Epigenetics Cold Spring Harbor Symposia on Quantitative Biology, Volume LXIX

by Stillman, Bruce

• ISBN13: 9780879697297
• ISBN10: 0879697296
• Additional ISBN(s): 9780879697310
• Edition: 1st
• Format: Hardcover
• Copyright: 2005-06-09
• Publisher: Cold Spring Harbor Laboratory Press
• More Book Details
• Purchase Benefits

Summary

The importance of epigenetic regulation of gene expression, particularly in higher organisms, is now clear and the 2004 Cold Spring Harbor Annual Symposium provided many new examples as well as insights into the underlying mechanisms. The resulting volume#x14;with over 60 papers from experts across the field#x14;covers various aspects of nuclear organization and dynamics; genomic imprinting, chromosomal inactivation, and other examples of gene silencing; the histone and DNA modifications associated with these conditions; and the roles of RNA and protein regulators in establishing and maintaining these states.

Table of Contents

Symposium Participants	v
Foreword	xxiii
Epigenetic Reprogramming and Genomic Imprinting
Mechanism of Mouse Germ Cell Specification: A Genetic Program Regulating Epigenetic Reprogramming	1	(10)
M.A. Surani
K. Ancelin
P. Hajkova
U.C. Lange
B. Payer
P. Western
M. Saitou
Epigenetic Mechanisms in Early Mammalian Development	11	(8)
D. Solter
T. Hiiragi
A.V. Evsikov
J. Moyer
W.N. de Vries
A.E. Peaston
B.B. Knowles
Nuclear Cloning, Epigenetic Reprogramming, and Cellular Differentiation	19	(10)
R. Jaenisch
K. Hochedlinger
R. Blelloch
Y. Yamada
K. Baldwin
K. Eggan
Chromosome Loops, Insulators, and Histone Methylation: New Insights into Regulation of Imprinting in Clusters	29	(10)
W. Reik
A. Murrell
A. Lewis
K. Mitsuya
D. Umlauf
W. Dean
M. Higgins
R. Feil
Genomic Imprinting: Antagonistic Mechanisms in the Germ Line and Early Embryo	39	(8)
A.M. Fedoriw
N.I. Engel
M.S. Bartolomei
Drosophila Su(Hw) Regulates an Evolutionarily Conserved Silencer from the Mouse H19 Imprinting Control Region	47	(8)
S. Schoenfelder
R. Paro
The Air Noncoding RNA: An Imprinted cis-silencing Transcript	55	(12)
G. Braidotti
T. Baubec
F. Pauler
C. Seidl
O. Smrzka
S. Stricker
I. Yotova
D.P. Barlow
The (Dual) Origin of Epigenetics	67	(4)
D. Haig
Chromosome Inactivation
Sex and X-Chromosome-wide Repression in Caenorhabditis elegans	71	(10)
B.J. Meyer
P. McDonel
G. Csankovszki
E. Ralston
Targeting Dosage Compensation to the X Chromosome of Drosophila Males	81	(8)
H. Oh
X. Bai
Y. Park
J.R. Bone
M.I. Kuroda
Mammalian X-Chromosome Inactivation: An Epigenetics Paradigm	89	(14)
E. Heard
J. Chaumeil
O. Masui
I. Okamoto
A Continuity of X-Chromosome Silence from Gamete to Zygote	103	(10)
K.D. Huynh
J.T. Lee
DNA Methylation
Reading the DNA Methylation Signal	113	(6)
A. Bird
D. Macleod
Genome Defense and DNA Methylation in Neurospora	119	(6)
E.U. Selker
Role of De Novo DNA Methyltransferases in Initiation of Genomic Imprinting and X-Chromosome Inactivation	125	(6)
M. Kaneda
T. Sado
K. Hata
M. Okano
N. Tsujimoto
E. Li
H. Sasaki
Gene Repression Paradigms in Animal Cells	131	(8)
L. Lande-Diner
J. Zhang
T. Hashimshony
A. Goren
I. Keshet
H. Cedar
Control of Development and Transposon Movement by DNA Methylation in Arabidopsis thaliana	139	(6)
T. Kakutani
M. Kato
T. Kinoshita
