Advances in DNA Damage and Repair

Advances in DNA Damage and Repair Oxygen Radical Effects, Cellular Protection, and Biological Consequences

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Advances in DNA Damage and Repair: Oxygen Radical Effects, Celiular Protection, and Biological Consequences edited by Mirai Dizdaroglu and Ali Esat Karakaya

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Advances in DNA Damage and Repair Oxygen Radical Effects, Cellular Protection, and Biological Consequences Edited by

Mirai Dizdaroglu National Institute of Standards and Technology Gaithersburg, Maryland and

Ali Esat Karakaya Gazi University Ankara, Turkey

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Proceedings of a NATO Advanced Study Institute on DNA Damage and Repair: Oxygen Radical Effects, Cellular Protection, and Biological Consequences, held October 14 - 24, 1997, in Tekirova, Antalya, Turkey

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Advances jn DNA damage and repajr , oxygen radical effeets. eellular proteetion. and biologieal eonsequenees I edlted by MiraI Dizdaroglu and Ali Esat Karakaya. p. em. -- (NATD ASI serles. Serles A. Life seienees ; v. 302) ·Publlshed In cooperat ion wlth NATD Selentlfle Affairş Division." "Proeeedings of a NATD Advaneed Study Institute on DNA Damage and Repair Gxyg6n Radical EFfects, Cellular Protectlon. and Biological CDnsequenees. held Detober 14-24. 1997 In Antalya. Turkey"--CIP t.p. verso. Ineludes blbllographleal referenees and index. ISBN 978-1-4613-7207-3

ISBN 978-1-4615-4865-2 (eBook)

DOI 10.1007/978-1-4615-4865-2

1. DNA damage--Congresses. 2. DNA repa lr--Congresses. 3. Active oxygen--Pathophysiology--Congresses. 1. Dizdaroglu. MiraI. II. Karakaya. Ali Esat. III. NATD Advaneed Study Institute on DNA Damage and Repair , Dxygen Radical Effeets. Cellular Proteetlon. and Biologieal Consequenees (1997 , Antalya. Turkey) IV. Series. QH465.A1A36 1999 572.8'6--de21 98-47311 CIP

ISBN 978-1-4613-7207-3 © 1999 Springer Science+Business Media New York Originally published by Kluwer Academic Publishers/Plenum Publishers, New York in 1999 Softcover reprinl af Ihe hardcover 151 edilian 1999

AII rights reserved No part of this book may be reproduced, stored in a retrieval system, or transmitted in any form or by any means, electronic, mechanical, photocopying, microfilmlng, recording, or otherwise, without written permission from the Publisher

PREFACE

Damage to DNA by both exogenous and endogenous sources is increasingly regarded as highly important in the initiation and progression of cancer and in the occurrence of other pathological events. DNA damage caused by reactive oxygen-derived species, also called oxidative DNA damage, is the most frequent type encountered by aerobic cells. Mechanistic studies of carcinogenesis indicate an important role of this type of damage to DNA. There is also strong evidence to support the role of oxidative DNA damage in the aging process. DNA damage is opposed in vivo by repair systems. If not repaired, DNA damage may lead to detrimental biological consequences. Therefore, the repair of DNA damage is regarded as one of the essential events in all life forms. In recent years, the field of DNA repair flourished due to new findings on DNA repair mechanisms and the molecular basis of cancer. In 1994, DNA repair enzymes have been named Science magazine's Molecule of the Year. There is an increasing awareness of the relevance of DNA damage and repair to human health. A detailed knowledge of mechanisms of DNA damage and repair, and how individual repair enzymes function may lead to manipulation of DNA repair in cells and ultimately to an increase in the resistance of human cells to DNA-damaging agents. Our knowledge in this field has increased vastly in recent years. The time was ripe to convene a NATO Advanced Study Institute of scientists of international standing from the fields of biochemistry, molecular biology, enzymology, biomedical science, and radiation biology to analyze these questions in detail and to teach the student participants the basics and new developments of the field of DNA damage and repair. The NATO Advanced Study Institute on "DNA Damage and Repair: Oxygen Radical Effects, Cellular Protection, and Biological Consequences" was held October 14-24, 1997, in Tekirova, Antalya/Turkey. During the meeting, the invited lecturers presented and discussed the state-of-the-art knowledge and recent developments in this research field, and its pertinence to human health. The interactions between the lecturers and participants were synergistic and challenging, and contributed greatly to dissemination of scientific knowledge and the formation of international scientific collaborations. This book contains the papers presented by invited lecturers and the abstracts of the posters presented by the student participants. This meeting was sponsored by the NATO Scientific Affairs Division, Belgium. Additional support was obtained from Biotechnology Division, National Institute of Stand-

