Local and global regulation of transcription initiation in bacteria

E. Coli RNA Polymerase Pauses during Initial Transcription

(2016) David L.V. Bauer et al.   BIOPHYSICAL JOURNAL

Mycobacterium tuberculosis Transcription Machinery: Ready To Respond to Host Attacks

(2016) Kelly Flentie et al.   JOURNAL OF BACTERIOLOGY

Structural basis of transcription activation

(2016) Y. Feng et al.   SCIENCE

A Two-Way Street: Regulatory Interplay between RNA Polymerase and Nascent RNA Structure

(2016) Jinwei Zhang et al.   TRENDS IN BIOCHEMICAL SCIENCES

Genome scale patterns of supercoiling in a bacterial chromosome

(2016) Avantika Lal et al.   Nature Communications

Expression of different bacterial cytotoxins is controlled by two global transcription factors, CRP and Fis, that co-operate in a shared-recruitment mechanism

(2015) Amanda E. Rossiter et al.   BIOCHEMICAL JOURNAL

Sequence-Dependent Promoter Escape Efficiency Is Strongly Influenced by Bias for the Pretranslocated State during Initial Transcription

(2015) Jørgen Skancke et al.   BIOCHEMISTRY

Free RNA polymerase in Escherichia coli

(2015) Michael Patrick et al.   BIOCHIMIE

Diversity in (p)ppGpp metabolism and effectors

(2015) Kuanqing Liu et al.   CURRENT OPINION IN MICROBIOLOGY

DNA methylation in bacteria: from the methyl group to the methylome

(2015) María A Sánchez-Romero et al.   CURRENT OPINION IN MICROBIOLOGY

Multi-wavelength single-molecule fluorescence analysis of transcription mechanisms

(2015) Larry J. Friedman et al.   METHODS

Crystal Structures of the E. coli Transcription Initiation Complexes with a Complete Bubble

(2015) Yuhong Zuo et al.   MOLECULAR CELL

Recent functional insights into the role of (p)ppGpp in bacterial physiology

(2015) Vasili Hauryliuk et al.   NATURE REVIEWS MICROBIOLOGY

Structural, functional, and genetic analyses of the actinobacterial transcription factor RbpA

(2015) Elizabeth A. Hubin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Live-cell superresolution microscopy reveals the organization of RNA polymerase in the bacterial nucleoid

(2015) Mathew Stracy et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structures of the RNA polymerase- 54 reveal new and conserved regulatory strategies

(2015) Y. Yang et al.   SCIENCE

Allosteric transcriptional regulation via changes in the overall topology of the core promoter

(2015) S. J. Philips et al.   SCIENCE

Evolution of bacterial transcription factors: how proteins take on new tasks, but do not always stop doing the old ones

(2015) Sandhya S. Visweswariah et al.   TRENDS IN MICROBIOLOGY

Silencing of DNase Colicin E8 Gene Expression by a Complex Nucleoprotein Assembly Ensures Timely Colicin Induction

(2015) Simona Kamenšek et al.   PLoS Genetics

6S RNA, a Global Regulator of Transcription inEscherichia coli,Bacillus subtilis, and Beyond

(2014) Amy T. Cavanagh et al.   Annual Review of Microbiology

Bacterial Sigma Factors: A Historical, Structural, and Genomic Perspective

(2014) Andrey Feklístov et al.   Annual Review of Microbiology

Widespread suppression of intragenic transcription initiation by H-NS

(2014) S. S. Singh et al.   GENES & DEVELOPMENT

Structure of the RNA Polymerase Assembly Factor Crl and Identification of Its Interaction Surface with Sigma S

(2014) A. B. Banta et al.   JOURNAL OF BACTERIOLOGY

DksA Guards Elongating RNA Polymerase against Ribosome-Stalling-Induced Arrest

(2014) Yan Zhang et al.   MOLECULAR CELL

Pervasive transcription: illuminating the dark matter of bacterial transcriptomes

(2014) Joseph T. Wade et al.   NATURE REVIEWS MICROBIOLOGY

Structural basis for −10 promoter element melting by environmentally induced sigma factors

(2014) Sébastien Campagne et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A bacteriophage transcription regulator inhibits bacterial transcription initiation by σ-factor displacement

(2014) Bing Liu et al.   NUCLEIC ACIDS RESEARCH

Chromosome position effects on gene expression in Escherichia coli K-12

(2014) Jack A. Bryant et al.   NUCLEIC ACIDS RESEARCH

Spacing requirements for Class I transcription activation in bacteria are set by promoter elements

(2014) Yi Zhou et al.   NUCLEIC ACIDS RESEARCH

Co-operative roles for DNA supercoiling and nucleoid-associated proteins in the regulation of bacterial transcription

(2013) Charles J. Dorman   BIOCHEMICAL SOCIETY TRANSACTIONS

X-ray Crystal Structure ofEscherichia coliRNA Polymerase σ70Holoenzyme

(2013) Katsuhiko S. Murakami   JOURNAL OF BIOLOGICAL CHEMISTRY

DNA thermodynamic stability and supercoil dynamics determine the gene expression program during the bacterial growth cycle

(2013) Patrick Sobetzko et al.   Molecular BioSystems

The Magic Spot: A ppGpp Binding Site on E. coli RNA Polymerase Responsible for Regulation of Transcription Initiation

(2013) Wilma Ross et al.   MOLECULAR CELL

Design of orthogonal genetic switches based on a crosstalk map of  s, anti- s, and promoters

(2013) V. A. Rhodius et al.   Molecular Systems Biology

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

Key features of  S required for specific recognition by Crl, a transcription factor promoting assembly of RNA polymerase holoenzyme

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

Structure and function of CarD, an essential mycobacterial transcription factor

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

Activating Transcription in Bacteria

(2012) David J. Lee et al.   Annual Review of Microbiology

Direct interactions between the coiled-coil tip of DksA and the trigger loop of RNA polymerase mediate transcriptional regulation

(2012) C. W. Lennon et al.   GENES & DEVELOPMENT

The Role of Bacterial Enhancer Binding Proteins as Specialized Activators of  54-Dependent Transcription

(2012) M. Bush et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Double locking of anEscherichia colipromoter by two repressors prevents premature colicin expression and cell lysis

(2012) Matej Butala et al.   MOLECULAR MICROBIOLOGY

Prokaryotic genome regulation: A revolutionary paradigm

(2012) Akira ISHIHAMA   PROCEEDINGS OF THE JAPAN ACADEMY SERIES B-PHYSICAL AND BIOLOGICAL SCIENCES

Structural basis of a protein partner switch that regulates the general stress response of  -proteobacteria

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

Structural Basis of Transcription Initiation

(2012) Y. Zhang et al.   SCIENCE

Deciphering the regulatory codes in bacterial genomes

(2011) Byung-Kwan Cho et al.   Biotechnology Journal

Structural Basis for Promoter −10 Element Recognition by the Bacterial RNA Polymerase σ Subunit

(2011) Andrey Feklistov et al.   CELL

Recent advances in the understanding of archaeal transcription

(2011) Dina Grohmann et al.   CURRENT OPINION IN MICROBIOLOGY

Phase variation: how to create and coordinate population diversity

(2011) Marjan W van der Woude   CURRENT OPINION IN MICROBIOLOGY

Transcriptional regulation of MG_149, an osmoinducible lipoprotein gene from Mycoplasma genitalium

(2011) Wenbo Zhang et al.   MOLECULAR MICROBIOLOGY

Gene order and chromosome dynamics coordinate spatiotemporal gene expression during the bacterial growth cycle

(2011) P. Sobetzko et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regulation of Alternative Sigma Factor Use

(2010) Sofia Österberg et al.   Annual Review of Microbiology

Effects of nucleoid-associated proteins on bacterial chromosome structure and gene expression

(2010) Douglas F Browning et al.   CURRENT OPINION IN MICROBIOLOGY

Bacterial nucleoid-associated proteins, nucleoid structure and gene expression

(2010) Shane C. Dillon et al.   NATURE REVIEWS MICROBIOLOGY

Direct and indirect effects of H-NS and Fis on global gene expression control in Escherichia coli

