The temporary negative ions formed upon electron attachment to FDG may decay by a large variety of dissociation reactions. The major fragmentation channels include H2O, HF, and H2 dissociation, accompanied by ring opening.
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Affiliation(s)
- Eugene Arthur-Baidoo
- Institut fücr Ionenphysik und Angewandte Physik, Leopold-Franzens Universität Innsbruck, Technikerstrasse 25, A-6020 Innsbruck, Austria
| | - Milan Ončák
- Institut fücr Ionenphysik und Angewandte Physik, Leopold-Franzens Universität Innsbruck, Technikerstrasse 25, A-6020 Innsbruck, Austria
| | - Stephan Denifl
- Institut fücr Ionenphysik und Angewandte Physik, Leopold-Franzens Universität Innsbruck, Technikerstrasse 25, A-6020 Innsbruck, Austria
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5
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Asfandiarov NL, Muftakhov MV, Pshenichnyuk SA, Rakhmeev RG, Safronov AM, Markova AV, Vorob'ev AS, Luxford TFM, Kočišek J, Fedor J. Non-covalent anion structures in dissociative electron attachment to some brominated biphenyls. J Chem Phys 2021; 155:244302. [PMID: 34972364 DOI: 10.1063/5.0074013] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The present work combines experiment and theory to reveal the behavior of bromo-substituted-biphenyls after an electron attachment. We experimentally determine anion lifetimes using an electron attachment-magnetic sector mass spectrometer instrument. Branching ratios of dissociative electron attachment fragments on longer timescales are determined using the electron attachment-quadrupole mass spectrometer instrument. In all cases, fragmentation is low: Only the Br- and [M-Br]- ions are detected, and [M-H]- is observed only in the case of 4-Br-biphenyl and parent anion lifetimes as long as 165 µs are observed. Such lifetimes are contradictory to the dissociation rates of 2- and 4-bromobiphenyl, as measured by the pulse radiolysis method to be 3.2 × 1010 and >5 × 1010 s-1, respectively. The discrepancy is plausibly explained by our calculation of the potential energy surface of the dissociating anion. Isolated in vacuum, the bromide anion can orbit the polarized aromatic radical at a long distance. A series of local minima on the potential energy surface allows for a roaming mechanism prolonging the detection time of such weakly bound complex anions. The present results illuminate the behavior recently observed in a series of bromo-substituted compounds of biological as well as technological relevance.
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Affiliation(s)
- N L Asfandiarov
- Institute of Molecule and Crystal Physics - Subdivision of the Ufa Federal Research Centre of the Russian Academy of Sciences, Prospekt Oktyabrya 151, Ufa 450075, Russia
| | - M V Muftakhov
- Institute of Molecule and Crystal Physics - Subdivision of the Ufa Federal Research Centre of the Russian Academy of Sciences, Prospekt Oktyabrya 151, Ufa 450075, Russia
| | - S A Pshenichnyuk
- Institute of Molecule and Crystal Physics - Subdivision of the Ufa Federal Research Centre of the Russian Academy of Sciences, Prospekt Oktyabrya 151, Ufa 450075, Russia
| | - R G Rakhmeev
- Institute of Molecule and Crystal Physics - Subdivision of the Ufa Federal Research Centre of the Russian Academy of Sciences, Prospekt Oktyabrya 151, Ufa 450075, Russia
| | - A M Safronov
- Institute of Molecule and Crystal Physics - Subdivision of the Ufa Federal Research Centre of the Russian Academy of Sciences, Prospekt Oktyabrya 151, Ufa 450075, Russia
| | - A V Markova
- Institute of Molecule and Crystal Physics - Subdivision of the Ufa Federal Research Centre of the Russian Academy of Sciences, Prospekt Oktyabrya 151, Ufa 450075, Russia
| | - A S Vorob'ev
- Moscow Institute of Physics and Technology, Institutskiy Pereulok 9, 141700 Dolgoprudny, Moscow Region, Russia
| | - T F M Luxford
- Department of Dynamics of Molecules and Clusters, J. Heyrovský Institute of Physical Chemistry of Czech Academy of Sciences, Dolejškova 3, 18223 Prague 8, Czech Republic
| | - J Kočišek
- Department of Dynamics of Molecules and Clusters, J. Heyrovský Institute of Physical Chemistry of Czech Academy of Sciences, Dolejškova 3, 18223 Prague 8, Czech Republic
| | - J Fedor
- Department of Dynamics of Molecules and Clusters, J. Heyrovský Institute of Physical Chemistry of Czech Academy of Sciences, Dolejškova 3, 18223 Prague 8, Czech Republic
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Houmam A, Hamed EM, Saley MA. New Insights into the Substituents’ Effect on the Formation and Dissociation of Radical Anions: Dissociative Electron Transfer to Arylsulfonylphthalimides. ChemElectroChem 2021. [DOI: 10.1002/celc.202101248] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Abdelaziz Houmam
- Electrochemical Technology Center Department of Chemistry University of Guelph Guelph Ontario Canada N1G 2W1
| | - Emad M. Hamed
- Electrochemical Technology Center Department of Chemistry University of Guelph Guelph Ontario Canada N1G 2W1
| | - Michael A. Saley
- Electrochemical Technology Center Department of Chemistry University of Guelph Guelph Ontario Canada N1G 2W1
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7
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Ma J, Bahry T, Denisov SA, Adhikary A, Mostafavi M. Quasi-Free Electron-Mediated Radiation Sensitization by C5-Halopyrimidines. J Phys Chem A 2021; 125:7967-7975. [PMID: 34470211 PMCID: PMC8448956 DOI: 10.1021/acs.jpca.1c05974] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Substitution of the thymidine moiety in DNA by C5-substituted halogenated thymidine analogues causes significant augmentation of radiation damage in living cells. However, the molecular pathway involved in such radiosensitization process has not been clearly elucidated to date in solution at room temperature. So far, low-energy electrons (LEEs; 0-20 eV) under vacuum condition and solvated electrons (esol-) in solution are shown to produce the σ-type C5-centered pyrimidine base radical through dissociative electron attachment involving carbon-halogen bond breakage. Formation of this σ-type radical and its subsequent reactions are proposed to cause cellular radiosensitization. Here, we report time-resolved measurements at room temperature, showing that a radiation-produced quasi-free electron (eqf-) in solution promptly breaks the C5-halogen bond in halopyrimidines forming the σ-type C5 radical via an excited transient anion radical. These results demonstrate the importance of ultrafast reactions of eqf-, which are extremely important in chemistry, physics, and biology, including tumor radiochemotherapy.
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Affiliation(s)
- Jun Ma
- Department of Nuclear Science and Engineering, Nanjing University of Aeronautics and Astronautics, Nanjing 211106, P. R. China
| | - Teseer Bahry
- Department of Nuclear Science and Engineering, Nanjing University of Aeronautics and Astronautics, Nanjing 211106, P. R. China
- Institut de Chimie Physique, UMR 8000 CNRS, Bât. 349, Université Paris-Saclay; 91405, Orsay, Cedex, France
| | - Sergey A. Denisov
- Institut de Chimie Physique, UMR 8000 CNRS, Bât. 349, Université Paris-Saclay; 91405, Orsay, Cedex, France
| | - Amitava Adhikary
- Department of Chemistry, Oakland University, 146 Library Drive, Rochester, MI - 48309, United States
| | - Mehran Mostafavi
- Institut de Chimie Physique, UMR 8000 CNRS, Bât. 349, Université Paris-Saclay; 91405, Orsay, Cedex, France
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8
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Gao Y, Zheng Y, Sanche L. Low-Energy Electron Damage to Condensed-Phase DNA and Its Constituents. Int J Mol Sci 2021; 22:7879. [PMID: 34360644 PMCID: PMC8345953 DOI: 10.3390/ijms22157879] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2021] [Revised: 06/30/2021] [Accepted: 06/30/2021] [Indexed: 11/18/2022] Open
Abstract
The complex physical and chemical reactions between the large number of low-energy (0-30 eV) electrons (LEEs) released by high energy radiation interacting with genetic material can lead to the formation of various DNA lesions such as crosslinks, single strand breaks, base modifications, and cleavage, as well as double strand breaks and other cluster damages. When crosslinks and cluster damages cannot be repaired by the cell, they can cause genetic loss of information, mutations, apoptosis, and promote genomic instability. Through the efforts of many research groups in the past two decades, the study of the interaction between LEEs and DNA under different experimental conditions has unveiled some of the main mechanisms responsible for these damages. In the present review, we focus on experimental investigations in the condensed phase that range from fundamental DNA constituents to oligonucleotides, synthetic duplex DNA, and bacterial (i.e., plasmid) DNA. These targets were irradiated either with LEEs from a monoenergetic-electron or photoelectron source, as sub-monolayer, monolayer, or multilayer films and within clusters or water solutions. Each type of experiment is briefly described, and the observed DNA damages are reported, along with the proposed mechanisms. Defining the role of LEEs within the sequence of events leading to radiobiological lesions contributes to our understanding of the action of radiation on living organisms, over a wide range of initial radiation energies. Applications of the interaction of LEEs with DNA to radiotherapy are briefly summarized.