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ards and Technology (USA), Danish Center for Gerontology, Scientific and Technical Research Council of Turkey, and Turkish Society of Toxicology.

CONTENTS

I. Mapping Reactive Oxygen-Induced DNA Damage at Nucleotide Resolution Steven Akman, Regen Drouin, Gerald Holmquist, and Henry Rodriguez 2. Application of Oxidative DNA Damage Measurements to Study Antioxidant Actions of Dietary Components .................................. Okezie I. Aruoma, Andrew Jenner, and Barry Halliwell

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3. DNA Repair and Transcription in Premature Aging Syndromes .... . . . . . . . . . . Vilhelm A. Bohr, Adabalayam Balajee, Robert Brosh, Jan Nehlin, Amrita Machwe, Michele Evans, Grigory Dianov, and David Orren

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4. Excision Repair of8-0xoguanine in Eukaryotes: The Oggl Proteins Serge Boiteux and 1. Pablo Radicella

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5. Oxidative Base Damage to DNA: Recent Mechanistic Aspects, Measurement and Repair .. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1. Cadet, M. Bardet, M. Berger, T. Berthod, T. Delatour, C. D'Ham, T. Douki, D. Gasparutto, A. Grand, A. Guy, F. Jolibois, D. Molko, M. Polverelli, J. -L. Ravanat, A. Romieu, N. Signorini, and S. Sauvaigo

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6. Roles of AP Endonucleases in Repair and Genetic Stability . . . . . . . . . . . . . . . . . Bruce Demple, Elisabeth Bailey, Richard A. O. Bennett, Yuji Masuda, Donny Wong, and Yong-jie Xu

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7. Mechanisms of Oxidative DNA Damage; Lesions and Their Measurement. . . . . Miral Dizdaroglu

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8. Drosophila Ribosomal Protein S3 Contains N-Glycosylase, Abasic Site, and Deoxyribophosphodiesterase DNA Repair Activities ................. Walter A. Deutsch 9. Bypass of DNA Damage by RNA Polymerases: Implications for DNA Repair and Transcriptional Mutagenesis ................................. Paul W. Doetsch, Anand Viswanathan, Wei Zhou, and Jiang Liu

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10. The Current Status of Nucleotide Excision Repair in the Yeast Saccharomyces cerevisiae . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Errol C. Friedberg ,William 1. Feaver, Wenya Huang, Michael S. Reagan, Simon H. Reed, Zhaoyang You, Shuguang Wei, Karl Rodriguez, Jose Talamantez, and Alan E. Tomkinson

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11. Physiological Chemistry of Superoxide and Nitric Oxide Interactions: Implications in DNA Damage and Repair .......................... Matthew B. Grisham, David Jourd'heuil, and David A. Wink

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12. Recognition and Excision of Bases from Oxidatively Damaged DNA by Fpg, Oggl, and MutY Proteins. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Arthur P. GroUman and Dmitry O. Zharkov

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13. DNA Repair as a Susceptibility Factor in Chronic Diseases in Human Populations .................................................. Lawrence Grossman, Genevieve Matanoski, Evan Farmer, Mohammad Hedyati, Sugita Ray, Bruce Trock, John Hanfelt, George Roush, Marianne Berwick, and Jennifer Hu

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14. Transcription-Coupled DNA Repair: Which Lesions? Which Diseases? Philip C. Hanawalt and Graciela Spivak

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15. Genotoxicity Tests: Application to Occupational Exposure as Biomarkers Ali E. Karakaya, Semra Sardas, and Serna Burgaz

