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Bacteroides expand the functional versatility of a conserved transcription factor and transcribed DNA to program capsule diversity

Journal Article · · Nature Communications

Not Available

Sponsoring Organization:
USDOE
Grant/Contract Number:
NONE; SC0018409
OSTI ID:
2484064
Journal Information:
Nature Communications, Journal Name: Nature Communications Journal Issue: 1 Vol. 15; ISSN 2041-1723
Publisher:
Nature Publishing GroupCopyright Statement
Country of Publication:
United Kingdom
Language:
English

References (100)

Measuring Protein‐Protein and Protein‐Nucleic Acid Interactions by Biolayer Interferometry journal February 2015
Comparative Protein Structure Modeling Using MODELLER journal June 2016
Comparative Protein Modelling by Satisfaction of Spatial Restraints journal December 1993
Isolation and structural analysis of the Escherichia coli trp leader paused transcription complex journal July 1987
Mapping and sequencing of mutations in the Escherichia colirpoB gene that lead to rifampicin resistance journal July 1988
The Transcriptional Regulator RfaH Stimulates RNA Chain Synthesis after Recruitment to Elongation Complexes by the Exposed Nontemplate DNA Strand journal April 2002
A strain of Bacteroides thetaiotaomicron attenuates colonization of Clostridioides difficile and affects intestinal microbiota and bile acids profile in a mouse model journal May 2021
An Immunomodulatory Molecule of Symbiotic Bacteria Directs Maturation of the Host Immune System journal July 2005
An α Helix to β Barrel Domain Switch Transforms the Transcription Factor RfaH into a Translation Factor journal July 2012
Structural Basis for Transcript Elongation Control by NusG Family Universal Regulators journal June 2018
Programming a Human Commensal Bacterium, Bacteroides thetaiotaomicron, to Sense and Respond to Stimuli in the Murine Gut Microbiota journal July 2015
A Subset of Polysaccharide Capsules in the Human Symbiont Bacteroides thetaiotaomicron Promote Increased Competitive Fitness in the Mouse Gut journal October 2017
Bacteroides thetaiotaomicron-Infecting Bacteriophage Isolates Inform Sequence-Based Host Range Predictions journal September 2020
Inflammation and bacteriophages affect DNA inversion states and functionality of the gut microbiota journal March 2024
Molecular Evolution of Multisubunit RNA Polymerases: Sequence Analysis journal January 2010
The NusA N-Terminal Domain Is Necessary and Sufficient for Enhancement of Transcriptional Pausing via Interaction with the RNA Exit Channel of RNA Polymerase journal September 2010
A Nexus for Gene Expression—Molecular Mechanisms of Spt5 and NusG in the Three Domains of Life journal March 2012
A NusG Specialized Paralog That Exhibits Specific, High-Affinity RNA-Binding Activity journal July 2021
Cryo-EM Structure of Porphyromonas gingivalis RNA Polymerase journal May 2024
RNA polymerase and the ribosome: the close relationship journal April 2013
The β Subunit Gate Loop Is Required for RNA Polymerase Modification by RfaH and NusG journal July 2011
RNA Polymerase Accommodates a Pause RNA Hairpin by Global Conformational Rearrangements that Prolong Pausing journal March 2018
Structural Basis for NusA Stabilized Transcriptional Pausing journal March 2018
Structural and functional basis of the universal transcription factor NusG pro-pausing activity in Mycobacterium tuberculosis journal May 2023
An Automated Model Test System for Systematic Development and Improvement of Gene Expression Models journal October 2020
Extensive surface diversity of a commensal microorganism by multiple DNA inversions journal November 2001
RNA-directed DNA methylation requires an AGO4-interacting member of the SPT5 elongation factor family journal April 2009
A microbial symbiosis factor prevents intestinal inflammatory disease journal May 2008
Nascent transcript sequencing visualizes transcription at nucleotide resolution journal January 2011
Automated design of synthetic ribosome binding sites to control protein expression journal October 2009
NusA-dependent transcription termination prevents misregulation of global gene expression journal January 2016
LoaP is a broadly conserved antiterminator protein that regulates antibiotic gene clusters in Bacillus amyloliquefaciens journal February 2017
Bacteroides fragilis polysaccharide A induces IL-10 secreting B and T cells that prevent viral encephalitis journal May 2019
Transcription factors modulate RNA polymerase conformational equilibrium journal March 2022
Concerted transformation of a hyper-paused transcription complex and its reinforcing protein journal April 2024
Phase-variable capsular polysaccharides and lipoproteins modify bacteriophage susceptibility in Bacteroides thetaiotaomicron journal June 2020
Functionally uncoupled transcription–translation in Bacillus subtilis journal August 2020
Basis of narrow-spectrum activity of fidaxomicin on Clostridioides difficile journal April 2022
Structural basis for intrinsic transcription termination journal January 2023
Compensatory evolution in NusG improves fitness of drug-resistant M. tuberculosis journal March 2024
Accurate structure prediction of biomolecular interactions with AlphaFold 3 journal May 2024
Massively parallel single-cell sequencing of diverse microbial populations journal January 2024
Genes involved in conjugative DNA processing of plasmid R6K journal June 1997
Mechanism of sequence-specific pausing of bacterial RNA polymerase journal April 2009
Trans locus inhibitors limit concomitant polysaccharide synthesis in the human gut symbiont Bacteroides fragilis journal June 2010
Two transcription pause elements underlie a σ 70 -dependent pause cycle journal July 2015
Mpi recombinase globally modulates the surface architecture of a human commensal bacterium journal August 2003
Ribosome reactivates transcription by physically pushing RNA polymerase out of transcription arrest journal April 2020