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Affiliation(s)
- Yingxia Gao
- State Key Laboratory of Photocatalysis on Energy and Environment, Fuzhou University, Fuzhou 350116, China;
| | - Yi Zheng
- State Key Laboratory of Photocatalysis on Energy and Environment, Fuzhou University, Fuzhou 350116, China;
| | - Léon Sanche
- Département de Médecine Nucléaire et Radiobiologie et Centre de Recherche Clinique, Faculté de Médecine, Université de Sherbrooke, Sherbrooke, QC J1H 5N4, Canada;
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9
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Kossoski F, Barbatti M. Nonadiabatic dynamics in multidimensional complex potential energy surfaces. Chem Sci 2020; 11:9827-9835. [PMID: 34094243 PMCID: PMC8162122 DOI: 10.1039/d0sc04197a] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023] Open
Abstract
Despite the continuous development of theoretical methodologies for describing nonadiabatic dynamics of molecular systems, there is a lack of approaches for processes where the norm of the wave function is not conserved, i.e., when an imaginary potential accounts for some irreversible decaying mechanism. Current approaches rely on building potential energy surfaces of reduced dimensionality, which is not optimal for more involving and realistic multidimensional problems. Here, we present a novel methodology for describing the dynamics of complex-valued molecular Hamiltonians, which is a generalisation of the trajectory surface hopping method. As a first application, the complex surface fewest switches surface hopping (CS-FSSH) method was employed to survey the relaxation mechanisms of the shape resonant anions of iodoethene. We have provided the first detailed and dynamical picture of the π*/σ* mechanism of dissociative electron attachment in halogenated unsaturated compounds, which is believed to underlie electron-induced reactions of several molecules of interest. Electron capture into the π* orbital promotes C
Created by potrace 1.16, written by Peter Selinger 2001-2019
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C stretching and out-of-plane vibrations, followed by charge transfer from the double bond into the σ* orbital at the C–I bond, and, finally, release of the iodine ion, all within only 15 fs. On-the-fly dynamics simulations of a vast class of processes can be envisioned with the CS-FSSH methodology, including autoionisation from transient anions, core-ionised and superexcited states, Auger and interatomic coulombic decay, and time-dependent luminescence. Despite the continuous development of methods for describing nonadiabatic dynamics, there is a lack of multidimensional approaches for processes where the wave function norm is not conserved. A new surface hopping variant closes this knowledge gap.![]()
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10
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Skotnicki K, Taras-Goslinska K, Janik I, Bobrowski K. Radiation Induced One-Electron Oxidation of 2-Thiouracil in Aqueous Solutions. Molecules 2019; 24:E4402. [PMID: 31810289 PMCID: PMC6930642 DOI: 10.3390/molecules24234402] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2019] [Revised: 11/27/2019] [Accepted: 11/27/2019] [Indexed: 11/17/2022] Open
Abstract
Oxidative damage to 2-thiouracil (2-TU) by hydroxyl (•OH) and azide (●N3) radicals produces various primary reactive intermediates. Their optical absorption spectra and kinetic characteristics were studied by pulse radiolysis with UV-vis spectrophotometric and conductivity detection and by time-dependent density functional theory (TD-DFT) method. The transient absorption spectra recorded in the reactions of •OH with 2-TU depend on the concentration of 2-TU, however, only slightly on pH. At low concentrations, they are characterized by a broad absorption band with a weakly pronounced maxima located at λ = 325, 340 and 385 nm, whereas for high concentrations, they are dominated by an absorption band with λmax ≈ 425 nm. Based on calculations using TD-DFT method, the transient absorption spectra at low concentration of 2-TU were assigned to the ●OH-adducts to the double bond at C5 and C6 carbon atoms (3●, 4●) and 2c-3e bonded ●OH adduct to sulfur atom (1…●OH) and at high concentration of 2-TU also to the dimeric 2c-3e S-S-bonded radical in neutral form (2●). The dimeric radical (2●) is formed in the reaction of thiyl-type radical (6●) with 2-TU and both radicals are in an equilibrium with Keq = 4.2 × 103 M-1. Similar equilibrium (with Keq = 4.3 × 103 M-1) was found for pH above the pKa of 2-TU which involves admittedly the same radical (6●) but with the dimeric 2c-3e S-S bonded radical in anionic form (2●-). In turn, ●N3-induced oxidation of 2-TU occurs via radical cation with maximum spin location on the sulfur atom which subsequently undergoes deprotonation at N1 atom leading again to thiyl-type radical (6●). This radical is a direct precursor of dimeric radical (2●).
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Affiliation(s)
- Konrad Skotnicki
- Centre of Radiation Research and Technology, Institute of Nuclear Chemistry and Technology, 03-195 Warsaw, Poland;
| | | | - Ireneusz Janik
- Notre Dame Radiation Laboratory, University of Notre Dame, Notre Dame, IN 46556, USA
| | - Krzysztof Bobrowski
- Centre of Radiation Research and Technology, Institute of Nuclear Chemistry and Technology, 03-195 Warsaw, Poland;
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Meißner R, Kočišek J, Feketeová L, Fedor J, Fárník M, Limão-Vieira P, Illenberger E, Denifl S. Low-energy electrons transform the nimorazole molecule into a radiosensitiser. Nat Commun 2019; 10:2388. [PMID: 31160602 PMCID: PMC6546713 DOI: 10.1038/s41467-019-10340-8] [Citation(s) in RCA: 36] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2018] [Accepted: 05/03/2019] [Indexed: 12/05/2022] Open
Abstract
While matter is irradiated with highly-energetic particles, it may become chemically modified. Thereby, the reactions of free low-energy electrons (LEEs) formed as secondary particles play an important role. It is unknown to what degree and by which mechanism LEEs contribute to the action of electron-affinic radiosensitisers applied in radiotherapy of hypoxic tumours. Here we show that LEEs effectively cause the reduction of the radiosensitiser nimorazole via associative electron attachment with the cross-section exceeding most of known molecules. This supports the hypothesis that nimorazole is selectively cytotoxic to tumour cells due to reduction of the molecule as prerequisite for accumulation in the cell. In contrast, dissociative electron attachment, commonly believed to be the source of chemical activity of LEEs, represents only a minor reaction channel which is further suppressed upon hydration. Our results show that LEEs may strongly contribute to the radiosensitising effect of nimorazole via associative electron attachment.