A. Miura
DNA Methylation of the Endogenous PAI Genes in Arabidopsis	145	(10)
J. Bender
Induced and Natural Epigenetic Variation	155	(6)
H. Yi
N.C. Riddle
T.L. Stokes
H.-R. Woo
E.J. Richards
Histone Modification and Nucleosome Structure
Linking Covalent Histone Modifications to Epigenetics: The Rigidity and Plasticity of the Marks	161	(10)
Y. Wang
J. Wysocka
J.R. Perlin
L. Leonelli
C.D. Allis
S.A. Coonrod
Steps Toward Understanding the Inheritance of Repressive Methyl-Lysine Marks in Histones	171	(12)
D. Reinberg
S. Chuikov
P. Farnham
D. Karachentsev
A. Kirmizis
A. Kuzmichev
R. Margueron
K. Nishioka
T.S. Preissner
K. Sarma
C. Abate-Shen
R. Steward
A. Vaquero
Noncovalent Modification of Chromatin: Different Remodeled Products with Different ATPase Domains	183	(10)
H.-Y. Fan
G.J. Narlikar
R.E. Kingston
Acetylation of Yeast Histone H4 Lysine 16: A Switch for Protein Interactions in Heterochromatin and Euchromatin	193	(8)
C.B. Millar
S.K. Kurdistani
M. Grunstein
Histone Deposition Proteins: Links between the DNA Replication Machinery and Epigenetic Gene Silencing	201	(8)
A.A. Franco
P.D. Kaufman
Trilogies of Histone Lysine Methylation as Epigenetic Landmarks of the Eukaryotic Genome	209	(10)
M. Lachner
R. Sengupta
G. Schotta
T. Jenuwein
Histone H3 Amino-Terminal Tail Phosphorylation and Acetylation: Synergistic or Independent Transcriptional Regulatory Marks?	219	(8)
C.J. Fry
M.A. Shogren-Knaak
C.L. Peterson
Structural Characterization of Histone H2A Variants	227	(8)
S. Chakravarthy
Y. Bao
V.A. Roberts
D. Tremethick
K. Luger
Chromatin Structure and Dynamics
Epigenetics, Histone H3 Variants, and the Inheritance of Chromatin States	235	(10)
S. Henikoff
E. McKittrick
K. Ahmad
Chromatin Boundaries and Chromatin Domains	245	(6)
G. Felsenfeld
B. Burgess-Beusse
C. Farrell
M. Gaszner
R. Ghirlando
S. Huang
C. Jin
M. Litt
F. Magdinier
V. Mutskov
Y. Nakatani
H. Tagami
A. West
T. Yusufzai
Do Higher-Order Chromatin Structure and Nuclear Reorganization Play a Role in Regulating Hox Gene Expression during Development?	251	(8)
W.A. Bickmore
N.L. Mahy
S. Chambeyron
SIRI and the Origin of Epigenetic States in Saccharomyces cerevisiae	259	(8)
L. Pillus
J. Rine
Analyzing Heterochromatin Formation Using Chromosome Four of Drosophila melanogaster	267	(6)
K.A. Haynes
B.A. Leibovitch
S.H. Rangwala
C. Craig
S.C.R. Elgin
Two Distinct Nucleosome Assembly Pathways: Dependent or Independent of DNA Synthesis Promoted by Histone H3.1 and H3.3 Complexes	273	(8)
Y. Nakatani
D. Ray-Gallet
J.-P. Quivy
H. Tagami
G. Almouzni
The Chromatin Accessibility Complex: Chromatin Dynamics through Nucleosome Sliding	281	(8)
P.B. Becker
Histone H2B Ubiquitylation and Deubiquitylation in Genomic Regulation	289	(12)
N.C.T. Emre
S.L. Berger
Polycomb and Related Silencing Mechanisms
Polycomb Silencing Mechanisms in Drosophila	301	(8)
Y.B. Schwartz
T.G. Khan
G.I. Dellino
V. Pirrotta
Mechanism of Polycomb Group Gene Silencing	309	(10)
Y. Zhang
R. Cao
L. Wang
R.S. Jones
Emerging Roles of Polycomb Silencing in X-Inactivation and Stem Cell Maintenance	319	(8)
I. Muyrers-Chen
I. Hernandez-Munoz
A.H. Lund
M.E. Valk-Lingbeek
P. van der Stoop
E. Boutsma
B. Tolhuis
S.W.M. Bruggeman
P. Taghavi
E. Verhoeven
D. Hulsman
S. Noback
E. Tanger
