Biological Responses to DNA Damage Cold Spring Harbor Symposia on Quantitative Biology, Volume LXV

by Stillman, Bruce

• ISBN13: 9780879696061
• ISBN10: 0879696060
• Edition: 1st
• Format: Paperback
• Copyright: 2001-05-21
• Publisher: Cold Spring Harbor Laboratory Press
• More Book Details
• Purchase Benefits

Summary

Living cells have evolved many ways of coping with metabolic events and environmental influences that damage DNA. These mechanisms, and the frequent progression to cancer that results when they go awry, are reviewed in this volume by authors from over sixty of the world#x19;s leading laboratories. The topics discussed include DNA repair, mutagenesis and other damage-tolerance functions, checkpoint control, apoptosis, and adaptation. They draw from studies on human and yeast cells. Current, but with a valuable historical perspective, this volume has the depth and lasting value typical of this most prestigious series and is essential reading for investigators of DNA replication, cell cycle control, and tumorigenesis.

Table of Contents

Symposium Participants	v
Foreword	xxi
Mutation Response and Error Bypass
Understanding the Complexity of an Organism's Responses to DNA Damage	1	(10)
G.C. Walker
DNA Repair Systems and Bacterial Evolution	11	(10)
M. Radman
F. Taddei
I. Matic
Adaptive Mutation in Escherichia coli	21	(10)
P.L. Foster
The Biochemical Basis and In Vivo Regulation of SOS-induced Mutagenesis Promoted by Escherichia coli DNA Polymerase V (UmuD'2C)	31	(10)
M.F. Goodman
R. Woodgate
Human DNA Polymerase κ: A Novel DNA Polymerase of Unknown Biological Function Encoded by the DINBI Gene	41	(10)
V.L. Gerlach
W.J. Feaver
P.L. Fischhaber
J.A. Richardson
L. Aravind
E.V. Koonin
K. Bebenek
T.A. Kunkel
E.C. Friedberg
Role of Yeast and Human DNA Polymerase η in Error-free Replication of Damaged DNA	51	(10)
S. Prakash
R.E. Johnson
M.T. Washington
L. Haracska
C.M. Kondratick
L. Prakash
Roles of DNA Polymerase ζ and Rev 1 Protein in Eukaryotic Mutagenesis and Translesion Replication	61	(10)
C.W. Lawrence
P.E.M. Gibbs
R.S. Murante
X.-D. Wang
Z. Li
T.P. McManus
W.G. McGregor
J.R. Nelson
D.C. Hinkle
V.M. Maher
Xeroderma Pigmentosum Variant: From a Human Genetic Disorder to a Novel DNA Polymerase	71	(10)
C. Masutani
R. Kusumoto
A. Yamada
M. Yuasa
M. Araki
T. Nogimori
M. Yokoi
T. Eki
S. Iwai
F. Hanaoka
Streisinger Revisited: DNA Synthesis Errors Mediated by Substrate Misalignments	81	(12)
K. Bebenek
T.A. Kunkel
Base Recognition and Excision Repair
Roles of Watson-Crick and Minor Groove Hydrogen Bonds in DNA Replication	93	(10)
E.T. Kool
Structural and Mechanistic Studies on Repair of 8-Oxoguanine in Mammalian Cells	103	(10)
S.D. Bruner
D.P.G. Norman
J.C. Fromme
G.L. Verdine
Envisioning the Fourth Dimension of the Genetic Code: The Structural Biology of Macromolecular Recognition and Conformational Switching in DNA Repair	113	(14)
K.-P. Hopfner
S.S. Parikh
J.A. Tainer
Repair of Endogenous DNA Damage	127	(8)
T. Lindahl
D.E. Barnes
Base Removers and Strand Scissors: Different Strategies Employed in Base Excision and Strand Incision at Modified Base Residues in DNA	135	(8)
E. Seeberg
L. Luna
I. Morland
L. Eide
B. Johnsen
E. Larsen
I. Alseth
F. Dantzer
K. Baynton
R. Aamodt
K.I. Kristiansen
T. Rognes
A. Klungland
M. Bjoras
DNA Polymerase β and Mammalian Base Excision Repair	143	(14)
S.H. Wilson
R.W. Sobol
W.A. Beard
J.K. Horton
R. Prasad
B.J. Vande Berg
Photolyase/Cryptochrome Family Blue-light Photoreceptors Use Light Energy to Repair DNA or Set the Circadian Clock	157	(16)