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Affiliation(s)
- Rebecca Meißner
- Institut für Ionenphysik und Angewandte Physik and Center for Biomolecular Sciences Innsbruck, Leopold-Franzens Universität Innsbruck, Technikerstrasse 25, A-6020, Innsbruck, Austria
- Atomic and Molecular Collisions Laboratory, CEFITEC, Department of Physics, Universidade NOVA de Lisboa, 2829-516, Caparica, Portugal
| | - Jaroslav Kočišek
- J. Heyrovský Institute of Physical Chemistry v.v.i., The Czech Academy of Sciences, Dolejškova 3, 18223, Prague, Czech Republic
| | - Linda Feketeová
- Université de Lyon; Université Claude Bernard Lyon1; Institut de Physique Nucléaire de Lyon, CNRS/IN2P3 UMR 5822, 69622, Villeurbanne, Cedex, France
| | - Juraj Fedor
- J. Heyrovský Institute of Physical Chemistry v.v.i., The Czech Academy of Sciences, Dolejškova 3, 18223, Prague, Czech Republic
| | - Michal Fárník
- J. Heyrovský Institute of Physical Chemistry v.v.i., The Czech Academy of Sciences, Dolejškova 3, 18223, Prague, Czech Republic
| | - Paulo Limão-Vieira
- Atomic and Molecular Collisions Laboratory, CEFITEC, Department of Physics, Universidade NOVA de Lisboa, 2829-516, Caparica, Portugal
| | - Eugen Illenberger
- Institut für Ionenphysik und Angewandte Physik and Center for Biomolecular Sciences Innsbruck, Leopold-Franzens Universität Innsbruck, Technikerstrasse 25, A-6020, Innsbruck, Austria
- Institut für Chemie und Biochemie-Physikalische und Theoretische Chemie, Freie Universität Berlin, Takustrasse 3, 14195, Berlin, Germany
| | - Stephan Denifl
- Institut für Ionenphysik und Angewandte Physik and Center for Biomolecular Sciences Innsbruck, Leopold-Franzens Universität Innsbruck, Technikerstrasse 25, A-6020, Innsbruck, Austria.
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12
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Zhang J, Li X. The effect of water-mediated catalysis on the intramolecular proton-transfer reactions of the isomers of 5-chlorouracil: a theoretical study. ACTA CRYSTALLOGRAPHICA SECTION C-STRUCTURAL CHEMISTRY 2019; 75:554-561. [PMID: 31062712 DOI: 10.1107/s2053229619004856] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2019] [Accepted: 04/09/2019] [Indexed: 11/10/2022]
Abstract
The geometrical structures and thermal energies (E), enthalpies (H) and Gibbs free energies (G) of 13 isomers of 5-chlorouracil (5ClU) in the gas and water phases were investigated using the density functional theory (DFT) method at the M06-2X/6-311++g(3df,3pd) level. The isomers of 5ClU can be microhydrated at different molecular target sites. The mono- and dihydrated forms are the most stable in both the gas and water phases, and, because of the intermolecular interactions, the hydrations lead to a degree of change in the stability trend. Two types of isomerizations were considered: the internal H-O bond rotations in which the H atom rotates 180° around the C-O bond and the intramolecular proton-transfer reactions in which an H atom is transferred between an O atom and a neighbouring N atom. The forward and backward energy barriers for isomerizations of nonhydrated 5ClU were calculated. In addition, 16 optimized transition-state structures for water-mediated catalysis on isomerizations of 5ClU were investigated. The forward and backward proton-transfer energy barriers of water-mediated catalysis on isomerizations of 5ClU were obtained. The results indicate that the catalytic effect of two H2O molecules is much greater than that of one H2O molecule in isomerizations of 5ClU.
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Affiliation(s)
- Jian Zhang
- School of Chemistry and Material Science, Shanxi Normal University, Linfen 041004, People's Republic of China
| | - Xiu Li
- School of Chemistry and Material Science, Shanxi Normal University, Linfen 041004, People's Republic of China
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13
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Asfandiarov NL, Pshenichnyuk SA, Rakhmeyev RG, Tuktarov RF, Zaitsev NL, Vorob’ev AS, Kočišek J, Fedor J, Modelli A. 4-Bromobiphenyl: Long-lived molecular anion formation and competition between electron detachment and dissociation. J Chem Phys 2019; 150:114304. [DOI: 10.1063/1.5082611] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023] Open
Affiliation(s)
- N. L. Asfandiarov
- Institute of Molecule and Crystal Physics UFRC RAS, October Avenue 151, 450075 Ufa, Russia
| | - S. A. Pshenichnyuk
- Institute of Molecule and Crystal Physics UFRC RAS, October Avenue 151, 450075 Ufa, Russia
| | - R. G. Rakhmeyev
- Institute of Molecule and Crystal Physics UFRC RAS, October Avenue 151, 450075 Ufa, Russia
| | - R. F. Tuktarov
- Institute of Molecule and Crystal Physics UFRC RAS, October Avenue 151, 450075 Ufa, Russia
| | - N. L. Zaitsev
- Institute of Molecule and Crystal Physics UFRC RAS, October Avenue 151, 450075 Ufa, Russia
| | - A. S. Vorob’ev
- Moscow Institute of Physics and Technology, Institutskiy Pereulok 9, 141700 Dolgoprudny, Moscow Region, Russia
| | - J. Kočišek
- Department of Dynamics of Molecules and Clusters, J. Heyrovský Institute of Physical Chemistry Academy of Sciences of the Czech Republic, Dolejškova 3, 18223 Prague 8, Czech Republic
| | - J. Fedor
- Department of Dynamics of Molecules and Clusters, J. Heyrovský Institute of Physical Chemistry Academy of Sciences of the Czech Republic, Dolejškova 3, 18223 Prague 8, Czech Republic
| | - A. Modelli
- Dipartimento di Chimica “G. Ciamician,” Università di Bologna, Via Selmi 2, 40126 Bologna, Italy
- Centro Interdipartimentale di Ricerca in Scienze Ambientali, Università di Bologna, via S. Alberto 163, 48100 Ravenna, Italy
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14
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Meißner R, Makurat S, Kozak W, Limão-Vieira P, Rak J, Denifl S. Electron-Induced Dissociation of the Potential Radiosensitizer 5-Selenocyanato-2'-deoxyuridine. J Phys Chem B 2019; 123:1274-1282. [PMID: 30657689 DOI: 10.1021/acs.jpcb.8b11523] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
5-Selenocyanato-2'-deoxyuridine (SeCNdU) is a recently proposed radiosensitizer based on 2'-deoxyuridine (dU) with the electron-affinic selenocyanato (-SeCN) side group attached at the C5 position of uracil. Since electron interaction processes may be an important source of DNA damage by ionizing radiation, we have studied low-energy dissociative electron attachment to SeCNdU in the gas phase. Negative ion formation has been obtained by means of mass spectrometry, where a rich fragmentation pattern is observed even at ∼0 eV. The reaction pathways exhibiting the highest ion yields are C4N2O2H2Se•- and CN-, both involving a cleavage of the Se-CN bond. The heaviest fragment anion observed is C9N2O5H10Se•-, where besides the charged species, the hydrogen and cyano radicals are also formed. Further decomposition channels also yield the highly reactive hydroxyl radical, which possesses a high DNA damage potential. All observed channels have experimentally determined onsets at 0 eV, which are supported by calculations performed at the M06-2X/aug-cc-pVTZ level. The calculations comprise the thermochemical thresholds at standard and experimental (428.15 K, 3 × 10-11 atm) conditions together with the adiabatic electron affinities. The present study shows that low-energy electrons very effectively decompose SeCNdU upon attachment of thermal electrons, producing a large variety of charged fragments and radicals.
