Transcription-replication encounters, consequences and genomic instability

RNA Polymerase Backtracking in Gene Regulation and Genome Instability

(2012) Evgeny Nudler   CELL

R-loop-mediated genome instability in mRNA cleavage and polyadenylation mutants

(2012) P. C. Stirling et al.   GENES & DEVELOPMENT

Preventing Replication Stress to Maintain Genome Stability: Resolving Conflicts between Replication and Transcription

(2012) Rodrigo Bermejo et al.   MOLECULAR CELL

RNA Polymerase II Collision Interrupts Convergent Transcription

(2012) David J. Hobson et al.   MOLECULAR CELL

The conflict between DNA replication and transcription

(2012) Peter McGlynn et al.   MOLECULAR MICROBIOLOGY

The complex basis underlying common fragile site instability in cancer

(2012) Efrat Ozeri-Galai et al.   TRENDS IN GENETICS

Replication Fork Reversal after Replication–Transcription Collision

(2012) Anne L. De Septenville et al.   PLoS Genetics

The Replication Checkpoint Protects Fork Stability by Releasing Transcribed Genes from Nuclear Pores

(2011) Rodrigo Bermejo et al.   CELL

Linking RNA Polymerase Backtracking to Genome Instability in E. coli

(2011) Dipak Dutta et al.   CELL

Factor-independent transcription pausing caused by recognition of the RNA-DNA hybrid sequence

(2011) Aleksandra Bochkareva et al.   EMBO JOURNAL

R-loop-mediated genomic instability is caused by impairment of replication fork progression

(2011) W. Gan et al.   GENES & DEVELOPMENT

Genome-wide depletion of replication initiation events in highly transcribed regions

(2011) M. M. Martin et al.   GENOME RESEARCH

Genome-scale analysis of metazoan replication origins reveals their organization in specific but flexible sites defined by conserved features

(2011) C. Cayrou et al.   GENOME RESEARCH

DNA replication initiation patterns and spatial dynamics of the human ribosomal RNA gene loci

(2011) D. S. Dimitrova   JOURNAL OF CELL SCIENCE

Collisions between Replication and Transcription Complexes Cause Common Fragile Site Instability at the Longest Human Genes

(2011) Anne Helmrich et al.   MOLECULAR CELL

RNase H and Multiple RNA Biogenesis Factors Cooperate to Prevent RNA:DNA Hybrids from Generating Genome Instability

(2011) Lamia Wahba et al.   MOLECULAR CELL

Yeast Sen1 Helicase Protects the Genome from Transcription-Associated Instability

(2011) Hannah E. Mischo et al.   MOLECULAR CELL

Human Senataxin Resolves RNA/DNA Hybrids Formed at Transcriptional Pause Sites to Promote Xrn2-Dependent Termination

(2011) Konstantina Skourti-Stathaki et al.   MOLECULAR CELL

Co-directional replication–transcription conflicts lead to replication restart

(2011) Houra Merrikh et al.   NATURE

RNAi promotes heterochromatic silencing through replication-coupled release of RNA Pol II

(2011) Mikel Zaratiegui et al.   NATURE

Cell-type-specific replication initiation programs set fragility of the FRA3B fragile site

(2011) Anne Letessier et al.   NATURE

The Transcription Factor DksA Prevents Conflicts between DNA Replication and Transcription Machinery

(2010) Ashley K. Tehranchi et al.   CELL

Loss of Topoisomerase I leads to R-loop-mediated transcriptional blocks during ribosomal RNA synthesis

(2010) A. El Hage et al.   GENES & DEVELOPMENT

Single-allele analysis of transcription kinetics in living mammalian cells

(2010) Sharon Yunger et al.   NATURE METHODS

Determinants of R-loop formation at convergent bidirectionally transcribed trinucleotide repeats

(2010) Kaalak Reddy et al.   NUCLEIC ACIDS RESEARCH

Transcription termination maintains chromosome integrity

(2010) R. S. Washburn et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Direct Restart of a Replication Fork Stalled by a Head-On RNA Polymerase

(2010) R. T. Pomerantz et al.   SCIENCE

Cooperation Between Translating Ribosomes and RNA Polymerase in Transcription Elongation

(2010) S. Proshkin et al.   SCIENCE

Initiation of bacteriophage T4 DNA replication and replication fork dynamics: a review in the Virology Journal series on bacteriophage T4 and its relatives

(2010) Kenneth N Kreuzer et al.   Virology Journal

Co-Orientation of Replication and Transcription Preserves Genome Integrity

(2010) Anjana Srivatsan et al.   PLoS Genetics

Genome-Organizing Factors Top2 and Hmo1 Prevent Chromosome Fragility at Sites of S phase Transcription

(2009) Rodrigo Bermejo et al.   CELL

Replication timing and transcriptional control: beyond cause and effect—part II

(2009) Ichiro Hiratani et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

The helicases DinG, Rep and UvrD cooperate to promote replication across transcription units in vivo

(2009) Hasna Boubakri et al.   EMBO JOURNAL

Genome-wide replication profiles indicate an expansive role for Rpd3L in regulating replication initiation timing or efficiency, and reveal genomic loci of Rpd3 function in Saccharomyces cerevisiae

(2009) S. R.V. Knott et al.   GENES & DEVELOPMENT

The S-Phase Checkpoint Is Required To Respond to R-Loops Accumulated in THO Mutants

(2009) B. Gomez-Gonzalez 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

Highly Transcribed RNA Polymerase II Genes Are Impediments to Replication Fork Progression in Saccharomyces cerevisiae

(2009) Anna Azvolinsky et al.   MOLECULAR CELL

Topoisomerase I suppresses genomic instability by preventing interference between replication and transcription

(2009) Sandie Tuduri et al.   NATURE CELL BIOLOGY

Rates of in situ transcription and splicing in large human genes

(2009) Jarnail Singh et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

R loops stimulate genetic instability of CTG{middle dot}CAG repeats

(2009) Y. Lin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The replisome uses mRNA as a primer after colliding with RNA polymerase

(2008) Richard T. Pomerantz et al.   NATURE

Genome-wide studies highlight indirect links between human replication origins and gene regulation

(2008) J.-C. Cadoret et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Global Reorganization of Replication Domains During Embryonic Stem Cell Differentiation

(2008) Ichiro Hiratani et al.   PLOS BIOLOGY