Regulatory mechanisms of RNA function: emerging roles of DNA repair enzymes

RNA decay machines: The exosome

(2013) Aleksander Chlebowski et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Crystal structure of an RNA-bound 11-subunit eukaryotic exosome complex

(2013) Debora Lika Makino et al.   NATURE

The RNA exosome and proteasome: common principles of degradation control

(2013) Debora L. Makino et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Mutational analysis of the yeast RNA helicase Sub2p reveals conserved domains required for growth, mRNA export, and genomic stability

(2013) C. Saguez et al.   RNA

Structural Basis of DNA Loop Recognition by Endonuclease V

(2013) Ida Rosnes et al.   STRUCTURE

Base excision repair AP endonucleases and mismatch repair act together to induce checkpoint-mediated autophagy

(2013) Tanima SenGupta et al.   Nature Communications

Increased tRNA modification and gene-specific codon usage regulate cell cycle progression during the DNA damage response

(2012) Ashish Patil et al.   CELL CYCLE

Diversity and roles of (t)RNA ligases

(2012) Johannes Popow et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Ccr4-Not complex: the control freak of eukaryotic cells

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

Extensive Degradation of RNA Precursors by the Exosome in Wild-Type Cells

(2012) Rajani Kanth Gudipati et al.   MOLECULAR CELL

The Human Base Excision Repair Enzyme SMUG1 Directly Interacts with DKC1 and Contributes to RNA Quality Control

(2012) Laure Jobert et al.   MOLECULAR CELL

ALKBH5 Is a Mammalian RNA Demethylase that Impacts RNA Metabolism and Mouse Fertility

(2012) Guanqun Zheng et al.   MOLECULAR CELL

NMD: a multifaceted response to premature translational termination

(2012) Stephanie Kervestin et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

A distant cis acting intronic element induces site-selective RNA editing

(2012) Chammiran Daniel et al.   NUCLEIC ACIDS RESEARCH

An RNA virus hijacks an incognito function of a DNA repair enzyme

(2012) R. Virgen-Slane et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Poly(ADP-Ribose) Polymerase 1 (PARP-1) Regulates Ribosomal Biogenesis in Drosophila Nucleoli

(2012) Ernest K. Boamah et al.   PLoS Genetics

N6-methyl-adenosine (m6A) in RNA: An Old Modification with A Novel Epigenetic Function

(2012) Yamei Niu et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

N6-Methyladenosine in nuclear RNA is a major substrate of the obesity-associated FTO

(2011) Guifang Jia et al.   Nature Chemical Biology

UNG-initiated base excision repair is the major repair route for 5-fluorouracil in DNA, but 5-fluorouracil cytotoxicity depends mainly on RNA incorporation

(2011) Henrik Sahlin Pettersen et al.   NUCLEIC ACIDS RESEARCH

Implication of Ccr4-Not complex function in mRNA quality control in Saccharomyces cerevisiae

(2011) J. Assenholt et al.   RNA

ALKBH8-mediated formation of a novel diastereomeric pair of wobble nucleosides in mammalian tRNA

(2011) Erwin van den Born et al.   Nature Communications

Dyskeratosis Congenita

(2011) I. Dokal   Hematology-American Society of Hematology Education Program

Overview of Base Excision Repair Biochemistry

(2011) Yun-Jeong Kim et al.   Current Molecular Pharmacology

U2 snRNA is inducibly pseudouridylated at novel sites by Pus7p and snR81 RNP

(2010) Guowei Wu et al.   EMBO JOURNAL

RNA methylation by Dnmt2 protects transfer RNAs against stress-induced cleavage

(2010) M. Schaefer et al.   GENES & DEVELOPMENT

Mammalian ALKBH8 Possesses tRNA Methyltransferase Activity Required for the Biogenesis of Multiple Wobble Uridine Modifications Implicated in Translational Decoding

(2010) L. Songe-Moller et al.   MOLECULAR AND CELLULAR BIOLOGY

Human AlkB Homolog ABH8 Is a tRNA Methyltransferase Required for Wobble Uridine Modification and DNA Damage Survival

(2010) D. Fu et al.   MOLECULAR AND CELLULAR BIOLOGY

Grand Challenge Commentary: RNA epigenetics?