A. Sancar
C. Thompson
R.J. Thresher
F. Araujo
J. Mo
S. Ozgur
E. Vagas
L. Dawut
C.P. Selby
Nucleotide Excision Repair
DNA Damage Recognition and Nucleotide Excision Repair in Mammalian Cells	173	(10)
R.D. Wood
S.J. Araujo
R.R. Ariza
D.P. Batty
M. Biggerstaff
E. Evans
P.-H. Gaillard
D. Gunz
B. Koberle
I. Kuraoka
J.G. Moggs
J.K. Sandall
M.K.K. Shivji
Regulation of Nucleotide Excision Repair in Bacteria and Mammalian Cells	183	(10)
P.C. Hanawalt
D.J. Crowley
J.M. Ford
A.K. Ganesan
D.R. Lloyd
T. Nouspikel
C.A. Smith
G. Spivak
S. Tornaletti
Three-dimensional Structure and Function of Replication Protein A. G. Mer	193	(8)
A. Bochkarev
W.J. Chazin
A.M. Edwards
Transcription-coupled Repair of Oxidative DNA Damage in Human Cells: Mechanisms and Consequences	201	(16)
S. Tsutakawa
P.K. Cooper
Mismatch Repair
Signaling Mismatch Repair: The Mechanics of an Adenosine-Nucleotide Molecular Switch	217	(8)
R. Fishel
S. Acharya
M. Berardini
T. Bocker
N. Charbonneau
A. Cranston
S. Gradia
S. Guerrette
C.D. Heinen
A. Mazurek
T. Snowden
C. Schmutte
K.-S. Shim
G. Tombline
T. Wilson
DNA Mismatch Repair: From Structure to Mechanism	225	(8)
W. Yang
M.S. Junop
C. Ban
G. Obmolova
P. Hsieh
New Recognition Mode for a TG Mismatch: The Atomic Structure of a Very Short Patch Repair Endonuclease-DNA Complex	233	(8)
S.E. Tsutakawa
K. Morikawa
Temporary and Permanent Mutators Lacking the Mismatch Repair System: The Enhancement of Mutators in Cell Populations	241	(12)
J.H. Miller
A. Yeung
P. Funchain
E. Mao
J. Stewart
W.M. Clendenin
M.M. Slupska
Telomeres and the Stability of DNA Ends
Molecular Manifestations and Molecular Determinants of Telomere Capping	253	(12)
E.H. Blackburn
S. Chan
J. Chang
T.B. Fulton
A. Krauskopf
M. McEachern
J. Prescott
J. Roy
C. Smith
H. Wang
A New Connection at Human Telomeres: Association of the Mre 11 Complex with TRF2	265	(10)
T. de Lange
J.H.J. Petrini
Telomere Length, Telomere-binding Proteins, and DNA Damage Signaling	275	(6)
M.T. Hemann
J. Hackett
A. IJpma
C.W. Greider
All Things Must End: Telomere Dynamics in Yeast	281	(16)
M.L. DuBois
S.J. Diede
A.E. Stellwagen
D.E. Gottschling
Sir2: An NAD-dependent Histone Deacetylase That Connects Chromatin Silencing, Metabolism, and Aging	297	(6)
S. Imai
F.B. Johnson
R.A. Marciniak
M. McVey
P.U. Park
L. Guarente
Arrest, Adaptation, and Recovery Following a Chromosome Double-strand Break in Saccharomyces cerevisiae	303	(12)
S.E. Lee
A. Pellicioli
J. Demeter
M.P. Vaze
A.P. Gasch
A. Malkova
P.O. Brown
D. Botstein
T. Stearns
M. Foiani
J.E. Haber
Double-strand Break Repair in Human Cells	315	(8)
S.C. West
C. Chappell
L. A. Hanakahi
J. - Y. Masson
M.J. Mcllwraith
E. Van Dyck
Damage Control during Replication and Mitosis
Controlling S-phase Onset in Fission Yeast	323	(10)
Z. Lygerou
P. Nurse
Coping with and Recovering from Hydroxyurea-induced Replication Fork Arrest in Budding Yeast	333	(10)
J.F.X. Diffley
K. Bousset
K. Labib
E.A. Noton
C. Santocanale
J.A. Tercero
Damage Response and DNTP Regulation: The Interaction between Ribonucleotide Reductase and Its Inhibitor	343	(4)
SmII B. Georgieva
X. Zhao
R. Rothstein
Is Rad9p Upstream or Downstream from Meclp?	347	(6)
E.J. Foss
DNA Damage Checkpoint Control of Mitosis in Fission Yeast	353	(8)
N. Rhind
B.A. Baber-Furnari
A. Lopez-Girona
M.N. Boddy
J.-M. Brondello
B. Moser
P. Shanahan
A. Blasina
C. McGowan
P. Russell
Mitotic Checkpoints, Genetic Instability, and Cancer	361	(8)
M. Dobles
P.K. Sorger
Microscopy-induced Radiation Damage, Microtubules, and Progression through the Terminal Stage of G2 (Prophase) in Vertebrate Somatic Cells	369	(8)