NusG controls transcription pausing and RNA polymerase translocation throughout the Bacillus subtilis genome journal August 2020
Allosteric mechanism of transcription inhibition by NusG-dependent pausing of RNA polymerase journal February 2023
Robust regulation of transcription pausing in  Escherichia coli by the ubiquitous elongation factor NusG journal June 2023
The in Vitro Formation of a Dna-Ribosome Complex journal July 1964
Translation activates the paused transcription complex and restores transcription of the trp operon leader region. journal July 1985
Pausing by bacterial RNA polymerase is mediated by mechanistically distinct classes of signals journal June 2000
Translocation and Transcriptional Arrest during Transcript Elongation by RNA Polymerase II journal September 1996
Antisense Oligonucleotide-stimulated Transcriptional Pausing Reveals RNA Exit Channel Specificity of RNA Polymerase and Mechanistic Contributions of NusA and RfaH journal January 2014
Conserved DNA sequence features underlie pervasive RNA polymerase pausing journal March 2021
RNA polymerase SI3 domain modulates global transcriptional pausing and pause-site fluctuations journal March 2024
The EMBL-EBI Job Dispatcher sequence analysis tools framework in 2024 journal April 2024
The Vienna RNA Websuite journal May 2008
Functional analysis of Thermus thermophilus transcription factor NusG journal July 2010
In vitro experimental system for analysis of transcription–translation coupling journal December 2011
Trigger-helix folding pathway and SI3 mediate catalysis and hairpin-stabilized pausing by Escherichia coli RNA polymerase journal October 2014
SWISS-MODEL: homology modelling of protein structures and complexes journal May 2018
Comparison of Bacteroides thetaiotaomicron and Escherichia coli 16S rRNA gene expression signals journal August 2009
Escherichia coli HIyT protein, a transcriptional activator of haemolysin synthesis and secretion, is encoded by the rfaH (sfrB) locus required for expression of sex factor and lipopolysaccharide genes journal April 1992
A NusG-like transcription anti-terminator is involved in the biosynthesis of the polyketide antibiotic TA ofMyxococcus xanthus journal January 1999
Escherichia coli transcription factor NusG binds to 70S ribosomes: NusG binding to ribosomes couples transcription with translation journal April 2018
Locking the nontemplate DNA to control transcription: RfaH remodels DNA in the transcription elongation complex journal August 2018
Single-cell analysis of multiple invertible promoters reveals differential inversion rates as a strong determinant of bacterial population heterogeneity journal August 2023
Allosteric Control of RNA Polymerase by a Site That Contacts Nascent RNA Hairpins journal April 2001
Abortive Initiation and Productive Initiation by RNA Polymerase Involve DNA Scrunching journal November 2006
BIOCHEMISTRY: RNA Polymerase, a Scrunching Machine journal November 2006
Cooperation Between Translating Ribosomes and RNA Polymerase in Transcription Elongation journal April 2010
A NusE:NusG Complex Links Transcription and Translation journal April 2010
A pause sequence enriched at translation start sites drives transcription dynamics in vivo journal May 2014
Functional Transcription Elongation Complexes from Synthetic RNA-DNA Bubble Duplexes journal November 1992
Visualization of Bacterial Genes in Action journal July 1970
Invertible promoters mediate bacterial phase variation, antibiotic resistance, and host adaptation in the gut journal January 2019
Defining the Bacteroides Ribosomal Binding Site journal March 2013
Polysaccharide Biosynthesis Locus Required for Virulence ofBacteroides fragilis journal July 2001
A Family of Transcriptional Antitermination Factors Necessary for Synthesis of the Capsular Polysaccharides of Bacteroides fragilis journal December 2009
Orientations of theBacteroides fragilisCapsular Polysaccharide Biosynthesis Locus Promoters during Symbiosis and Infection journal November 2010
The Initiation Codon Affects Ribosome Binding and Translational Efficiency in Escherichia coli of cI mRNA with or without the 5' Untranslated Leader journal February 2001
Immunochemical characterization of two surface polysaccharides of Bacteroides fragilis journal June 1991
Transcriptome-Wide Effects of NusA on RNA Polymerase Pausing in Bacillus subtilis journal May 2022
RfaH enhances elongation of Escherichia coli hlyCABD mRNA journal April 1996
Capsular Polysaccharide Cross-Regulation Modulates Bacteroides thetaiotaomicron Biofilm Formation journal June 2020
Mycobacterial RNA Polymerase Requires a U-Tract at Intrinsic Terminators and Is Aided by NusG at Suboptimal Terminators journal April 2014
Streamlined Genetic Manipulation of Diverse Bacteroides and Parabacteroides Isolates from the Human Gut Microbiota journal August 2019
RfaH Counter-Silences Inhibition of Transcript Elongation by H-NS–StpA Nucleoprotein Filaments in Pathogenic Escherichiacoli journal December 2022
Transcriptional Pausing as a Mediator of Bacterial Gene Regulation journal October 2021
Control of Transcription Termination journal June 1978
Design Parameters to Control Synthetic Gene Expression in Escherichia coli journal September 2009
Inability of Prevotella bryantii to Form a Functional Shine-Dalgarno Interaction Reflects Unique Evolution of Ribosome Binding Sites in Bacteroidetes journal August 2011
Bacteroides fragilis Prevents Clostridium difficile Infection in a Mouse Model by Restoring Gut Barrier and Microbiome Regulation journal December 2018
Making the Bend: DNA Tertiary Structure and Protein-DNA Interactions journal July 2014
The universally-conserved transcription factor RfaH is recruited to a hairpin structure of the non-template DNA strand journal May 2018
The elemental mechanism of transcriptional pausing journal January 2019
NusG is an intrinsic transcription termination factor that stimulates motility and coordinates gene expression with NusA journal April 2021

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