New roles for elongation factors in RNA polymerase II ubiquitylation and degradation

RNAPII driven post-translational modifications of nucleosomal histones

(2022) Justin Chan et al.   TRENDS IN GENETICS

UBAP2/UBAP2L regulate UV-induced ubiquitylation of RNA polymerase II and are the human orthologues of yeast Def1

(2022) Anna E. Herlihy et al.   DNA REPAIR

DNA damage-induced transcription stress triggers the genome-wide degradation of promoter-bound Pol II

(2022) Barbara Steurer et al.   Nature Communications

The pleiotropic roles of SPT5 in transcription

(2022) Aixia Song et al.   Transcription-Austin

The Paf1 complex is required for RNA polymerase II removal in response to DNA damage

(2022) Feilong Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Yeast Smy2 and its human homologs GIGYF1 and -2 regulate Cdc48/VCP function during transcription stress

(2022) Michelle Harreman Lehner et al.   Cell Reports

DNA Damage-Induced RNAPII Degradation and Its Consequences in Gene Expression

(2022) Juan Cristobal Muñoz et al.   Genes

Regulation of Promoter Proximal Pausing of RNA Polymerase II in Metazoans

(2021) Roberta Dollinger et al.   JOURNAL OF MOLECULAR BIOLOGY

Transcription-Coupled DNA Repair: From Mechanism to Human Disorder

(2021) Diana van den Heuvel et al.   TRENDS IN CELL BIOLOGY

A CSB-PAF1C axis restores processive transcription elongation after DNA damage repair

(2021) Diana van den Heuvel et al.   Nature Communications

The Paf1 Complex: A Keystone of Nuclear Regulation Operating at the Interface of Transcription and Chromatin

(2021) Alex M. Francette et al.   JOURNAL OF MOLECULAR BIOLOGY

Opposite roles of transcription elongation factors Spt4/5 and Elf1 in RNA polymerase II transcription through B-form versus non-B DNA structures

(2021) Jun Xu et al.   NUCLEIC ACIDS RESEARCH

SPT5 stabilizes RNA polymerase II, orchestrates transcription cycles, and maintains the enhancer landscape

(2021) Shibin Hu et al.   MOLECULAR CELL

SPT5 stabilization of promoter-proximal RNA polymerase II

(2021) Yuki Aoi et al.   MOLECULAR CELL

Structural basis of human transcription–DNA repair coupling

(2021) Goran Kokic et al.   NATURE

Elongation factor ELOF1 drives transcription-coupled repair and prevents genome instability

(2021) Marit E. Geijer et al.   NATURE CELL BIOLOGY

ELOF1 is a transcription-coupled DNA repair factor that directs RNA polymerase II ubiquitylation

(2021) Yana van der Weegen et al.   NATURE CELL BIOLOGY

Genome information processing by the INO80 chromatin remodeler positions nucleosomes

(2021) Elisa Oberbeckmann et al.   Nature Communications

Not4 and Not5 modulate translation elongation by Rps7A ubiquitination, Rli1 moonlighting, and condensates that exclude eIF5A

(2021) George E. Allen et al.   Cell Reports

DEF1: Much more than an RNA polymerase degradation factor

(2021) Oluwasegun T. Akinniyi et al.   DNA REPAIR

Transcription-coupled repair and the transcriptional response to UV-Irradiation

(2021) Liam Gaul et al.   DNA REPAIR

Dealing with transcription-blocking DNA damage: Repair mechanisms, RNA polymerase II processing and human disorders

(2021) Nan Jia et al.   DNA REPAIR

SPT5 roles in transcriptional elongation

(2021) Beth Moorefield   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Mechanism of Rad26-assisted rescue of stalled RNA polymerase II in transcription-coupled repair

(2021) Chunli Yan et al.   Nature Communications

Ubiquitination of DNA Damage-Stalled RNAPII Promotes Transcription-Coupled Repair

(2020) Yuka Nakazawa et al.   CELL

Regulation of the RNAPII Pool Is Integral to the DNA Damage Response

(2020) Ana Tufegdžić Vidaković et al.   CELL

The Ccr4-Not complex monitors the translating ribosome for codon optimality

(2020) Robert Buschauer et al.   SCIENCE

The cooperative action of CSB, CSA, and UVSSA target TFIIH to DNA damage-stalled RNA polymerase II