(2010) Chuan He   Nature Chemical Biology

A link between nuclear RNA surveillance, the human exosome and RNA polymerase II transcriptional termination

(2010) Sérgio F. de Almeida et al.   NUCLEIC ACIDS RESEARCH

AAA+ Proteins RUVBL1 and RUVBL2 Coordinate PIKK Activity and Function in Nonsense-Mediated mRNA Decay

(2010) N. Izumi et al.   Science Signaling

Stressing Out over tRNA Cleavage

(2009) Debrah M. Thompson et al.   CELL

A role for ubiquitin in the clearance of nonfunctional rRNAs

(2009) K. Fujii et al.   GENES & DEVELOPMENT

Origins and activities of the eukaryotic exosome

(2009) S. Lykke-Andersen et al.   JOURNAL OF CELL SCIENCE

Intrusion of a DNA Repair Protein in the RNome World: Is This the Beginning of a New Era?

(2009) G. Tell et al.   MOLECULAR AND CELLULAR BIOLOGY

APE1/Ref-1 Interacts with NPM1 within Nucleoli and Plays a Role in the rRNA Quality Control Process

(2009) C. Vascotto et al.   MOLECULAR AND CELLULAR BIOLOGY

A Convergence of rRNA and mRNA Quality Control Pathways Revealed by Mechanistic Analysis of Nonfunctional rRNA Decay

(2009) Sarah E. Cole et al.   MOLECULAR CELL

Inactivation by oxidation and recruitment into stress granules of hOGG1 but not APE1 in human cells exposed to sub-lethal concentrations of cadmium

(2009) Anne Bravard et al.   MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS

Identification of Apurinic/apyrimidinic endonuclease 1 (APE1) as the endoribonuclease that cleaves c-myc mRNA

(2009) T. Barnes et al.   NUCLEIC ACIDS RESEARCH

The CCR4-NOT Complex Physically and Functionally Interacts with TRAMP and the Nuclear Exosome

(2009) Nowel Azzouz et al.   PLoS One

Specific roles for the Ccr4-Not complex subunits in expression of the genome

(2009) N. Azzouz et al.   RNA

Poly (ADP-Ribose) Polymerase 1 Is Required for Protein Localization to Cajal Body

(2009) Elena Kotova et al.   PLoS Genetics

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

Degradation of several hypomodified mature tRNA species in Saccharomyces cerevisiae is mediated by Met22 and the 5'-3' exonucleases Rat1 and Xrn1

(2008) I. Chernyakov et al.   GENES & DEVELOPMENT

RNA-Based 5-Fluorouracil Toxicity Requires the Pseudouridylation Activity of Cbf5p

(2008) J. Hoskins et al.   GENETICS

Characterization of Abasic Endonuclease Activity of Human Ape1 on Alternative Substrates, as Well as Effects of ATP and Sequence Context on AP Site Incision

(2008) Brian R. Berquist et al.   JOURNAL OF MOLECULAR BIOLOGY

Insights from Xanthine and Uracil DNA Glycosylase Activities of Bacterial and Human SMUG1: Switching SMUG1 to UDG

(2008) Rongjuan Mi et al.   JOURNAL OF MOLECULAR BIOLOGY

Regulatory Role of Human AP-Endonuclease (APE1/Ref-1) in YB-1-Mediated Activation of the Multidrug Resistance Gene MDR1

(2008) R. Chattopadhyay et al.   MOLECULAR AND CELLULAR BIOLOGY

Nucleolar Localization and Dynamic Roles of Flap Endonuclease 1 in Ribosomal DNA Replication and Damage Repair

(2008) Z. Guo et al.   MOLECULAR AND CELLULAR BIOLOGY

tRNA cleavage is a conserved response to oxidative stress in eukaryotes

(2008) D. M. Thompson et al.   RNA