Literature DB >> 23798400

On the mechanism of recombination hotspot scanning during double-stranded DNA break resection.

Carolina Carrasco1, Neville S Gilhooly, Mark S Dillingham, Fernando Moreno-Herrero.   

Abstract

Double-stranded DNA break repair by homologous recombination is initiated by resection of free DNA ends to produce a 3'-ssDNA overhang. In bacteria, this reaction is catalyzed by helicase-nuclease complexes such as AddAB in a manner regulated by specific recombination hotspot sequences called Crossover hotspot instigator (Chi). We have used magnetic tweezers to investigate the dynamics of AddAB translocation and hotspot scanning during double-stranded DNA break resection. AddAB was prone to stochastic pausing due to transient recognition of Chi-like sequences, unveiling an antagonistic relationship between DNA translocation and sequence-specific DNA recognition. Pauses at bona fide Chi sequences were longer, were nonexponentially distributed, and resulted in an altered velocity upon restart of translocation downstream of Chi. We propose a model for the recognition of Chi sequences to explain the origin of pausing during failed and successful hotspot recognition.

Keywords:  DNA-end processing; protein motor; protein–DNA interactions; real-time measurements; single molecule biophysics

Mesh：

Substances：

Year:  2013        PMID： 23798400      PMCID： PMC3710824          DOI： 10.1073/pnas.1303035110

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN： 0027-8424            Impact factor:   11.205


  37 in total

1.  Crystal structure of RecBCD enzyme reveals a machine for processing DNA breaks.

Authors:  Martin R Singleton; Mark S Dillingham; Martin Gaudier; Stephen C Kowalczykowski; Dale B Wigley
Journal:  Nature       Date:  2004-11-11       Impact factor: 49.962

2.  The AddAB helicase/nuclease forms a stable complex with its cognate chi sequence during translocation.

Authors:  Frédéric Chédin; Naofumi Handa; Mark S Dillingham; Stephen C Kowalczykowski
Journal:  J Biol Chem       Date:  2006-04-21       Impact factor: 5.157

3.  NS3 helicase actively separates RNA strands and senses sequence barriers ahead of the opening fork.

Authors:  Wei Cheng; Sophie Dumont; Ignacio Tinoco; Carlos Bustamante
Journal:  Proc Natl Acad Sci U S A       Date:  2007-08-20       Impact factor: 11.205

4.  Recombination hotspots and single-stranded DNA binding proteins couple DNA translocation to DNA unwinding by the AddAB helicase-nuclease.

Authors:  Joseph T P Yeeles; Kara van Aelst; Mark S Dillingham; Fernando Moreno-Herrero
Journal:  Mol Cell       Date:  2011-06-24       Impact factor: 17.970

5.  The recombination hotspot chi is a regulatory sequence that acts by attenuating the nuclease activity of the E. coli RecBCD enzyme.

Authors:  D A Dixon; S C Kowalczykowski
Journal:  Cell       Date:  1993-04-09       Impact factor: 41.582

Review 6.  The processing of double-stranded DNA breaks for recombinational repair by helicase-nuclease complexes.

Authors:  Joseph T P Yeeles; Mark S Dillingham
Journal:  DNA Repair (Amst)       Date:  2010-01-29

7.  Single-molecule imaging of Bacteroides fragilis AddAB reveals the highly processive translocation of a single motor helicase.

Authors:  Marcel Reuter; Frances Parry; David T F Dryden; Garry W Blakely
Journal:  Nucleic Acids Res       Date:  2010-02-25       Impact factor: 16.971

8.  Insights into Chi recognition from the structure of an AddAB-type helicase-nuclease complex.

Authors:  Kayarat Saikrishnan; Joseph T Yeeles; Neville S Gilhooly; Wojciech W Krajewski; Mark S Dillingham; Dale B Wigley
Journal:  EMBO J       Date:  2012-02-03       Impact factor: 11.598

9.  Visualizing helicases unwinding DNA at the single molecule level.

Authors:  Natali Fili; Gregory I Mashanov; Christopher P Toseland; Christopher Batters; Mark I Wallace; Joseph T P Yeeles; Mark S Dillingham; Martin R Webb; Justin E Molloy
Journal:  Nucleic Acids Res       Date:  2010-03-28       Impact factor: 16.971