C.L. Rieder
R. Cole
Genome Stability and Checkpoint Control
Complexity of Damage Produced by lonizing Radiation	377	(6)
J.F. Ward
Complex Transcriptional Responses to Macromolecular Damaging Agents: Regulatory Responses Specific for Sn2 Alkylation and the MAGI Gene	383	(12)
T.J. Begley
S.A. Jelinsky
L.D. Samson
The Interplay between Nonhomologous End-joining and Cell Cycle Checkpoint Factors in Development, Genomic Stability, and Tumorigenesis	395	(10)
D.O. Ferguson
J.M. Sekiguchi
K.M. Frank
Y.Gao
N.E. Sharpless
Y. Gu
J. Manis
R.A. DePinho
F.W. Alt
S-phase Functions of the Mre11 Complex	405	(8)
J.H.J. Petrini
The FHA Domain, a Phosphoamino Acid Binding Domain Involved in the DNA Damage Response Pathway	413	(10)
M. Huang
S.J. Elledge
The FHA Domain in DNA Repair and Checkpoint Signaling	423	(10)
D. Durocher
S.J. Smerdon
M.B. Yaffe
S.P. Jackson
Details and Concerns Regarding the G2/M DNA Damage Checkpoint in Budding Yeast	433	(10)
T. Weinert
E. Little
L. Shanks
A. Admire
R. Gardner
C. Putnam
R. Michelson
K. Nyberg
P. Sundareshan
Establishment of and Recovery from Damage Checkpoint Requires Sequential Interactions of Crb2 with Protein Kinases Rad3, Chk 1, and Cdc2	443	(8)
F. Esashi
S. Mochida
T. Matsusaka
T. Obara
A. Ogawa
K. Tamai
M. Yanagida
Analysis of the Fission Yeast Checkpoint Rad Proteins	451	(6)
T. Caspari
C. Davies
A.M. Carr
A Conserved Role for the Hus1 Checkpoint Protein in Eukaryotic Genome Maintenance	457	(10)
R.S. Weiss
P. Leder
T. Enoch
DNA-damage-induced Checkpoint Pathways in the Nematode Caenorhabditis elegans	467	(8)
E.R. Hofmann
S. Milstein
M.O. Hengartner
p53 and the DNA Damage Response
The Transcriptional Program following p53 Activation	475	(8)
R. Zhao
K. Gish
M. Murphy
Y. Yin
D. Notterman
W.H. Hoffman
E. Tom
D.H. Mack
A.J. Levine
Regulation of p53 after Different Forms of Stress and at Different Cell Cycle Stages	483	(6)
V. Gottifredi
S.Y. Shieh
C. Prives
The DNA Damage Checkpoint and Human Cancer	489	(10)
L.B. Schultz
N.H. Chehab
A. Malikzay
R.A. DiTullio, Jr.
E.S. Stavridi
T.D. Halazonetis
DNA Damage Responses and Chemosensitivity in the Eμ-myc Mouse Lymphoma Model	499	(12)
C.A. Schmitt
R.R. Wallace-Brodeur
C.T. Rosenthal
M.E. McCurrach
S.W. Lowe
Genetic Instability, Oncogenes, and the p53 Pathway	511	(10)
G. Wahl
O. Vafa
DNA Damage and Cancer Progression
Multiple Signaling Pathways Involving ATM	521	(6)
M.B. Kastan
D.- S. Lim
S.-T. Kim
B. Xu
C. Canman
ATM: Sounding the Double-strand Break Alarm	527	(8)
Y. Shiloh
Interactions of the Nijmegen Breakage Syndrome Protein with ATM and BRCAI	535	(12)
X. Wu
G. Rathbun
W.S. Lane
D.T. Weaver
D.M. Livingston
The Function of BRCAI in DNA Damage Response	547	(6)
J.-S. Lee
K. Collins
A. Brown
C.-H. Lee
J.H. Chung
Recombination between Two Chromosomes: Implications for Genomic Integrity in Mammalian Cells	553	(8)
C. Richardson
M. Jasin
Transcription-coupled Repair: A Multifunctional Signaling Pathway	561	(6)
S.A. Leadon
Chromosomal Instability and Cancer Predisposition: Insights from Studies on the Breast Cancer Susceptibility Gene, BRCA2	567	(6)
A.R. Venkitaraman
Roles of RecQ Family Helicases in the Maintenance of Genome Stability	573	(10)
L. Wu
S.L. Davies
I.D. Hickson
Role of DNA Break-sensing Molecule Poly (ADP-ribose) Polymerase (PARP) in Cellular Function and Radiation Toxicity	583	(10)
W.-M. Tong
D. Galendo
Z. -Q. Wang
Summary: Biological Responses to DNA Damage: A Perspective in the New Millennium	593	(10)
E.C. Friedberg
Author Index	603	(2)
Subject Index	605