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Affiliation(s)
- Rebecca Meißner
- Institut für Ionenphysik und Angewandte Physik and Center for Biomolecular Sciences Innsbruck , Leopold-Franzens Universität Innsbruck , Technikerstrasse 25 , A-6020 Innsbruck , Austria.,Atomic and Molecular Collisions Laboratory, CEFITEC, Department of Physics , Universidade NOVA de Lisboa , 2829-516 Caparica , Portugal
| | - Samanta Makurat
- Laboratory of Biological Sensitizers, Physical Chemistry Department, Faculty of Chemistry , University of Gdańsk , 80-308 Gdańsk , Poland
| | - Witold Kozak
- Laboratory of Biological Sensitizers, Physical Chemistry Department, Faculty of Chemistry , University of Gdańsk , 80-308 Gdańsk , Poland
| | - Paulo Limão-Vieira
- Atomic and Molecular Collisions Laboratory, CEFITEC, Department of Physics , Universidade NOVA de Lisboa , 2829-516 Caparica , Portugal
| | - Janusz Rak
- Laboratory of Biological Sensitizers, Physical Chemistry Department, Faculty of Chemistry , University of Gdańsk , 80-308 Gdańsk , Poland
| | - Stephan Denifl
- Institut für Ionenphysik und Angewandte Physik and Center for Biomolecular Sciences Innsbruck , Leopold-Franzens Universität Innsbruck , Technikerstrasse 25 , A-6020 Innsbruck , Austria
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15
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Ameixa J, Arthur-Baidoo E, Meißner R, Makurat S, Kozak W, Butowska K, Ferreira da Silva F, Rak J, Denifl S. Low-energy electron-induced decomposition of 5-trifluoromethanesulfonyl-uracil: A potential radiosensitizer. J Chem Phys 2018; 149:164307. [PMID: 30384761 DOI: 10.1063/1.5050594] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
Abstract
5-trifluoromethanesulfonyl-uracil (OTfU), a recently proposed radiosensitizer, is decomposed in the gas-phase by attachment of low-energy electrons. OTfU is a derivative of uracil with a triflate (OTf) group at the C5-position, which substantially increases its ability to undergo effective electron-induced dissociation. We report a rich assortment of fragments formed upon dissociative electron attachment (DEA), mostly by simple bond cleavages (e.g., dehydrogenation or formation of OTf-). The most favorable DEA channel corresponds to the formation of the triflate anion alongside with the reactive uracil-5-yl radical through the cleavage of the O-C5 bond, particularly at about 0 eV. Unlike for halouracils, the parent anion was not detected in our experiments. The experimental findings are accounted by a comprehensive theoretical study carried out at the M06-2X/aug-cc-pVTZ level. The latter comprises the thermodynamic thresholds for the formation of the observed anions calculated under the experimental conditions (383.15 K and 3 × 10-11 atm). The energy-resolved ion yield of the dehydrogenated parent anion, (OTfU-H)-, is discussed in terms of vibrational Feshbach resonances arising from the coupling between the dipole bound state and vibrational levels of the transient negative ion. We also report the mass spectrum of the cations obtained through ionization of OTfU by electrons with a kinetic energy of 70 eV. The current study endorses OTfU as a potential radiosensitizer agent with possible applications in radio-chemotherapy.
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Affiliation(s)
- J Ameixa
- Institut für Ionenphysik und Angewandte Physik and Center for Molecular Biosciences (CMBI), Leopold-Franzens Universität Innsbruck, Technikerstraße 25/3, 6020 Innsbruck, Austria
| | - E Arthur-Baidoo
- Institut für Ionenphysik und Angewandte Physik and Center for Molecular Biosciences (CMBI), Leopold-Franzens Universität Innsbruck, Technikerstraße 25/3, 6020 Innsbruck, Austria
| | - R Meißner
- Institut für Ionenphysik und Angewandte Physik and Center for Molecular Biosciences (CMBI), Leopold-Franzens Universität Innsbruck, Technikerstraße 25/3, 6020 Innsbruck, Austria
| | - S Makurat
- Laboratory of Biological Sensitizers, Physical Chemistry Department, Faculty of Chemistry, University of Gdańsk, 80-308 Gdańsk, Poland
| | - W Kozak
- Laboratory of Biological Sensitizers, Physical Chemistry Department, Faculty of Chemistry, University of Gdańsk, 80-308 Gdańsk, Poland
| | - K Butowska
- Laboratory of Biophysics, Department of Molecular and Cellular Biology, Intercollegiate Faculty of Biotechnology of the University of Gdańsk and Medical University of Gdańsk, 80-307 Gdańsk, Poland
| | - F Ferreira da Silva
- Laboratório de Colisões Atómicas e Moleculares, CEFITEC, Departamento de Física, Faculdade de Ciências e Tecnologia, Universidade NOVA de Lisboa, Campus de Caparica, 2829-516 Caparica, Portugal
| | - J Rak
- Laboratory of Biological Sensitizers, Physical Chemistry Department, Faculty of Chemistry, University of Gdańsk, 80-308 Gdańsk, Poland
| | - S Denifl
- Institut für Ionenphysik und Angewandte Physik and Center for Molecular Biosciences (CMBI), Leopold-Franzens Universität Innsbruck, Technikerstraße 25/3, 6020 Innsbruck, Austria
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16
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Kopyra J, Kopyra KK, Abdoul-Carime H, Branowska D. Insights into the dehydrogenation of 2-thiouracil induced by slow electrons: Comparison of 2-thiouracil and 1-methyl-2-thiouracil. J Chem Phys 2018; 148:234301. [PMID: 29935521 DOI: 10.1063/1.5032162] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
In the present contribution, we study dissociative electron attachment to 1-methyl-2-thiouracil that has been synthesized and purified prior to the measurements. We compare the results with those previously obtained from 2-thiouracil. The comparison of the yield of the dehydrogenated parent anion from both the compounds allows us to assign the site from which the H atom is expulsed and to predict the mechanism that is involved in the formation of the peaks within the ion yield curve. It appears that the dehydrogenation observed for 2-thiouracil arising from the vibrational Feshbach resonances (at 0.7 and 1.0 eV) and a π*/σ* transition (at 0.1 eV) involves the bond cleavage at the N1 site, while that at the N3 site operates via the π*/σ* transition and occurs in the energy range of 1.1-3.3 eV. Besides the loss of the H atom from 1-methyl-2-thiouracil, we observe a relatively strong signal due to the loss of an entire methyl group (not observed from methyl-substituted thymine and uracil) that is formed from the N1-CH3 bond cleavage and can mimic the N-glycosidic bond cleavage within the DNA macromolecule.
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Affiliation(s)
- Janina Kopyra
- Faculty of Sciences, Siedlce University, 3 Maja 54, 08-110 Siedlce, Poland
| | - Konstancja K Kopyra
- Faculty of Chemical and Process Engineering, Warsaw University of Technology, Waryńskiego 1, 00-645 Warsaw, Poland
| | - Hassan Abdoul-Carime
- Université de Lyon, F-69003 Lyon, France; Université Lyon 1, Villeurbanne, France; and CNRS/IN2P3, UMR5822, Institut de Physique Nucléaire de Lyon, Villeurbanne, France
| | - Danuta Branowska
- Faculty of Sciences, Siedlce University, 3 Maja 54, 08-110 Siedlce, Poland
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17
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Kossoski F, Varella MTDN. How does methylation suppress the electron-induced decomposition of 1-methyl-nitroimidazoles? J Chem Phys 2018; 147:164310. [PMID: 29096502 DOI: 10.1063/1.5005604] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The efficient decomposition of nitroimidazoles (NIs) by low energy electrons is believed to underlie their radiosensitizing properties. Recent dissociative electron attachment (DEA) measurements showed that methylation at the N1 site unexpectedly suppresses the electron-induced reactions in 4(5)-NI. We report theoretical results that provide a clear interpretation of that astounding finding. Around 1.5 eV, DEA reactions into several fragments are initiated by a π* resonance, not considered in previous studies. The autoionization lifetime of this anion state, which limits the predissociation dynamics, is considerably shorter in the methylated species, thereby suppressing the DEA signals. On the other hand, the lifetime of the π* resonance located around 3 eV is less affected by methylation, which explains why DEA is still observed at these energies. Our results demonstrate how even a simple methylation can significantly modify the probabilities for DEA reactions, which may be significant for NI-based cancer therapy.
