Transcriptomes of six mutants in the Sen1 pathway reveal combinatorial control of transcription termination across the Saccharomyces cerevisiae genome

Common genomic elements promote transcriptional and DNA replication roadblocks

(2016) Kevin Roy et al.   GENOME RESEARCH

Termination of Transcription of Short Noncoding RNAs by RNA Polymerase II

(2015) Karen M. Arndt et al.   Annual Review of Biochemistry

Saccharomyces cerevisiaeSen1 Helicase Domain Exhibits 5′- to 3′-Helicase Activity with a Preference for Translocation on DNA Rather than RNA

(2015) Stephen Martin-Tumasz et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The Exosome Component Rrp6 Is Required for RNA Polymerase II Termination at Specific Targets of the Nrd1-Nab3 Pathway

(2015) Melanie J. Fox et al.   PLoS Genetics

Nab3 Facilitates the Function of the TRAMP Complex in RNA Processing via Recruitment of Rrp6 Independent of Nrd1

(2015) Milo B. Fasken et al.   PLoS Genetics

The yeast Cyc8–Tup1 complex cooperates with Hda1p and Rpd3p histone deacetylases to robustly repress transcription of the subtelomeric FLO1 gene

(2014) Alastair B. Fleming et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Saccharomyces cerevisiae Sen1 as a Model for the Study of Mutations in Human Senataxin That Elicit Cerebellar Ataxia

(2014) X. Chen et al.   GENETICS

The Ssu72 Phosphatase Mediates the RNA Polymerase II Initiation-Elongation Transition

(2014) Jesús D. Rosado-Lugo et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Genome-wide identification of transcript start and end sites by transcript isoform sequencing

(2014) Vicent Pelechano et al.   Nature Protocols

Structure and semi-sequence-specific RNA binding of Nrd1

(2014) Veronika Bacikova et al.   NUCLEIC ACIDS RESEARCH

Role of histone modifications and early termination in pervasive transcription and antisense-mediated gene silencing in yeast

(2014) Manuele Castelnuovo et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Mapping of Yeast RNA Polymerase II Termination

(2014) Paul Schaughency et al.   PLoS Genetics

PAR-CLIP data indicate that Nrd1-Nab3-dependent transcription termination regulates expression of hundreds of protein coding genes in yeast

(2014) Shaun Webb et al.   GENOME BIOLOGY

A Transcriptome-wide Atlas of RNP Composition Reveals Diverse Classes of mRNAs and lncRNAs

(2013) Alex Charles Tuck et al.   CELL

Transcriptome Surveillance by Selective Termination of Noncoding RNA Synthesis

(2013) Daniel Schulz et al.   CELL

A Network of Interdependent Molecular Interactions Describes a Higher Order Nrd1-Nab3 Complex Involved in Yeast Transcription Termination

(2013) Travis J. Loya et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Dealing with Pervasive Transcription

(2013) Torben Heick Jensen et al.   MOLECULAR CELL

Extensive transcriptional heterogeneity revealed by isoform profiling

(2013) Vicent Pelechano et al.   NATURE

Gene regulation by antisense transcription

(2013) Vicent Pelechano et al.   NATURE REVIEWS GENETICS

Nuclear RNA surveillance: role of TRAMP in controlling exosome specificity

(2013) Karyn Schmidt et al.   Wiley Interdisciplinary Reviews-RNA

Transcription of Two Long Noncoding RNAs Mediates Mating-Type Control of Gametogenesis in Budding Yeast

(2012) Folkert J. van Werven et al.   CELL

Interactions of Sen1, Nrd1, and Nab3 with Multiple Phosphorylated Forms of the Rpb1 C-Terminal Domain in Saccharomyces cerevisiae

(2012) Karen Chinchilla et al.   EUKARYOTIC CELL

Serine phosphorylation and proline isomerization in RNAP II CTD control recruitment of Nrd1

(2012) K. Kubicek et al.   GENES & DEVELOPMENT

Ssu72 Phosphatase-dependent Erasure of Phospho-Ser7 Marks on the RNA Polymerase II C-terminal Domain Is Essential for Viability and Transcription Termination

(2012) David W. Zhang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The Saccharomyces cerevisiae Nrd1-Nab3 Transcription Termination Pathway Acts in Opposition to Ras Signaling and Mediates Response to Nutrient Depletion

(2012) M. M. Darby et al.   MOLECULAR AND CELLULAR BIOLOGY

A Universal RNA Polymerase II CTD Cycle Is Orchestrated by Complex Interplays between Kinase, Phosphatase, and Isomerase Enzymes along Genes