(2020) Yana van der Weegen et al.   Nature Communications

A Genetic Map of the Response to DNA Damage in Human Cells

(2020) Michele Olivieri et al.   CELL

Structure of complete Pol II–DSIF–PAF–SPT6 transcription complex reveals RTF1 allosteric activation

(2020) Seychelle M. Vos et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Genome-wide role of Rad26 in promoting transcription-coupled nucleotide excision repair in yeast chromatin

(2020) Mingrui Duan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mechanisms of Transcription Elongation Factor DSIF (Spt4–Spt5)

(2020) Tim-Michael Decker   JOURNAL OF MOLECULAR BIOLOGY

Cockayne syndrome B protein acts as an ATP-dependent processivity factor that helps RNA polymerase II overcome nucleosome barriers

(2020) Jun Xu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Resolution of R-loops by INO80 promotes DNA replication and maintains cancer cell proliferation and viability

(2020) Lisa Prendergast et al.   Nature Communications

Molecular basis of transcriptional pausing, stalling, and transcription-coupled repair initiation

(2020) Juntaek Oh et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Causes and consequences of RNA polymerase II stalling during transcript elongation

(2020) Melvin Noe Gonzalez et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Structural insight into nucleosome transcription by RNA polymerase II with elongation factors

(2019) Haruhiko Ehara et al.   SCIENCE

In vitro analysis of RNA polymerase II elongation complex dynamics

(2019) Yoo Jin Joo et al.   GENES & DEVELOPMENT

A conserved CAF40-binding motif in metazoan NOT4 mediates association with the CCR4–NOT complex

(2019) Csilla Keskeny et al.   GENES & DEVELOPMENT

Ccr4–Not maintains genomic integrity by controlling the ubiquitylation and degradation of arrested RNAPII

(2019) Haoyang Jiang et al.   GENES & DEVELOPMENT

The DNA damage response to transcription stress

(2019) Hannes Lans et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Born to run: control of transcription elongation by RNA polymerase II

(2018) Fei Xavier Chen et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The Cellular Response to Transcription-Blocking DNA Damage

(2018) Lea H. Gregersen et al.   TRENDS IN BIOCHEMICAL SCIENCES

Structural basis of DNA lesion recognition for eukaryotic transcription-coupled nucleotide excision repair

(2018) Wei Wang et al.   DNA REPAIR

Structural basis for the initiation of eukaryotic transcription-coupled DNA repair

(2017) Jun Xu et al.   NATURE

The elongation factor Spt4/5 regulates RNA polymerase II transcription through the nucleosome

(2017) John B. Crickard et al.   NUCLEIC ACIDS RESEARCH

Common TFIIH recruitment mechanism in global genome and transcription-coupled repair subpathways

(2017) Masahiko Okuda et al.   NUCLEIC ACIDS RESEARCH

The INO80 remodeller in transcription, replication and repair

(2017) Jérôme Poli et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Def1 interacts with TFIIH and modulates RNA polymerase II transcription

(2017) Nivedita Damodaren et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structure of the complete elongation complex of RNA polymerase II with basal factors

(2017) Haruhiko Ehara et al.   SCIENCE

Genomic Nucleosome Organization Reconstituted with Pure Proteins

(2016) Nils Krietenstein et al.   CELL

Mec1, INO80, and the PAF1 complex cooperate to limit transcription replication conflicts through RNAPII removal during replication stress

(2016) Jérôme Poli et al.   GENES & DEVELOPMENT

Biochemical Analysis of Yeast Suppressor of Ty 4/5 (Spt4/5) Reveals the Importance of Nucleic Acid Interactions in the Prevention of RNA Polymerase II Arrest

(2016) J. Brooks Crickard et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The Ccr4-Not complex is a key regulator of eukaryotic gene expression

(2016) Martine A. Collart   Wiley Interdisciplinary Reviews-RNA

Ccr4-Not and TFIIS Function Cooperatively To Rescue Arrested RNA Polymerase II

(2015) Arnob Dutta et al.   MOLECULAR AND CELLULAR BIOLOGY

INO80 Chromatin Remodeler Facilitates Release of RNA Polymerase II from Chromatin for Ubiquitin-Mediated Proteasomal Degradation