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Affiliation(s)
- F Kossoski
- Instituto de Física "Gleb Wataghin", Universidade Estadual de Campinas, 13083-859 Campinas, São Paulo, Brazil
| | - M T do N Varella
- Instituto de Física, Universidade de São Paulo, Rua do Matão 1731, 05508-090 São Paulo, São Paulo, Brazil
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18
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Cornetta LM, Kossoski F, Varella MTDN. Transient anion spectra of the potential radiosensitizers 5-cyanateuracil and 5-thiocyanateuracil. J Chem Phys 2017; 147:214310. [DOI: 10.1063/1.5007050] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023] Open
Affiliation(s)
- L. M. Cornetta
- Instituto de Física, Universidade de São Paulo, Rua do Matão 1731, 05508-090 São Paulo, Brazil
| | - F. Kossoski
- Instituto de Física “Gleb Wataghin,” Universidade Estadual de Campinas, 13083-859 Campinas, São Paulo, Brazil
- Aix Marseille University, CNRS, ICR, Marseille, France
| | - M. T. do N. Varella
- Instituto de Física, Universidade de São Paulo, Rua do Matão 1731, 05508-090 São Paulo, Brazil
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19
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Poštulka J, Slavíček P, Fedor J, Fárník M, Kočišek J. Energy Transfer in Microhydrated Uracil, 5-Fluorouracil, and 5-Bromouracil. J Phys Chem B 2017; 121:8965-8974. [DOI: 10.1021/acs.jpcb.7b07390] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- J. Poštulka
- Department
of Physical Chemistry, University of Chemistry and Technology, Technická
5, Prague 6, Czech Republic
| | - P. Slavíček
- Department
of Physical Chemistry, University of Chemistry and Technology, Technická
5, Prague 6, Czech Republic
- J.
Heyrovský Institute of Physical Chemistry v.v.i., The Czech Academy of Sciences, Dolejškova 3, 18223 Prague, Czech Republic
| | - J. Fedor
- J.
Heyrovský Institute of Physical Chemistry v.v.i., The Czech Academy of Sciences, Dolejškova 3, 18223 Prague, Czech Republic
| | - M. Fárník
- J.
Heyrovský Institute of Physical Chemistry v.v.i., The Czech Academy of Sciences, Dolejškova 3, 18223 Prague, Czech Republic
| | - J. Kočišek
- J.
Heyrovský Institute of Physical Chemistry v.v.i., The Czech Academy of Sciences, Dolejškova 3, 18223 Prague, Czech Republic
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20
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Kopyra J, Abdoul-Carime H, Skurski P. Temperature Dependence of the Dissociative Electron Attachment to 2-Thiothymine. J Phys Chem A 2016; 120:7130-6. [PMID: 27584692 DOI: 10.1021/acs.jpca.6b06512] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We report the temperature dependence for the dissociation of 2-thiothymine induced by low energy electrons. Although hot molecules favor dissociative electron attachment (DEA) initiated by shape/core-excited resonances, here we demonstrate that, in contrast, the dipole bound mediated DEA is inhibited, by decreasing the accessibility for the excess electron to the dipole bound anion formation channel. In addition, from this research the estimation of the change in the cross sections for the fragments production via the shape/core-excited resonances can be extended to temperatures at biological relevance.
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Affiliation(s)
- Janina Kopyra
- Siedlce University , Faculty of Sciences, 3 Maja 54, 08-110 Siedlce, Poland
| | - Hassan Abdoul-Carime
- Univ. Lyon, Université Claude Bernard Lyon 1, CNRS/IN2P3, Institut de Physique Nucléaire de Lyon UMR5822 , F-69003, LYON, France
| | - Piotr Skurski
- Department of Chemistry, University of Gdańsk , Wita Stwosza 63, 80-308 Gdańsk, Poland
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21
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Kossoski F, Varella MTDN. Negative ion states of 5-bromouracil and 5-iodouracil. Phys Chem Chem Phys 2016; 17:17271-8. [PMID: 26073436 DOI: 10.1039/c5cp01475a] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
The valence anion states of the potential radiosensitisers 5-bromouracil and 5-iodouracil were investigated through elastic scattering calculations. These compounds have rich spectra of negative ion states that trigger off different mechanisms for dissociative electron attachment. For each molecule, we obtained a bound π* anion, two π* shape resonances and a low lying σ* anion state, in addition to a dipole-bound state (the latter was obtained using bound-state techniques). The σ* anion, formed by electron attachment to an anti-bonding carbon-halogen orbital, was found to have resonant character in 5-bromouracil, and bound-state character in 5-iodouracil. The present calculations place the σCBr* resonance around 0.7 eV, considerably below the energy inferred from the electron transmission data (1.3 eV). The signature of this anion state, not evident in the measurements, would be obscured by the large background arising from the dipolar interaction, not by the strong signature of the π2*, as presumed. Our results support the π2* resonance as a precursor state to dissociative electron attachment around 1.5 eV in both 5-bromouracil and 5-iodouracil, while the interplay among π1*, σ* and dipole-bound states would be expected close to 0 eV. We also discuss the suppression of the hydrogen elimination channels in these species.
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Affiliation(s)
- F Kossoski
- Instituto de Física, Universidade de São Paulo, Caixa Postal 66318, 05314-970, São Paulo, São Paulo, Brazil.
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22
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Wang S, Zhao P, Zhang C, Bu Y. Mechanisms Responsible for High Energy Radiation Induced Damage to Single-Stranded DNA Modified by Radiosensitizing 5-Halogenated Deoxyuridines. J Phys Chem B 2016; 120:2649-57. [PMID: 26913546 DOI: 10.1021/acs.jpcb.5b11432] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Experimental studies showed that high energy radiation induced base release and DNA backbone breaks mainly occur at the neighboring 5' nucleotide when a single-stranded DNA is modified by radiosensitizing 5-halogenated deoxyuridines. However, no mechanism can be used to interpret these experimental observations. To better understand the radiosensitivity of 5-halogenated deoxyuridines, mechanisms involving hydrogen abstraction by the uracil-5-yl radical from the C2' and C3' positions of an adjacent nucleotide separately followed by the C3'-O3' or N-glycosidic bond rupture and the P-O3' bond breakage are investigated in the DNA sequence 5'-TU(•)-3' employing density functional theory calculations in the present study. It is found that hydrogen abstractions from both positions are comparable with the one from the C2' site slightly more favorable. The N-glycosidic bond cleavage in the neighboring 5' nucleotide following the internucleotide C2'-Ha abstraction is estimated to have the lowest activation free energies, indicating that the adjacent 5' base release dominates electron induced damage to single-stranded DNA incorporated by 5-halogenated deoxyuridines. Relative to the P-O3' bond breakage after the internucleotide C3'-H abstraction, the C3'-O3' bond rupture in the neighboring 5' nucleotide following the internucleotide C2'-Ha abstraction is predicted to have a lower activation free energy, implying that single-stranded DNA backbone breaks are prone to occur at the C3'-O3' bond site. The 5'-TU(•)-3' species has substantial electron affinity and can even capture a hydrated electron, forming the 5'-TU(-)-3' anion. However, the electron induced C3'-O3' bond rupture in 5'-TU(-)-3' anion via a pathway of internucleotide proton abstraction is only minor in both the gas phase and aqueous solution. The present theoretical predictions can interpret rationally experimental observations, thereby demonstrating that the mechanisms proposed here are responsible for high energy radiation induced damage to single-stranded DNA incorporated by radiosensitizing 5-halogenated deoxyuridines. By comparing with previous results, our work proves that the radiosensitizing action of 5-bromo-2-deoxyuridine is not weaker but stronger than its isomer 6-bromo-2-deoxyuridine on the basis of the available data.