(2010) Christina Kahramanoglou et al.   NUCLEIC ACIDS RESEARCH

Transcriptional control in the prereplicative phase of T4 development

(2010) Deborah M Hinton   Virology Journal

Management of Oxidative Stress inBacillus

(2009) Peter Zuber   Annual Review of Microbiology

Allostery in the LacI/GalR family: variations on a theme

(2009) Liskin Swint-Kruse et al.   CURRENT OPINION IN MICROBIOLOGY

Reduced capacity of alternative  s to melt promoters ensures stringent promoter recognition

(2009) B.-M. Koo et al.   GENES & DEVELOPMENT

A Systematic In Vitro Study of Nucleoprotein Complexes Formed by Bacterial Nucleoid-Associated Proteins Revealing Novel Types of DNA Organization

(2009) Sebastian Maurer et al.   JOURNAL OF MOLECULAR BIOLOGY

Crystal structure of the in vivo-assembled Bacillus subtilis Spx/RNA polymerase α subunit C-terminal domain complex

(2009) Valerie Lamour et al.   JOURNAL OF STRUCTURAL BIOLOGY

A global view of Escherichia coli Rsd protein and its interactions

(2009) Sarah E. Piper et al.   Molecular BioSystems

Protein Occupancy Landscape of a Bacterial Genome

(2009) Tiffany Vora et al.   MOLECULAR CELL

ppGpp and DksA likely regulate the activity of the extracytoplasmic stress factor σEinEscherichia coliby both direct and indirect mechanisms

(2009) Alessandra Costanzo et al.   MOLECULAR MICROBIOLOGY

Activation of σ28-dependent transcription inEscherichia coliby the cyclic AMP receptor protein requires an unusual promoter organization

(2009) Kerry Hollands et al.   MOLECULAR MICROBIOLOGY

Sigma factor mimicry involved in regulation of general stress response

(2009) A. Francez-Charlot et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regulation and Function of Ag43 (Flu)

(2008) Marjan W. van der Woude et al.   Annual Review of Microbiology

RNA Polymerase Elongation Factors

(2008) Jeffrey W. Roberts et al.   Annual Review of Microbiology

Regulation of bacterial RNA polymerase σ factor activity: a structural perspective

(2008) Elizabeth A Campbell et al.   CURRENT OPINION IN MICROBIOLOGY

Genome-wide analysis of Fis binding in Escherichia coli indicates a causative role for A-/AT-tracts

(2008) B.-K. Cho et al.   GENOME RESEARCH

Regulation by Nucleoid-Associated Proteins at the Escherichia coli nir Operon Promoter

(2008) D. F. Browning et al.   JOURNAL OF BACTERIOLOGY

Regulation of Pyrimidine Biosynthetic Gene Expression in Bacteria: Repression without Repressors

(2008) C. L. Turnbough et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Anti-silencing: overcoming H-NS-mediated repression of transcription in Gram-negative enteric bacteria

(2008) D. M. Stoebel et al.   MICROBIOLOGY-SGM

Rsd family proteins make simultaneous interactions with regions 2 and 4 of the primary sigma factor

(2008) Andy H. Yuan et al.   MOLECULAR MICROBIOLOGY

Selective repression by Fis and H-NS at theEscherichia coli dpspromoter

(2008) David C. Grainger et al.   MOLECULAR MICROBIOLOGY

Modus operandi of the bacterial RNA polymerase containing the σ54promoter-specificity factor

(2008) Sivaramesh Wigneshweraraj et al.   MOLECULAR MICROBIOLOGY

Advances in bacterial promoter recognition and its control by factors that do not bind DNA

(2008) Shanil P. Haugen et al.   NATURE REVIEWS MICROBIOLOGY

The Escherichia coli RutR transcription factor binds at targets within genes as well as intergenic regions

(2008) Tomohiro Shimada et al.   NUCLEIC ACIDS RESEARCH