Replisome bypass of transcription complexes and R-loops

Direct removal of RNA polymerase barriers to replication by accessory replicative helicases

(2019) Michelle Hawkins et al.   NUCLEIC ACIDS RESEARCH

R-Loops as Cellular Regulators and Genomic Threats

(2019) Madzia P. Crossley et al.   MOLECULAR CELL

High-resolution, strand-specific R-loop mapping via S9.6-based DNA–RNA immunoprecipitation and high-throughput sequencing

(2019) Lionel A. Sanz et al.   Nature Protocols

R Loops: From Physiological to Pathological Roles

(2019) Tatiana García-Muse et al.   CELL

Elongation Factor TFIIS Prevents Transcription Stress and R-Loop Accumulation to Maintain Genome Stability

(2019) Diana Zatreanu et al.   MOLECULAR CELL

ATR Protects the Genome against R Loops through a MUS81-Triggered Feedback Loop

(2019) Dominick A. Matos et al.   MOLECULAR CELL

Fork Cleavage-Religation Cycle and Active Transcription Mediate Replication Restart after Fork Stalling at Co-transcriptional R-Loops

(2019) Nagaraja Chappidi et al.   MOLECULAR CELL

Yra1-bound RNA–DNA hybrids cause orientation-independent transcription–replication collisions and telomere instability

(2018) María García-Rubio et al.   GENES & DEVELOPMENT

RNA/DNA Hybrid Interactome Identifies DXH9 as a Molecular Player in Transcriptional Termination and R-Loop-Associated DNA Damage

(2018) Agnese Cristini et al.   Cell Reports

Human proteins that interact with RNA/DNA hybrids

(2018) Isabel X. Wang et al.   GENOME RESEARCH

Genome-wide Map of R-Loop-Induced Damage Reveals How a Subset of R-Loops Contributes to Genomic Instability

(2018) Lorenzo Costantino et al.   MOLECULAR CELL

R-ChIP Using Inactive RNase H Reveals Dynamic Coupling of R-loops with Transcriptional Pausing at Gene Promoters

(2017) Liang Chen et al.   MOLECULAR CELL

Histone Mutants Separate R Loop Formation from Genome Instability Induction

(2017) Desiré García-Pichardo et al.   MOLECULAR CELL

The transcription fidelity factor GreA impedes DNA break repair

(2017) Priya Sivaramakrishnan et al.   NATURE

Transient RNA-DNA Hybrids Are Required for Efficient Double-Strand Break Repair

(2016) Corina Ohle et al.   CELL

Conflict Resolution in the Genome: How Transcription and Replication Make It Work

(2016) Stephan Hamperl et al.   CELL

DEAD Box 1 Facilitates Removal of RNA and Homologous Recombination at DNA Double-Strand Breaks

(2016) Lei Li et al.   MOLECULAR AND CELLULAR BIOLOGY

Prevalent, Dynamic, and Conserved R-Loop Structures Associate with Specific Epigenomic Signatures in Mammals

(2016) Lionel A. Sanz et al.   MOLECULAR CELL

Replication landscape of the human genome

(2016) Nataliya Petryk et al.   Nature Communications

Multigene Editing in the Escherichia coli Genome via the CRISPR-Cas9 System

(2015) Yu Jiang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The B. subtilis Accessory Helicase PcrA Facilitates DNA Replication through Transcription Units

(2015) Christopher N. Merrikh et al.   PLoS Genetics

Transcription-Coupled Nucleotide Excision Repair Factors Promote R-Loop-Induced Genome Instability

(2014) Julie Sollier et al.   MOLECULAR CELL

DNA damage triggers SAF-A and RNA biogenesis factors exclusion from chromatin coupled to R-loops removal

(2014) Sébastien Britton et al.   NUCLEIC ACIDS RESEARCH

Dynamics of Leading-Strand Lesion Skipping by the Replisome

(2013) Joseph T.P. Yeeles et al.   MOLECULAR CELL

Replication of theEscherichia colichromosome in RNase HI-deficient cells: multiple initiation regions and fork dynamics

(2013) Nkabuije Z. Maduike et al.   MOLECULAR MICROBIOLOGY

The Conserved C-Terminus of the PcrA/UvrD Helicase Interacts Directly with RNA Polymerase

(2013) Emma J. Gwynn et al.   PLoS One

Phage T7 Gp2 inhibition of Escherichia coli RNA polymerase involves misappropriation of  70 domain 1.1

(2013) B. Bae et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

R-loops and nicks initiate DNA breakage and genome instability in non-growing Escherichia coli

(2013) Hallie Wimberly et al.   Nature Communications

R-loops cause replication impairment and genome instability during meiosis

(2012) Maikel Castellano-Pozo et al.   EMBO REPORTS

DNA replication through hard-to-replicate sites, including both highly transcribed RNA Pol II and Pol III genes, requires the S. pombe Pfh1 helicase

(2012) N. Sabouri et al.   GENES & DEVELOPMENT

R-Loop Formation Is a Distinctive Characteristic of Unmethylated Human CpG Island Promoters

(2012) Paul A. Ginno et al.   MOLECULAR CELL

Rho-dependent transcription termination is essential to prevent excessive genome-wide R-loops in Escherichia coli

(2012) J. Krishna Leela et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Linking RNA Polymerase Backtracking to Genome Instability in E. coli

(2011) Dipak Dutta et al.   CELL

Structure of the SSB-DNA polymerase III interface and its role in DNA replication

(2011) Aimee H Marceau et al.   EMBO JOURNAL

Genome-wide function of THO/TREX in active genes prevents R-loop-dependent replication obstacles

(2011) Belén Gómez-González et al.   EMBO JOURNAL

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

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

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

(2011) Lamia Wahba et al.   MOLECULAR CELL

Co-directional replication–transcription conflicts lead to replication restart

(2011) Houra Merrikh et al.   NATURE

A novel method for the production ofin vivo-assembled, recombinantEscherichia coliRNA polymerase lacking the α C-terminal domain

(2011) Kelly-Anne Twist et al.   PROTEIN SCIENCE

The Escherichia coli Replisome Is Inherently DNA Damage Tolerant

(2011) J. T. P. Yeeles et al.   SCIENCE

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

(2010) Ashley K. Tehranchi et al.   CELL

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

Co-Orientation of Replication and Transcription Preserves Genome Integrity

(2010) Anjana Srivatsan et al.   PLoS Genetics

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

(2009) Hasna Boubakri et al.   EMBO JOURNAL

Strand Displacement by DNA Polymerase III Occurs through a τ-ψ-χ Link to Single-stranded DNA-binding Protein Coating the Lagging Strand Template

(2009) Quan Yuan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Competition between the RNA Transcript and the Nontemplate DNA Strand during R-Loop Formation In Vitro: a Nick Can Serve as a Strong R-Loop Initiation Site

(2009) D. Roy et al.   MOLECULAR AND CELLULAR BIOLOGY

Rep Provides a Second Motor at the Replisome to Promote Duplication of Protein-Bound DNA

(2009) Colin P. Guy et al.   MOLECULAR CELL

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

(2009) Sandie Tuduri et al.   NATURE CELL BIOLOGY

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

(2008) Richard T. Pomerantz et al.   NATURE

Nascent RNA Sequencing Reveals Widespread Pausing and Divergent Initiation at Human Promoters

(2008) Leighton J. Core et al.   SCIENCE