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Affiliation(s)
- Shoushan Wang
- School of Chemistry and Chemical Engineering, Institute of Theoretical Chemistry, Shandong University , Jinan 250100, P. R. China
| | - Peiwen Zhao
- School of Chemistry and Chemical Engineering, Institute of Theoretical Chemistry, Shandong University , Jinan 250100, P. R. China
| | - Changzhe Zhang
- School of Chemistry and Chemical Engineering, Institute of Theoretical Chemistry, Shandong University , Jinan 250100, P. R. China
| | - Yuxiang Bu
- School of Chemistry and Chemical Engineering, Institute of Theoretical Chemistry, Shandong University , Jinan 250100, P. R. China
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23
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Hogan SWL, van Mourik T. Competition between hydrogen and halogen bonding in halogenated 1-methyluracil: Water systems. J Comput Chem 2016; 37:763-70. [PMID: 26773851 DOI: 10.1002/jcc.24264] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2015] [Revised: 11/08/2015] [Accepted: 11/11/2015] [Indexed: 01/18/2023]
Abstract
The competition between hydrogen- and halogen-bonding interactions in complexes of 5-halogenated 1-methyluracil (XmU; X = F, Cl, Br, I, or At) with one or two water molecules in the binding region between C5-X and C4=O4 is investigated with M06-2X/6-31+G(d). In the singly-hydrated systems, the water molecule forms a hydrogen bond with C4=O4 for all halogens, whereas structures with a halogen bond between the water oxygen and C5-X exist only for X = Br, I, and At. Structures with two waters forming a bridge between C4=O and C5-X (through hydrogen- and halogen-bonding interactions) exist for all halogens except F. The absence of a halogen-bonded structure in singly-hydrated ClmU is therefore attributed to the competing hydrogen-bonding interaction with C4=O4. The halogen-bond angle in the doubly-hydrated structures (150-160°) is far from the expected linearity of halogen bonds, indicating that significantly non-linear halogen bonds may exist in complex environments with competing interactions.
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Affiliation(s)
- Simon W L Hogan
- EaStCHEM School of Chemistry, University of St. Andrews, North Haugh, St. Andrews, KY16 9ST, United Kingdom
| | - Tanja van Mourik
- EaStCHEM School of Chemistry, University of St. Andrews, North Haugh, St. Andrews, KY16 9ST, United Kingdom
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24
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Tanzer K, Feketeová L, Puschnigg B, Scheier P, Illenberger E, Denifl S. Reactions in Nitroimidazole and Methylnitroimidazole Triggered by Low-Energy (0-8 eV) Electrons. J Phys Chem A 2015; 119:6668-75. [PMID: 26020684 DOI: 10.1021/acs.jpca.5b02721] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Low-energy electrons (0-8 eV) effectively decompose 4-nitroimidazole (4NI) and the two methylated isomers 1-methyl-5-nitroimidazole and 1-methyl-4-nitroimidazole via dissociative electron attachment (DEA). The involved unimolecular decompositions range from simple bond cleavages (loss of H(•), formation of NO2(-)) to complex reactions possibly leading to a complete degradation of the target molecule (formation of CN(-), etc.). At energies below 2 eV, the entire rich chemistry induced by DEA is completely quenched by methylation, as demonstrated in a previous communication (Tanzer, K.; Feketeová, L.; Puschnigg, B.; Scheier, P.; Illenberger. E.; Denifl, S. Angew. Chem., Int. Ed. 2014, 53, 12240). The observation that in 4NI neutral radicals and radical anions are formed via DEA at high efficiency already at threshold (0 eV) may have significant implications for the development of nitroimidazole-based radiosensitizers in tumor radiation therapy.
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Affiliation(s)
- Katrin Tanzer
- †Institut für Ionenphysik und Angewandte Physik and Center of Molecular Biosciences, Leopold Franzens Universität Innsbruck, Technikerstrasse 25, 6020 Innsbruck, Austria
| | - Linda Feketeová
- ‡Université de Lyon; Université Claude Bernard Lyon1; Institut de Physique Nucléaire de Lyon, CNRS/IN2P3 UMR 5822, 43 Bd du 11 novembre 1918, 69622 Villeurbanne Cedex, France.,§ARC Centre of Excellence for Free Radical Chemistry and Biotechnology, School of Chemistry and Bio21 Institute of Molecular Science and Biotechnology, The University of Melbourne, 30 Flemington Road, Victoria 3010, Australia
| | - Benjamin Puschnigg
- †Institut für Ionenphysik und Angewandte Physik and Center of Molecular Biosciences, Leopold Franzens Universität Innsbruck, Technikerstrasse 25, 6020 Innsbruck, Austria
| | - Paul Scheier
- †Institut für Ionenphysik und Angewandte Physik and Center of Molecular Biosciences, Leopold Franzens Universität Innsbruck, Technikerstrasse 25, 6020 Innsbruck, Austria
| | - Eugen Illenberger
- ∥Institut für Chemie und Biochemie-Physikalische und Theoretische Chemie, Freie Universität Berlin, Takustrasse 3, 14195 Berlin, Germany
| | - Stephan Denifl
- †Institut für Ionenphysik und Angewandte Physik and Center of Molecular Biosciences, Leopold Franzens Universität Innsbruck, Technikerstrasse 25, 6020 Innsbruck, Austria
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25
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Sun S, Brown A. Simulation of the Resonance Raman Spectra for 5-Halogenated (F, Cl, and Br) Uracils. J Phys Chem A 2015; 119:3961-71. [DOI: 10.1021/acs.jpca.5b01052] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Shuai Sun
- Department of Chemistry, University of Alberta, Edmonton, Alberta T6G 2G2, Canada
| | - Alex Brown
- Department of Chemistry, University of Alberta, Edmonton, Alberta T6G 2G2, Canada
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26
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Kossoski F, Kopyra J, Varella MTDN. Anion states and fragmentation of 2-chloroadenine upon low-energy electron collisions. Phys Chem Chem Phys 2015; 17:28958-65. [DOI: 10.1039/c5cp04967a] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We report on a joint theoretical and experimental investigation into the electron-induced fragmentation of 2-chloroadenine, for electrons up to 12 eV. Our results suggest that 2-chloroadenine can be considered as potential radiosensitiser.
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Affiliation(s)
- F. Kossoski
- Instituto de Física
- Universidade de São Paulo
- São Paulo
- Brazil
| | - J. Kopyra
- Siedlce University
- Faculty of Science
- 08-110 Siedlce
- Poland
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27
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Zhang C, Bu Y. Excess electron interaction with radiosensitive 5-bromopyrimidine in aqueous solution: a combined ab initio molecular dynamics and time-dependent wave-packet study. Phys Chem Chem Phys 2015; 17:19797-805. [DOI: 10.1039/c5cp02693h] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Radiation-generated secondary electrons can induce resonance processes in a target molecule and fragment it via different pathways.
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Affiliation(s)
- Changzhe Zhang
- School of Chemistry and Chemical Engineering
- Institute of Theoretical Chemistry
- Shandong University
- Jinan
- People's Republic of China
| | - Yuxiang Bu
- School of Chemistry and Chemical Engineering
- Institute of Theoretical Chemistry
- Shandong University
- Jinan
- People's Republic of China
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28
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Sequence dependence of electron-induced DNA strand breakage revealed by DNA nanoarrays. Sci Rep 2014; 4:7391. [PMID: 25487346 PMCID: PMC4260214 DOI: 10.1038/srep07391] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2014] [Accepted: 11/20/2014] [Indexed: 01/18/2023] Open
Abstract
The electronic structure of DNA is determined by its nucleotide sequence, which is for instance exploited in molecular electronics. Here we demonstrate that also the DNA strand breakage induced by low-energy electrons (18 eV) depends on the nucleotide sequence. To determine the absolute cross sections for electron induced single strand breaks in specific 13 mer oligonucleotides we used atomic force microscopy analysis of DNA origami based DNA nanoarrays. We investigated the DNA sequences 5′-TT(XYX)3TT with X = A, G, C and Y = T, BrU 5-bromouracil and found absolute strand break cross sections between 2.66 · 10−14 cm2 and 7.06 · 10−14 cm2. The highest cross section was found for 5′-TT(ATA)3TT and 5′-TT(ABrUA)3TT, respectively. BrU is a radiosensitizer, which was discussed to be used in cancer radiation therapy. The replacement of T by BrU into the investigated DNA sequences leads to a slight increase of the absolute strand break cross sections resulting in sequence-dependent enhancement factors between 1.14 and 1.66. Nevertheless, the variation of strand break cross sections due to the specific nucleotide sequence is considerably higher. Thus, the present results suggest the development of targeted radiosensitizers for cancer radiation therapy.