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16. Studies on Oxidative Mechanisms of Metal-Induced Carcinogenesis: Recent Developments ................................................ Kazimierz S. Kasprzak, Wojciech Bal, Dale W. Porter, and Karol Bialkowski

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17. Mechanism of Action of Escherichia coli Formamidopyrimidine N-Glycosylase and Endonuclease V ........................................... Yoke W. Kow and Lois E. Rabow

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18. Human Uracil-DNA Glycosylase: Gene Structure, Regulation, and Structural Basis for Catalysis . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. Hans E. Krokan, Frank Skorpen, Marit Otterlei, Sangeeta Bharati, Kristin Steinsbekk, Hilde Nilsen, Camilla Skjelbred, Bodil Kavli, Rune StandaI, and Geir Slupphaug 19. Repair of DNA Damaged by Free Radicals. . . . . . . . . . . . . . . . . . . . . . . . . . . . .. Jacques Laval, Cecile Bauche, Juan Jurado, Franck Paillard, Murat Saparbaev, and Olga Sidorkina 20. DNA Lesions Generated in Vivo by Reactive Oxygen Species, Their Accumulation and Repair ....................................... Tomas Lindahl 21. DNA Damage by Iron and Hydrogen Peroxide Stuart Linn

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Contents

22. Measurement of Oxidative Damage to DNA Nucleobases in Vivo: Interpretation of Nuclear Levels and Urinary Excretion of Repair Products ........... Steffen Loft and Henrik Enghusen Poulsen

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23. Effects of Vitamin E Supplementation on in Vivo Oxidative DNA Damage. . . .. J. Lunec, I. D. Podmore, H. R. Griffiths, K. E. Herbert, N. Mistry, and P. Mistry

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24. Repair of Oxidative DNA Damage and Aging: Central Role of AP-Endonuclease Sankar Mitra, Tadahide Izumi, Istvan Boldogh, Chilakamarti V. Ramana, Ching-Chyuan Hsieh, Hiroshi Saito, Julie Lock, and John Papaconstantinou

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25. Action of Antioxidants against Oxidative Stress Etsuo Niki

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26. 8-Hydroxyguanine, DNA Adduct Formed by Oxygen Radicals: From Its Discovery to Current Studies on Its Involvement in Mutagenesis and Repair ...................................................... Susumu Nishimura 27. DNA Damage Induced by Reactive Nitrogen Species. . . . . . . . . . . . . . . . . . . . .. Hiroshi Ohshima, Vladimir Yermilov, Yumiko Yoshie, and Julieta Rubio 28. Modification oflonizing Radiation Damage to Cellular DNA by Factors Affecting Chromatin Structure: Effects of Histone Deacetylase Inhibitors Trichostatin A and Sodium Butyrate . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. Nancy L. Oleinick, Song-mao Chiu, Liang-yan Xue, and Karl J. Mann 29. Estimation of Free Radical Induced DNA Base Damages in Cancerous- and HIV Infected Patients and in Healthy Subjects .......................... Ryszard Olinski, Pawel Jaruga, and Tomasz Zastawny

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30. p53 Tumor Suppressor Gene: Its Role in DNA Damage Response and Cancer Mehmet bzturk and Kezban Unsal

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31. Molecular Mechanism of Nucleotide Excision Repair in Mammalian Cells Joyce T. Reardon and Aziz Sancar

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32. Detection of 8-Hydroxy-2'-Deoxyguanosine by a Monoclonal Antibody N45.1 and Its Application ............................................ Shinya Toyokuni

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33. Mechanistic Studies of Radiation-Induced DNA Damage Clemens von Sonntag

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34. Processing and Consequences of Oxidative DNA Base Lesions . . . . . . . . . . . . .. Susan S. Wallace, Lynn Harrison, Dongyan Jiang, Jeffrey O. Blaisdell, Andrei A. Purmal, and Zafer Hatahet

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35. Ionizing Radiation Damage to DNA: A Challenge to Repair Systems John F. Ward

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Abstracts ........................................ . . .. .................

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Participants ............................................................

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Participants Photo . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ..

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Author Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ..

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Subject Index ..........................................................

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Advances in DNA Damage and Repair Oxygen Radical Effects, Cellular Protection, and Biological Consequences