(2012) Alain R. Bataille et al.   MOLECULAR CELL

A genetic screen for terminator function in yeast identifies a role for a new functional domain in termination factor Nab3

(2012) T. J. Loya et al.   NUCLEIC ACIDS RESEARCH

Rhn1, a Nuclear Protein, Is Required for Suppression of Meiotic mRNAs in Mitotically Dividing Fission Yeast

(2012) Tomoyasu Sugiyama et al.   PLoS One

YeastMine—an integrated data warehouse for Saccharomyces cerevisiae data as a multipurpose tool-kit

(2012) Rama Balakrishnan et al.   Database-The Journal of Biological Databases and Curation

Crystal structure of Ssu72, an essential eukaryotic phosphatase specific for the C-terminal domain of RNA polymerase II, in complex with a transition state analogue

(2011) Yong Zhang et al.   BIOCHEMICAL JOURNAL

Mpk1 MAPK Association with the Paf1 Complex Blocks Sen1-Mediated Premature Transcription Termination

(2011) Ki-Young Kim et al.   CELL

The nuclear RNA polymerase II surveillance system targets polymerase III transcripts

(2011) Wiebke Wlotzka et al.   EMBO JOURNAL

Regulated Antisense Transcription Controls Expression of Cell-Type-Specific Genes in Yeast

(2011) B. Gelfand et al.   MOLECULAR AND CELLULAR BIOLOGY

Unravelling the means to an end: RNA polymerase II transcription termination

(2011) Jason N. Kuehner et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Yeast Nrd1, Nab3, and Sen1 transcriptome-wide binding maps suggest multiple roles in post-transcriptional RNA processing

(2011) N. Jamonnak et al.   RNA

High-Resolution View of the Yeast Meiotic Program Revealed by Ribosome Profiling

(2011) G. A. Brar et al.   SCIENCE

Transcriptome-Wide Binding Sites for Components of the Saccharomyces cerevisiae Non-Poly(A) Termination Pathway: Nrd1, Nab3, and Sen1

(2011) Tyler J. Creamer et al.   PLoS Genetics

Comprehensive Polyadenylation Site Maps in Yeast and Human Reveal Pervasive Alternative Polyadenylation

(2010) Fatih Ozsolak et al.   CELL

Intergenic transcription causes repression by directing nucleosome assembly

(2010) S. J. Hainer et al.   GENES & DEVELOPMENT

RNA synthesis precision is regulated by preinitiation complex turnover

(2010) K. Poorey et al.   GENOME RESEARCH

Structural insights into cis element recognition of non-polyadenylated RNAs by the Nab3-RRM

(2010) Bradley M. Lunde et al.   NUCLEIC ACIDS RESEARCH

Execution of the meiotic noncoding RNA expression program and the onset of gametogenesis in yeast require the conserved exosome subunit Rrp6

(2010) A. Lardenois et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets

(2009) J. W. Nicol et al.   BIOINFORMATICS

Transcription termination by nuclear RNA polymerases

(2009) P. Richard et al.   GENES & DEVELOPMENT

Yeast RNase III Triggers Polyadenylation-Independent Transcription Termination

(2009) Ghada Ghazal et al.   MOLECULAR CELL

Fail-Safe Transcriptional Termination for Protein-Coding Genes in S. cerevisiae

(2009) Ana G. Rondón et al.   MOLECULAR CELL

Bidirectional promoters generate pervasive transcription in yeast

(2009) Zhenyu Xu et al.   NATURE

Widespread bidirectional promoters are the major source of cryptic transcripts in yeast

(2009) Helen Neil et al.   NATURE

Mutations of RNA polymerase II activate key genes of the nucleoside triphosphate biosynthetic pathways

(2008) Marta Kwapisz et al.   EMBO JOURNAL

Properties of an Intergenic Terminator and Start Site Switch That Regulate IMD2 Transcription in Yeast

(2008) M. H. Jenks et al.   MOLECULAR AND CELLULAR BIOLOGY

Futile Cycle of Transcription Initiation and Termination Modulates the Response to Nucleotide Shortage in S. cerevisiae

(2008) Marilyne Thiebaut et al.   MOLECULAR CELL

Regulation of a Eukaryotic Gene by GTP-Dependent Start Site Selection and Transcription Attenuation

(2008) Jason N. Kuehner et al.   MOLECULAR CELL

Phosphorylation of the RNA polymerase II C-terminal domain dictates transcription termination choice

(2008) Rajani Kanth Gudipati et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Nrd1–Nab3–Sen1 termination complex interacts with the Ser5-phosphorylated RNA polymerase II C-terminal domain

(2008) Lidia Vasiljeva et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY