Bacterial replication, transcription and translation: mechanistic insights from single-molecule biochemical studies

Single-Stranded DNA Curtains for Real-Time Single-Molecule Visualization of Protein–Nucleic Acid Interactions

(2012) Bryan Gibb et al.   ANALYTICAL CHEMISTRY

How Should We Think About the Ribosome?

(2012) Peter B. Moore   Annual Review of Biophysics

A Small Post-Translocation Energy Bias Aids Nucleotide Selection in T7 RNA Polymerase Transcription

(2012) Jin Yu et al.   BIOPHYSICAL JOURNAL

A Whole-Cell Computational Model Predicts Phenotype from Genotype

(2012) Jonathan R. Karr et al.   CELL

Mechanism of Transcription Initiation at an Activator-Dependent Promoter Defined by Single-Molecule Observation

(2012) Larry J. Friedman et al.   CELL

Kinetic control of translation initiation in bacteria

(2012) Pohl Milón et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

Architecture and Conservation of the Bacterial DNA Replication Machinery, an Underexploited Drug Target

(2012) Andrew Robinson et al.   CURRENT DRUG TARGETS

RETRACTED: RecA-Promoted, RecFOR-Independent Progressive Disassembly of Replisomes Stalled by Helicase Inactivation

(2012) Giuseppe Lia et al.   MOLECULAR CELL

Loading mechanisms of ring helicases at replication origins

(2012) Panos Soultanas   MOLECULAR MICROBIOLOGY

Heterogeneous pathways and timing of factor departure during translation initiation

(2012) Albert Tsai et al.   NATURE

A general approach to break the concentration barrier in single-molecule imaging

(2012) Anna B Loveland et al.   NATURE METHODS

Studying genomic processes at the single-molecule level: introducing the tools and applications

(2012) David Dulin et al.   NATURE REVIEWS GENETICS

Real-time assembly landscape of bacterial 30S translation initiation complex

(2012) Pohl Milón et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Allosteric control of the ribosome by small-molecule antibiotics

(2012) Leyi Wang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Topological characterization of the DnaA–oriC complex using single-molecule nanomanipuation

(2012) Sylvain Zorman et al.   NUCLEIC ACIDS RESEARCH

In Vivo Architecture and Action of Bacterial Structural Maintenance of Chromosome Proteins

(2012) A. Badrinarayanan et al.   SCIENCE

Opening and Closing of the Bacterial RNA Polymerase Clamp

(2012) A. Chakraborty et al.   SCIENCE

DNA Replicases from a Bacterial Perspective

(2011) Charles S. McHenry   Annual Review of Biochemistry

Revisiting the Central Dogma One Molecule at a Time

(2011) Carlos Bustamante et al.   CELL

Structural basis of transcription by bacterial and eukaryotic RNA polymerases

(2011) Shun-ichi Sekine et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

E. coliDNA replication in the absence of free β clamps

(2011) Nathan A Tanner et al.   EMBO JOURNAL

Biological mechanisms, one molecule at a time

(2011) I. Tinoco et al.   GENES & DEVELOPMENT

Single-Molecule Studies of RNA Polymerase: One Singular Sensation, Every Little Step It Takes

(2011) Matthew H. Larson et al.   MOLECULAR CELL

Single-Molecule Fluorescence Measurements of Ribosomal Translocation Dynamics

(2011) Chunlai Chen et al.   MOLECULAR CELL

Competing for the Clamp: Promoting RNA Polymerase Processivity and Managing the Transition from Initiation to Elongation

(2011) Grant A. Hartzog et al.   MOLECULAR CELL

Central dogma at the single-molecule level in living cells

(2011) Gene-Wei Li et al.   NATURE

DNA stretching by bacterial initiators promotes replication origin opening

(2011) Karl E. Duderstadt et al.   NATURE

The ribosome uses two active mechanisms to unwind messenger RNA during translation

(2011) Xiaohui Qu et al.   NATURE

Single-molecule studies reveal the function of a third polymerase in the replisome

(2011) Roxana E Georgescu et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Simultaneous single-molecule measurements of phage T7 replisome composition and function reveal the mechanism of polymerase exchange

(2011) Joseph J. Loparo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Allosteric vs. spontaneous exit-site (E-site) tRNA dissociation early in protein synthesis

(2011) C. Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Polymerase Exchange During Okazaki Fragment Synthesis Observed in Living Cells

(2011) G. Lia et al.   SCIENCE

Freely orbiting magnetic tweezers to directly monitor changes in the twist of nucleic acids

(2011) Jan Lipfert et al.   Nature Communications

Structure and Dynamics of a Processive Brownian Motor: The Translating Ribosome

(2010) Joachim Frank et al.   Annual Review of Biochemistry

Single Ribosome Dynamics and the Mechanism of Translation

(2010) Colin Echeverría Aitken et al.   Annual Review of Biophysics

Single-Molecule Study of Viomycin’s Inhibition Mechanism on Ribosome Translocation

(2010) Cindy T. Ly et al.   BIOCHEMISTRY

Sensing DNA Opening in Transcription Using Quenchable Förster Resonance Energy Transfer

(2010) Thorben Cordes et al.   BIOCHEMISTRY

Single-Molecule Study of Ribosome Hierarchic Dynamics at the Peptidyl Transferase Center

(2010) Mediha Esra Altuntop et al.   BIOPHYSICAL JOURNAL

The ribosome-bound initiation factor 2 recruits initiator tRNA to the 30S initiation complex

(2010) Pohl Milon et al.   EMBO REPORTS

Single-molecule analysis of the Escherichia coli replisome and use of clamps to bypass replication barriers

(2010) Roxana E. Georgescu et al.   FEBS LETTERS

Response of the Bacteriophage T4 Replisome to Noncoding Lesions and Regression of a Stalled Replication Fork

(2010) Scott W. Nelson et al.   JOURNAL OF MOLECULAR BIOLOGY

Essential Biological Processes of an Emerging Pathogen: DNA Replication, Transcription, and Cell Division in Acinetobacter spp.

(2010) A. Robinson et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Real-time tRNA transit on single translating ribosomes at codon resolution

(2010) Sotaro Uemura et al.   NATURE

Crystal structure of bacterial RNA polymerase bound with a transcription inhibitor protein

(2010) Shunsuke Tagami et al.   NATURE

Following the intersubunit conformation of the ribosome during translation in real time

(2010) Colin Echeverría Aitken et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Correlated conformational events in EF-G and the ribosome regulate translocation

(2010) James B Munro et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Thioredoxin suppresses microscopic hopping of T7 DNA polymerase on duplex DNA

(2010) C. M. Etson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Stoichiometry and Architecture of Active DNA Replication Machinery in Escherichia coli

(2010) R. Reyes-Lamothe et al.   SCIENCE

Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells

(2010) Y. Taniguchi et al.   SCIENCE

Single-molecule observations of ribosome function

(2009) Scott C Blanchard   CURRENT OPINION IN STRUCTURAL BIOLOGY

Prime-time looping

(2009) Nicholas E. Dixon   NATURE

Coordinating DNA replication by means of priming loop and differential synthesis rate

(2009) Manjula Pandey et al.   NATURE

Coupling DNA unwinding activity with primer synthesis in the bacteriophage T4 primosome

(2009) Maria Manosas et al.   Nature Chemical Biology

Aminoglycoside activity observed on single pre-translocation ribosome complexes

(2009) Michael B Feldman et al.   Nature Chemical Biology

Real-time single-molecule observation of rolling-circle DNA replication

(2009) Nathan A. Tanner et al.   NUCLEIC ACIDS RESEARCH

Real-time observation of the transition from transcription initiation to elongation of the RNA polymerase

(2009) Guo-Qing Tang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Single-molecule analysis reveals that the lagging strand increases replisome processivity but slows replication fork progression

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

Synchronization of Chromosome Dynamics and Cell Division in Bacteria

(2009) M. Thanbichler   Cold Spring Harbor Perspectives in Biology

Single-Molecule Studies of RNA Polymerase: Motoring Along

(2008) Kristina M. Herbert et al.   Annual Review of Biochemistry

A structural view of translation initiation in bacteria

(2008) A. Simonetti et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Dynamics of DNA replication loops reveal temporal control of lagging-strand synthesis

(2008) Samir M. Hamdan et al.   NATURE

A Stochastic Single-Molecule Event Triggers Phenotype Switching of a Bacterial Cell

(2008) P. J. Choi et al.   SCIENCE