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Kossoski F, Bettega MHF, Varella MTDN. Shape resonance spectra of uracil, 5-fluorouracil, and 5-chlorouracil. J Chem Phys 2014; 140:024317. [PMID: 24437887 DOI: 10.1063/1.4861589] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023] Open
Abstract
We report on the shape resonance spectra of uracil, 5-fluorouracil, and 5-chlorouracil, as obtained from fixed-nuclei elastic scattering calculations performed with the Schwinger multichannel method with pseudopotentials. Our results are in good agreement with the available electron transmission spectroscopy data, and support the existence of three π∗ resonances in uracil and 5-fluorouracil. As expected, the anion states are more stable in the substituted molecules than in uracil. Since the stabilization is stronger in 5-chlorouracil, the lowest π∗ resonance in this system becomes a bound anion state. The present results also support the existence of a low-lying σCCl (*) shape resonance in 5-chlorouracil. Exploratory calculations performed at selected C-Cl bond lengths suggest that the σCCl (*) resonance could couple to the two lowest π∗ states, giving rise to a very rich dissociation dynamics. These facts would be compatible with the complex branching of the dissociative electron attachment cross sections, even though we cannot discuss any details of the vibration dynamics based only on the present fixed-nuclei results.
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Affiliation(s)
- F Kossoski
- Instituto de Física, Universidade de São Paulo, Caixa Postal 66318, 05314-970 São Paulo, São Paulo, Brazil
| | - M H F Bettega
- Departamento de Física, Universidade Federal do Paraná, Caixa Postal 19044, 81531-990 Curitiba, Paraná, Brazil
| | - M T do N Varella
- Instituto de Física, Universidade de São Paulo, Caixa Postal 66318, 05314-970 São Paulo, São Paulo, Brazil
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30
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Castrovilli MC, Bolognesi P, Cartoni A, Catone D, O'Keeffe P, Casavola AR, Turchini S, Zema N, Avaldi L. Photofragmentation of halogenated pyrimidine molecules in the VUV range. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2014; 25:351-367. [PMID: 24385396 DOI: 10.1007/s13361-013-0783-x] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2013] [Revised: 11/11/2013] [Accepted: 11/17/2013] [Indexed: 06/03/2023]
Abstract
In the present work, we studied the photoinduced ion chemistry of the halogenated pyrimidines, a class of prototype radiosensitizing molecules, in the energy region 9-15 eV. The work was stimulated by previous studies on inner shell site-selective fragmentation of the pyrimidine molecule, which have shown that the fragmentation is governed by the population/formation of specific ionic states with a hole in valence orbitals, which in turn correlate to accessible dissociation limits. The combined experimental and theoretical study of the appearance energies of the main fragments provides information on the geometric structure of the products and on the role played by the specific halogen atom and the site of halogenation in the dissociation process. This information can be used to gain new insights on the elementary mechanisms that could possibly explain the enhanced radiation damage to the DNA bases or to the medium in which the bases are embedded, thereby contributing to their radiosensitizing effect.
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31
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Kopyra J, Keller A, Bald I. On the role of fluoro-substituted nucleosides in DNA radiosensitization for tumor radiation therapy. RSC Adv 2014. [DOI: 10.1039/c3ra46735j] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
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32
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Kopyra J, Abdoul-Carime H, Kossoski F, Varella MTDN. Electron driven reactions in sulphur containing analogues of uracil: the case of 2-thiouracil. Phys Chem Chem Phys 2014; 16:25054-61. [DOI: 10.1039/c4cp03544e] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Electron induced fragmentation of 2-thiouracil.
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Affiliation(s)
- J. Kopyra
- Chemistry Department
- Siedlce University
- 08-110 Siedlce, Poland
| | - H. Abdoul-Carime
- Université de Lyon
- Université Lyon 1
- CNRS/IN2P3
- UMR5822
- Institut de Physique Nucléaire de Lyon
| | - F. Kossoski
- Instituto de Fisica
- Universidade de São Paulo
- 05314-970 São Paulo, Brazil
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33
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Ómarsson B, Engmann S, Ingólfsson O. Dissociative electron attachment to the complexation ligands hexafluoroacetylacetone, trifluoroacetylacetone and acetylacetone; a comparative experimental and theoretical study. RSC Adv 2014. [DOI: 10.1039/c4ra04451g] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Influence of fluorination on the negative ion resonances and dissociation dynamics in electron attachment to acetylacetone, trifluoroacetylacetone and hexafluoroacetylacetone are explored through calculations and experiments.
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34
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Bacchus-Montabonel MC. Ab Initio Treatment of Ion-Induced Charge Transfer Dynamics of Isolated 2-Deoxy-d-ribose. J Phys Chem A 2013; 118:6326-32. [DOI: 10.1021/jp408570b] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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35
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Carey R, Lucchese RR, Gianturco FA. Electron scattering from gas phase cis-diamminedichloroplatinum(II): Quantum analysis of resonance dynamics. J Chem Phys 2013; 138:204308. [DOI: 10.1063/1.4807083] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023] Open
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36
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Bacchus-Montabonel MC. Action of secondary ions on biomolecules: anisotropy and radio-sensitization properties. ACTA ACUST UNITED AC 2012. [DOI: 10.1088/1742-6596/373/1/012002] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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37
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Bacchus-Montabonel MC, Tergiman YS. Radiation damage on biomolecular systems: Dynamics of ion induced collision processes. COMPUT THEOR CHEM 2012. [DOI: 10.1016/j.comptc.2011.11.004] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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38
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Chomicz L, Rak J, Storoniak P. Electron-induced elimination of the bromide anion from brominated nucleobases. A computational study. J Phys Chem B 2012; 116:5612-9. [PMID: 22510158 DOI: 10.1021/jp3008738] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
The enhancement of radiodamage to DNA labeled with halonucleobases is attributed to the reactive radical produced from a halonucleobase by the attachment of an electron. We examined at the B3LYP/6-31++G** level electron capture by four brominated nucleobases (BrNBs): 8-bromo-9-methyladenine, 8-bromo-9-methylguanine, 5-bromo-1-methylcytosine, and 5-bromo-1-methyluracil followed by the release of the bromide anion and a nucleobase radical. We demonstrate that neutral BrNBs in both gas and aqueous phases are better electron acceptors than unsubstituted NBs and that resulting anion radicals, BrNBs(•-), can easily transform into the product complex of the bromide anion and the nucleobase radical ([Br(-)···NB(•)]). The overall thermodynamic stimulus for the process starting with the neutral BrNB and ending with the isolated bromide anion and the NB(•) radical is similar in the case of all four BrNBs studied, which suggests their comparable radiosensitizing capabilities.
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Affiliation(s)
- Lidia Chomicz
- Department of Chemistry, University of Gdańsk , Sobieskiego 18, 80-952 Gdańsk, Poland
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39
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Polska K, Rak J, Bass AD, Cloutier P, Sanche L. Electron stimulated desorption of anions from native and brominated single stranded oligonucleotide trimers. J Chem Phys 2012; 136:075101. [PMID: 22360262 PMCID: PMC3813477 DOI: 10.1063/1.3685587] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Abstract
We measured the low energy electron stimulated desorption (ESD) of anions from thin films of native (TXT) and bromine monosubstituted (TBrXT) oligonucleotide trimers deposited on a gold surface (T = thymidine, X = T, deoxycytidine (C), deoxyadenosine (A) or deoxyguanosine (G), Br = bromine). The desorption of H(-), CH(3)(-)/NH(-), O(-)/NH(2)(-), OH(-), CN(-), and Br(-) was induced by 0 to 20 eV electrons. Dissociative electron attachment, below 12 eV, and dipolar dissociation, above 12 eV, are responsible for the formation of these anions. The comparison of the results obtained for the native and brominated trimers suggests that the main pathways of TBrXT degradation correspond to the release of the hydride and bromide anions. Significantly, the presence of bromine in oligonucleotide trimers blocks the electron-induced degradation of nuclobases as evidenced by a dramatic decrease in CN(-) desorption. An increase in the yields of OH(-) is also observed. The debromination yield of particular oligonucleotides diminishes in the following order: BrdU > BrdA > BrdG > BrdC. Based on these results, 5-bromo-2(')-deoxyuridine appears to be the best radiosensitizer among the studied bromonucleosides.
