RNAi: A Guide to Gene Silencing

The ability of double stranded RNA to inhibit the expression of genes with an appropriate sequence can be harnessed to silence target genes in vitro in a new and powerful way. This volume combines reliable RNAi protocols for a variety of species with discussion of strategies for the effective design of experiments using this important new technique that is changing the way experimental science is done.

Preface

vii

Introduction

1

(4)

Gregory J. Hannon

Sense Cosuppression in Plants: Past, Present, and Future

5

(18)

Richard A. Jorgensen

Transgene Cosuppression in Animals

23

(20)

James A. Birchler

Manika Pal-Bhadra

Utpal Bhadra

Regulation of the Genome by Double-stranded RNA

43

(22)

Marjori Matzke

M. Florian Mette

Tatsuo Kanno

Werner Aufsatz

Antonius J.M. Matzke

RNAi in Caenorhabditis elegans

65

(22)

Rene F. Ketting

Marcel Tijsterman

Ronald H.A. Plasterk

Small RNAs, Big Biology: Biochemical Studies of RNA Interference

87

(22)

Gregory J. Hannon

Phillip D. Zamore

shRNA-mediated Silencing of Mammalian Gene Expression

109

(20)

Michael T. McManus

Douglas S. Conklin

Transposable Elements, RNA Interference, and the Origin of Heterochromatin

129

(20)

Rob Martienssen

Tom Volpe

Zach Lippman

Ann-Valerie Gendrel

Catherine Kidner

Pablo Rabinowicz

Vincent Colot

The Ribonuclease III Superfamily: Forms and Functions in RNA, Maturation, Decay, and Gene Silencing

149

(26)

Allen W. Nicholson

RNA-dependent RNA Polymerase in Gene Silencing

175

(30)

Luyun Huang

John Gledhill

Craig E. Cameron

Structure and Function of Heterochromatin: Implications for Epigenetic Gene Silencing and Genome Organization

205

(28)

Ira M. Hall

Shiv I.S. Grewal

Total Interference: Genome-wide RNAi Screens in C. elegans

233

(10)

Andrew G. Fraser

Julie Ahringer

PTGS Approaches to Large-scale Functional Genomics in Plants

243

(22)

Tessa M. Burch-Smith

Jennifer L. Miller

Savithramma P. Dinesh-Kumar

Mammalian RNA Interference

265

(32)

Thomas Tuschl

RNAi in Avian Embryos

297

(16)

Esther T. Stoeckli

Guide to RNAi in Mouse Oocytes and Preimplantation Embryos

313

(32)

Paula Stein

Petr Svoboda

RNAi Technologies in Drosophila Cell Culture

345

(16)

Scott M. Hammond

RNAi Applications in Drosophila melanogaster

361

(40)

Richard W. Carthew

RNA Interference in Trypanosoma brucei and Other Nonclassical Model Organisms

401

(22)

Elisabetta Ullu

Christian Tschudi

Appendices

1 Cautions

413

(8)

2 Suppliers

421

(2)

Index

423

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RNAi: A Guide to Gene Silencing

Summary

Table of Contents

Supplemental Materials