H. Theunissen
M. van Lohuizen
Nuclear Organization and Dynamics
The Function of Telomere Clustering in Yeast: The Circe Effect	327	(12)
S.M. Gasser
F. Hediger
A. Taddei
F.R. Neumann
M.R. Gartenberg
Genetic Instability in Aging Yeast: A Metastable Hyperrecombinational State	339	(10)
M.A. McMurray
D.E. Gottschling
Restructuring the Genome in Response to Adaptive Challenge: McClintock's Bold Conjecture Revisited	349	(6)
R.A. Jorgensen
Poetry of bl Paramutation: cis- and trans-Chromatin Communication	355	(8)
V.L. Chandler
Heterochromatin and Transposon Silencing
RNA Silencing Pathways in Plants	363	(8)
A.J. Herr
D.C. Baulcombe
Transposons, Tandem Repeats, and the Silencing of Imprinted Genes	371	(10)
R. Martienssen
Z. Lippman
B. May
M. Vaughn
Transposon Silencing and Imprint Establishment in Mammalian Germ Cells	381	(8)
T.H. Bestor
D. Bourc'his
RNA Interference, Heterochromatin, and Centromere Function	389	(8)
R.C. Allshire
RNA Interference, Transposon Silencing, and Cosuppression in the Caenorhabditis elegans Germ Line: Similarities and Differences	397	(6)
V.J.P. Robert
N.L. Vastenhouw
R.H.A. Plasterk
RNA Interference and Related Mechanisms
Plant RNA Interference in Vitro	403	(6)
C. Matranga
P.D. Zamore
A Conserved microRNA Signal Specifies Leaf Polarity	409	(10)
M.C.P. Timmermans
M.T. Juarez
T.L. Phelps-Durr
RNA Interference and Epigenetic Control of Heterochromatin Assembly in Fission Yeast	419	(10)
H. Cam
S.I.S. Grewal
Regulation of Caenorhabditis elegans RNA Interference by the daf-2 Insulin Stress and Longevity Signaling Pathway	429	(4)
D. Wang
G. Ruvkun
Interrelationship of RNA Interference and Transcriptional Gene Silencing in Drosophila	433	(6)
M. Pal-Bhadra
U. Bhadra
J.A. Birchler
Functional Identification of Cancer-relevant Genes through Large-Scale RNA Interference Screens in Mammalian Cells	439	(8)
T.R. Brummelkamp
K. Berns
E.M. Hijmans
J. Mullenders
A. Fabius
M. Heimerikx
A. Velds
R.M. Kerkhoven
M. Madiredjo
R. Bernards
R.L. Beijersbergen
Epigenetic Regulation of Phenotypes
The New Field of Epigenomics: Implications for Cancer and Other Common Disease Research	447	(10)
H.T. Bjornsson
H. Cui
D. Gius
M.D. Fallin
A.P. Feinberg
Epigenetic Regulation in the Control of Flowering	457	(8)
J. Mylne
T. Greb
C. Lister
C. Dean
Transposons and Tandem Repeats Are Not Involved in the Control of Genomic Imprinting at the MEDEA Locus in Arabidopsis	465	(12)
C. Spillane
C. Baroux
J.-M. Escobar-Restrepo
D.R. Page
S. Laoueille
U. Grossniklaus
Toward Molecular Understanding of Polar Overdominance at the Ovine Callipyge Locus	477	(8)
M. Georges
C. Charlier
M. Smit
E. Davis
T. Shay
X. Tordoir
H. Takeda
F. Caiment
N. Cockett
Dscam-mediated Self-versus Non-Self-Recognition by Individual Neurons	485	(4)
G. Neves
A. Chess
Prions of Yeast Are Genes Made of Protein: Amyloids and Enzymes	489	(8)
R.B. Wickner
H.K. Edskes
E.D. Ross
M.M. Pierce
F. Shewmaker
U. Baxa
A. Brachmann
A Possible Epigenetic Mechanism for the Persistence of Memory	497	(2)
K. Si
S. Lindquist
E. Kandel
An Epigenetic Hypothesis for Human Brain Laterality, Handedness, and Psychosis Development	499	(8)
A.J.S. Klar
Summary: Epigenetics---from Phenomenon to Field	507	(14)
D. Gottschling
Author Index	521	(2)
Subject Index	523