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Affiliation(s)
- Katarzyna Polska
- Department of Chemistry, University of Gdańsk, Sobieskiego 18, 80-952 Gdańsk, Poland
| | - Janusz Rak
- Department of Chemistry, University of Gdańsk, Sobieskiego 18, 80-952 Gdańsk, Poland
| | - Andrew D. Bass
- Research Group in the Radiation Sciences, Faculty of Medicine, Université de Sherbrooke, Sherbrooke, Québec J1H 5N4, Canada
| | - Pierre Cloutier
- Research Group in the Radiation Sciences, Faculty of Medicine, Université de Sherbrooke, Sherbrooke, Québec J1H 5N4, Canada
| | - Léon Sanche
- Research Group in the Radiation Sciences, Faculty of Medicine, Université de Sherbrooke, Sherbrooke, Québec J1H 5N4, Canada
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40
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Lu JF, Yu ZY. Theoretical determinations of ionization potentials of 2-amino-1-phenylethanol. Chem Phys Lett 2012. [DOI: 10.1016/j.cplett.2011.12.058] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
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41
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Houmam A, Hamed EM. Dissociation of aryl sulfonyl phthalimide radical anions: relevance to the biological activity of aryl sulfonyl amides. Chem Commun (Camb) 2012; 48:11328-30. [DOI: 10.1039/c2cc36835h] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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42
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Li Z, Cloutier P, Sanche L, Wagner JR. Low-energy electron-induced damage in a trinucleotide containing 5-bromouracil. J Phys Chem B 2011; 115:13668-73. [PMID: 21902215 PMCID: PMC3818159 DOI: 10.1021/jp205194g] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
The reaction of low-energy electrons (LEEs; 10 eV) with 5'-TpXpT-3' (TXT), where X is uracil (U), thymine (T), and 5-bromouracil (5BrU), was examined by HPLC-UV analysis. The presence of 5BrU increased total damage by >50%. The radiation products of T5BrUT included TUT (40%), free U, T, 5BrU (23%), and fragments (13%). These products may be explained by initial capture of LEEs by the nucleobase to form a transient anion, followed by transfer of the electron within the molecule and cleavage of susceptible bonds by dissociative electron attachment (C-Br, C-N, or C-O bonds). In addition, these products may arise from the uracilyl-5-yl (U-5-yl) radicals that undergo H-atom abstraction from the sugar moiety. Interestingly, several products contained two sites of cleavage (U, pUT, and TUp). The formation of these products was linear with dose, and thus, they arise from the single-electron reactions. To explain these products, we propose that the reaction of LEEs (10 eV) involves the coupling of two dissociative processes in the same molecule (for example, dissociative excitation and dissociative electron attachment). The latter reactions may contribute to the formation of clustered damage, which is the most deleterious damage induced by ionizing radiation.
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Affiliation(s)
- Zejun Li
- Center for Radiobiology and Radiotherapy, Department of Nuclear Medicine and Radiobiology, Faculty of Medicine, Université de Sherbrooke, Sherbrooke, Québec, Canada J1H 5N4
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43
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Charge transfer dynamics of carbon ions with uracil and halouracil targets at low collision energies. Chem Phys Lett 2011. [DOI: 10.1016/j.cplett.2011.01.013] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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44
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Radisic D, Ko YJ, Nilles JM, Stokes ST, Sevilla MD, Rak J, Bowen KH. Photoelectron spectroscopic studies of 5-halouracil anions. J Chem Phys 2011; 134:015101. [PMID: 21219027 PMCID: PMC3188609 DOI: 10.1063/1.3525623] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2010] [Accepted: 11/18/2010] [Indexed: 01/19/2023] Open
Abstract
The parent negative ions of 5-chlorouracil, UCl(-) and 5-fluorouracil, UF(-) have been studied using anion photoelectron spectroscopy in order to investigate the electrophilic properties of their corresponding neutral halouracils. The vertical detachment energies (VDE) of these anions and the adiabatic electron affinities (EA) of their neutral molecular counterparts are reported. These results are in good agreement with the results of previously published theoretical calculations. The VDE values for both UCl(-) and UF(-) and the EA values for their neutral molecular counterparts are much greater than the corresponding values for both anionic and neutral forms of canonical uracil and thymine. These results are consistent with the observation that DNA is more sensitive to radiation damage when thymine is replaced by halouracil. While we also attempted to prepare the parent anion of 5-bromouracil, UBr(-), we did not observe it, the mass spectrum exhibiting only Br(-) fragments, i.e., 5-bromouracil apparently underwent dissociative electron attachment. This observation is consistent with a previous assessment, suggesting that 5-bromouracil is the best radio-sensitizer among these three halo-nucleobases.
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Affiliation(s)
- Dunja Radisic
- Department of Chemistry, Johns Hopkins University, Baltimore, Maryland 21218, USA
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45
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Ferreira da Silva F, Almeida D, Antunes R, Martins G, Nunes Y, Eden S, Garcia G, Limão-Vieira P. Electron transfer processes in potassium collisions with 5-fluorouracil and 5-chlorouracil. Phys Chem Chem Phys 2011; 13:21621-9. [DOI: 10.1039/c1cp22644d] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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46
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Bacchus-Montabonel MC, Tergiman YS. An ab initio study of ion induced charge transfer dynamics in collision of carbon ions with thymine. Phys Chem Chem Phys 2011; 13:9761-7. [DOI: 10.1039/c1cp20503j] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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47
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Itälä E, Ha DT, Kooser K, Rachlew E, Huels MA, Kukk E. Fragmentation patterns of core-ionized thymine and 5-bromouracil. J Chem Phys 2010; 133:154316. [DOI: 10.1063/1.3505140] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023] Open
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48
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Wang CR, Lu QB. Molecular Mechanism of the DNA Sequence Selectivity of 5-Halo-2′-Deoxyuridines as Potential Radiosensitizers. J Am Chem Soc 2010; 132:14710-3. [DOI: 10.1021/ja102883a] [Citation(s) in RCA: 50] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Chun-Rong Wang
- Department of Physics and Astronomy and Departments of Biology and Chemistry, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, Canada N2L 3G1
| | - Qing-Bin Lu
- Department of Physics and Astronomy and Departments of Biology and Chemistry, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, Canada N2L 3G1
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49
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Alcolea Palafox M, Tardajos G, Guerrero-Martínez A, Vats JK, Joe H, Rastogi VK. Relationships observed in the structure and spectra of uracil and its 5-substituted derivatives. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2010; 75:1261-1269. [PMID: 20097598 DOI: 10.1016/j.saa.2009.12.042] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/07/2009] [Revised: 11/06/2009] [Accepted: 12/08/2009] [Indexed: 05/28/2023]
Abstract
The effects on the geometry structure, atomic charges and vibrational wavenumbers of the main different substituents in the 5th position of the uracil ring were analysed, and relationships were established. The 5-monosubstituted derivatives studied were 5-XU (X=F, Cl, Br, I, CH(3), NH(2), NO(2)). The geometry and vibrational wavenumbers were determined in these molecules. The FT-IR and Raman spectra were studied with the support of B3LYP calculations using several basis sets. Several general conclusions were underlined.
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Affiliation(s)
- M Alcolea Palafox
- Departamento de Química-Fisica1, Facultad de Ciencias Químicas, Universidad Complutense, Madrid 28040, Spain
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50
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Champeaux JP, Çarçabal P, Rabier J, Cafarelli P, Sence M, Moretto-Capelle P. Dehalogenation of 5-halo-uracil molecules induced by 100 keV proton collisions. Phys Chem Chem Phys 2010; 12:5454-61. [DOI: 10.1039/b926803k] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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