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The Merrikh Lab

Merrikh Lab Publications

2023

BrowningKR, MerrikhH, Pathogenic bacteria experience pervasive RNA polymerase backtracking during infectionmBio. 2023 Dec 14 e0273723
Carvajal-GarciaJ, SamadpourAN, Hernandez VieraAJ, MerrikhH, Oxidative stress drives mutagenesis through transcription-coupled repair in bacteriaProceedings of the National Academy of Sciences of the United States of America. 2023 Jun 26 120 (27). e2300761120
HuangD, JohnsonAE, SimBS, LoTW, MerrikhH, WigginsPA, The in vivo measurement of replication fork velocity and pausing by lag-time analysisNature communications. 2023 Mar 30 14 (1). 1762
StoyH, ZwickyK, KusterD, LangKS, KrietschJ, CrossleyMP, SchmidJA, CimprichKA, MerrikhH, LopesM, Direct visualization of transcription-replication conflicts reveals post-replicative DNA:RNA hybridsNature structural & molecular biology. 2023 Mar 2 30 (3). 348-359

2022

StoyH, S LangK, MerrikhH, LopesM, Locus-Specific Analysis of Replication Dynamics and Detection of DNA-RNA Hybrids by Immuno Electron MicroscopyMethods in molecular biology (Clifton, N.J.). 2022 May 1 2528 67-89
MerrikhH, MerrikhC, Reply to: Testing the adaptive hypothesis of lagging-strand encoding in bacterial genomesNature communications. 2022 May 12 13 (1). 2627
HuangD, LoT, MerrikhH, WigginsPA, Characterizing stochastic cell-cycle dynamics in exponential growthPhysical review. E. 2022 Jan 3 105 (1-1). 014420

2021

LangKS, MerrikhH, Topological stress is responsible for the detrimental outcomes of head-on replication-transcription conflictsCell reports. 2021 Feb 2 34 (9). 108797
RaghebMN, MerrikhC, BrowningK, MerrikhH, Mfd regulates RNA polymerase association with hard-to-transcribe regions in vivo, especially those with structured RNAsProceedings of the National Academy of Sciences of the United States of America. 2021 Jan 5 118 (1).

2020

MerrikhH, KohliRM, Targeting evolution to inhibit antibiotic resistanceThe FEBS journal. 2020 Jun 8 287 (20). 4341-4353

2019

RaghebM, MerrikhH, The enigmatic role of Mfd in replication-transcription conflicts in bacteriaDNA repair. 2019 Jul 8 102659
RaghebMN, ThomasonMK, HsuC, NugentP, GageJ, SamadpourAN, KariisaA, MerrikhCN, MillerSI, ShermanDR, MerrikhH, Inhibiting the Evolution of Antibiotic ResistanceMolecular cell. 2019 Jan 3

2018

MerrikhCN, MerrikhH, Gene inversion potentiates bacterial evolvability and virulenceNature communications. 2018 Nov 7 9 (1). 4662
MaD, WangZ, MerrikhCN, LangKS, LuP, LiX, MerrikhH, RaoZ, XuW, Crystal structure of a membrane-bound O-acyltransferaseNature. 2018 Oct 3 562 (7726). 286-290
SamadpourAN, MerrikhH, DNA gyrase activity regulates DnaA-dependent replication initiation in Bacillus subtilisMolecular microbiology. 2018 Mar 6 108 (2). 115-127
MangiameliSM, CassJA, MerrikhH, WigginsPA, The bacterial replisome has factory-like localizationCurrent genetics. 2018 Apr 9 64 (5). 1029-1036
LangKS, MerrikhH, The Clash of Macromolecular Titans: Replication-Transcription Conflicts in BacteriaAnnual review of microbiology. 2018 Jun 1 72 71-88

2017

MangiameliSM, MerrikhCN, WigginsPA, MerrikhH, Transcription leads to pervasive replisome instability in bacteriaeLife. 2017 Jan 16 6
MangiameliSM, VeitBT, MerrikhH, WigginsPA, The Replisomes Remain Spatially Proximal throughout the Cell Cycle in BacteriaPLoS genetics. 2017 Jan 23 13 (1). e1006582
MerrikhH, Spatial and Temporal Control of Evolution through Replication-Transcription ConflictsTrends in microbiology. 2017 Feb 16 25 (7). 515-521
LangKS, HallAN, MerrikhCN, RaghebM, TabakhH, PollockAJ, WoodwardJJ, DreifusJE, MerrikhH, Replication-Transcription Conflicts Generate R-Loops that Orchestrate Bacterial Stress Survival and PathogenesisCell. 2017 170 (4). 787-799.e18
Loftie-EatonW, BashfordK, QuinnH, DongK, MillsteinJ, HunterS, ThomasonMK, MerrikhH, PoncianoJM, TopEM, Compensatory mutations improve general permissiveness to antibiotic resistance plasmidsNature ecology & evolution. 2017 Aug 7 1 (9). 1354-1363

2016

MerrikhCN, WeissE, MerrikhH, The Accelerated Evolution of Lagging Strand Genes Is Independent of Sequence ContextGenome biology and evolution. 2016 8 (12). 3696-3702

2015

Million-WeaverS, SamadpourAN, Moreno-HabelDA, NugentP, BrittnacherMJ, WeissE, HaydenHS, MillerSI, LiachkoI, MerrikhH, An underlying mechanism for the increased mutagenesis of lagging-strand genes in Bacillus subtilisProceedings of the National Academy of Sciences of the United States of America. 2015 Feb 23 112 (10). E1096-105
Million-WeaverS, SamadpourAN, MerrikhH, Replication Restart after Replication-Transcription Conflicts Requires RecA in Bacillus subtilisJournal of bacteriology. 2015 May 4 197 (14). 2374-82
MerrikhCN, BrewerBJ, MerrikhH, The B. subtilis Accessory Helicase PcrA Facilitates DNA Replication through Transcription UnitsPLoS genetics. 2015 Jun 12 11 (6). e1005289

2013

PaulS, Million-WeaverS, ChattopadhyayS, SokurenkoE, MerrikhH, Accelerated gene evolution through replication-transcription conflictsNature. 2013 495 (7442). 512-5

2012

MerrikhH, ZhangY, GrossmanAD, WangJD, Replication-transcription conflicts in bacteriaNature reviews. Microbiology. 2012 Jun 6 10 (7). 449-58

Full Publication List