10.  Identification of DNA motifs implicated in maintenance of bacterial core genomes by predictive modeling.

Authors:  David Halpern; Hélène Chiapello; Sophie Schbath; Stéphane Robin; Christelle Hennequet-Antier; Alexandra Gruss; Meriem El Karoui
Journal:  PLoS Genet       Date:  2007-09       Impact factor: 5.917
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  20 in total

1.  Recombination hotspots attenuate the coupled ATPase and translocase activities of an AddAB-type helicase-nuclease.

Authors:  Neville S Gilhooly; Mark S Dillingham
Journal:  Nucleic Acids Res       Date:  2014-03-15       Impact factor: 16.971

2.  A conserved major facilitator superfamily member orchestrates a subset of O-glycosylation to aid macrophage tissue invasion.

Authors:  Katarina Valoskova; Julia Biebl; Marko Roblek; Shamsi Emtenani; Attila Gyoergy; Michaela Misova; Aparna Ratheesh; Patricia Reis-Rodrigues; Kateryna Shkarina; Ida Signe Bohse Larsen; Sergey Y Vakhrushev; Henrik Clausen; Daria E Siekhaus
Journal:  Elife       Date:  2019-03-26       Impact factor: 8.140

3.  Structures and single-molecule analysis of bacterial motor nuclease AdnAB illuminate the mechanism of DNA double-strand break resection.

Authors:  Ning Jia; Mihaela C Unciuleac; Chaoyou Xue; Eric C Greene; Dinshaw J Patel; Stewart Shuman
Journal:  Proc Natl Acad Sci U S A       Date:  2019-11-18       Impact factor: 11.205

4.  Specific and non-specific interactions of ParB with DNA: implications for chromosome segregation.

Authors:  James A Taylor; Cesar L Pastrana; Annika Butterer; Christian Pernstich; Emma J Gwynn; Frank Sobott; Fernando Moreno-Herrero; Mark S Dillingham
Journal:  Nucleic Acids Res       Date:  2015-01-08       Impact factor: 16.971

5.  Understanding the paradoxical mechanical response of in-phase A-tracts at different force regimes.

Authors:  Alberto Marin-Gonzalez; Cesar L Pastrana; Rebeca Bocanegra; Alejandro Martín-González; J G Vilhena; Rubén Pérez; Borja Ibarra; Clara Aicart-Ramos; Fernando Moreno-Herrero
Journal:  Nucleic Acids Res       Date:  2020-05-21       Impact factor: 16.971

Review 6.  Single molecule techniques in DNA repair: a primer.

Authors:  Craig D Hughes; Michelle Simons; Cassidy E Mackenzie; Bennett Van Houten; Neil M Kad
Journal:  DNA Repair (Amst)       Date:  2014-05-10

7.  Chi hotspots trigger a conformational change in the helicase-like domain of AddAB to activate homologous recombination.

Authors:  Neville S Gilhooly; Carolina Carrasco; Benjamin Gollnick; Martin Wilkinson; Dale B Wigley; Fernando Moreno-Herrero; Mark S Dillingham
Journal:  Nucleic Acids Res       Date:  2016-01-13       Impact factor: 16.971

8.  Modeling DNA Unwinding by AddAB Helicase-Nuclease and Modulation by Chi Sequences: Comparison with AdnAB and RecBCD.

Authors:  Ping Xie
Journal:  Cell Mol Bioeng       Date:  2018-12-05       Impact factor: 2.321

9.  Human HELB is a processive motor protein that catalyzes RPA clearance from single-stranded DNA.

Authors:  Silvia Hormeno; Oliver J Wilkinson; Clara Aicart-Ramos; Sahiti Kuppa; Edwin Antony; Mark S Dillingham; Fernando Moreno-Herrero
Journal:  Proc Natl Acad Sci U S A       Date:  2022-04-06       Impact factor: 12.779

10.  CTP promotes efficient ParB-dependent DNA condensation by facilitating one-dimensional diffusion from parS.

Authors:  Francisco de Asis Balaguer; Clara Aicart-Ramos; Gemma Lm Fisher; Sara de Bragança; Eva M Martin-Cuevas; Cesar L Pastrana; Mark Simon Dillingham; Fernando Moreno-Herrero
Journal:  Elife       Date:  2021-07-12       Impact factor: 8.140
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