(2015) Anne Lafon et al.   MOLECULAR CELL

The Rpb4/7 Module of RNA Polymerase II Is Required for Carbon Catabolite Repressor Protein 4-Negative on TATA (Ccr4-Not) Complex to Promote Elongation

(2014) Vinod Babbarwal et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The role of the E3 ligase Not4 in cotranslational quality control

(2014) Olesya O. Panasenko   Frontiers in Genetics

Proteasome-Mediated Processing of Def1, a Critical Step in the Cellular Response to Transcription Stress

(2013) Marcus D. Wilson et al.   CELL

SWR-C and INO80 Chromatin Remodelers Recognize Nucleosome-free Regions Near +1 Nucleosomes

(2013) Kuangyu Yen et al.   CELL

The Recruitment of theSaccharomyces cerevisiaePaf1 Complex to Active Genes Requires a Domain of Rtf1 That Directly Interacts with the Spt4-Spt5 Complex

(2013) Manasi K. Mayekar et al.   MOLECULAR AND CELLULAR BIOLOGY

Structural basis for Spt5-mediated recruitment of the Paf1 complex to chromatin

(2013) A. D. Wier et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Histone Methyltransferase DOT1L Drives Recovery of Gene Expression after a Genotoxic Attack

(2013) Valentyn Oksenych et al.   PLoS Genetics

The control of elongation by the yeast Ccr4–Not complex

(2012) Joseph C. Reese   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Ubiquitylation and degradation of elongating RNA polymerase II: The last resort

(2012) Marcus D. Wilson et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Ccr4-Not complex: the control freak of eukaryotic cells

(2012) Jason E. Miller et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

Pol II CTD kinases Bur1 and Kin28 promote Spt5 CTR-independent recruitment of Paf1 complex

(2012) Hongfang Qiu et al.   EMBO JOURNAL

Mutations in UVSSA cause UV-sensitive syndrome and impair RNA polymerase IIo processing in transcription-coupled nucleotide-excision repair

(2012) Yuka Nakazawa et al.   NATURE GENETICS

UV-sensitive syndrome protein UVSSA recruits USP7 to regulate transcription-coupled repair

(2012) Petra Schwertman et al.   NATURE GENETICS

The multifunctional Ccr4–Not complex directly promotes transcription elongation

(2011) Jennifer A. Kruk et al.   GENES & DEVELOPMENT

Diverse Roles of RNA Polymerase II-associated Factor 1 Complex in Different Subpathways of Nucleotide Excision Repair

(2011) Danielle Tatum et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Cdc48/p97 Mediates UV-Dependent Turnover of RNA Pol II

(2011) Rati Verma et al.   MOLECULAR CELL

Proficient repair in chromatin remodeling defective ino80 mutants of Saccharomyces cerevisiae highlights replication defects as the main contributor to DNA damage sensitivity

(2010) Wioletta Czaja et al.   DNA REPAIR

Uniform transitions of the general RNA polymerase II transcription complex

(2010) Andreas Mayer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Phosphorylation of the Transcription Elongation Factor Spt5 by Yeast Bur1 Kinase Stimulates Recruitment of the PAF Complex

(2009) Y. Liu et al.   MOLECULAR AND CELLULAR BIOLOGY

Stability, Flexibility, and Dynamic Interactions of Colliding RNA Polymerase II Elongation Complexes

(2009) Hideaki Saeki et al.   MOLECULAR CELL

Histone H3 Lys79 methylation is required for efficient nucleotide excision repair in a silenced locus of Saccharomyces cerevisiae

(2009) Shubho Chaudhuri et al.   NUCLEIC ACIDS RESEARCH

Distinct ubiquitin ligases act sequentially for RNA polymerase II polyubiquitylation

(2009) M. Harreman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-Wide Analysis of Factors Affecting Transcription Elongation and DNA Repair: A New Role for PAF and Ccr4-Not in Transcription-Coupled Repair

(2009) Hélène Gaillard et al.   PLoS Genetics