RNA Control and Regulation

Symposium Participants vii Foreword xix Global Analyses and Structures Zipcode Binding Protein 1 (ZBP1; IGF2BP1): A Model for Sequence-Specific RNA Regulation Jeetayu Biswas, Leti Nunez, Sulagna Das, Young J. Yoon, Carolina Eliscovich, and Robert H. Singer 1 Pre-mRNA Splicing in the Nuclear Landscape Tucker J. Carrocci and Karla M. Neugebauer 11 Recognition of Poly(A) RNA through Its Intrinsic Helical Structure Terence T.L. Tang and Lori A. Passmore 21 Subcellular Spatial Transcriptomes: Emerging Frontier for Understanding Gene Regulation Furqan M. Fazal and Howard Y. Chang 31 Gene Regulation Transcriptional Coactivator PGC-1a Binding to Newly Synthesized RNAvia CBP80: A Nexus fo rCo- and Posttranscriptional Gene Regulation Xavier Rambout, Hana Cho,and Lynne E. Maquat 47 Mechanistic Dissection of RNA-Binding Proteins in Regulated Gene Expression at Chromatin Levels Jia-Yu Chen, Do-Hwan Lim, and Xiang-Dong Fu 55 Linking RNA Processing and Function Run-Wen Yao, Chu-Xiao Liu, and Ling-Ling Chen 67 Attenuation of Eukaryotic Protein-Coding Gene Expression via Premature Transcription Termination Deirdre C. Tatomer and Jeremy E. Wilusz 83 Regulation of RNA functions 30 UTRs Regulate Protein Functions by Providing a Nurturing Niche during Protein Synthesis Christine Mayr 95 The THO Complex as a Paradigm for the Prevention of Cotranscriptional R-Loops Rosa Luna, Ana G. Rondo ́n, Carmen Pe ́rez-Calero, Irene Salas-Armenteros, and Andre ́s Aguilera 105 U1 snRNP Telescripting Roles in Transcription and Its Mechanism Chao Di, Byung Ran So, Zhiqiang Cai, Chie Arai, Jingqi Duan, and Gideon Dreyfuss 115 Functional and Mechanistic Interplay of Host and Viral Alternative Splicing Regulation during Influenza Infection Matthew G. Thompson and Kristen W. Lynch 123 Chromatin and RNA Small RNA Function in Plants: From Chromatin to the Next Generation Jean-Se ́bastian Parent, Filipe Borges, Atsushi Shimada, and Robert A. Martienssen 133 A Nuclear RNA Degradation Pathway Helps Silence Polycomb/H3K27me3-Marked Loci in Caenorhabditis elegans Anna Mattout, Dimos Gaidatzis, Ve ́ronique Kalck,and Susan M. Gasser 141 To Process or to Decay: A Mechanistic View of the Nuclear RNA Exosome Mahesh Lingaraju,Jan M. Schuller, Sebastian Falk, Piotr Gerlach, Fabien Bonneau, Je ́roˆme Basquin, Christian Benda, and Elena Conti 155 Long Noncoding RNAs in Development and Regeneration of the Neural Lineage Hadas Hezroni, Rotem Ben Tov Perry, and Igor Ulitsky 165 Small RNAs and Defense Systems How Complementary Targets Expose the microRNA 30 End for Tailing and Trimming during Target-Directed microRNA Degradation Paulina Pawlica, Jessica Sheu-Gruttadauria, Ian J. MacRae, and Joan A. Steitz 179 Dicer’s Helicase Domain: A Meeting Place for Regulatory Proteins Sarah R. Hansen, Adedeji M. Aderounmu, Helen M. Donelick, and Brenda L. Bass 185 Reconstitution of siRNA Biogenesis In Vitro: Novel Reaction Mechanisms and RNA Channeling in the RNA-Directed DNA Methylation Pathway Jasleen Singh and Craig S. Pikaard 195 Membraneless Bodies and Phase Separation RNP Granule Formation: Lessons from P-Bodies and Stress Granules Giulia Ada Corbet and Roy Parker 203 Biophysical Properties of HP1-Mediated Heterochromatin Serena Sanulli, John D. Gross,and Geeta J. Narlikar 217 Architectural RNAs for Membraneless Nuclear Body Formation Tomohiro Yamazaki, Shinichi Nakagawa, and Tetsuro Hirose 227 Summary Myriad RNAs and RNA-Binding Proteins Control Cell Functions, Explain Diseases, and Guide New Therapies Byung Ran So and Gideon Dreyfuss 239 Dorcas Cummings Lecture 243 Dorcas Cummings Lecture Jennifer Doudna 245 Conversations at the Symposium 251 Karen Adelman 253 Andre ́s Aguilera 256 David Bartel 259 Ling-Ling Chen 262 Caroline Dean 264 Susan Gasser 266 Samie Jaffrey 268 Leemor Joshua-Tor 271 Alberto Kornblihtt 274 Adrian Krainer 276 Lynne Maquat 279 Karla Neugebauer 282 Nicholas Proudfoot 285 Oliver Rando 288 Phillip Sharp 291 Maria-Elena Torres-Padilla 294 Igor Ulitsky 296 Jeremy Wilusz 299 Feng Zhang 302 Author Index 305 Subject Index 307