MAPS integrates regulation of actin-targeting effector SteC into the virulence control network of Salmonella small RNA PinT

The Major RNA-Binding Protein ProQ Impacts Virulence Gene Expression in Salmonella enterica Serovar Typhimurium

(2019) Alexander J. Westermann et al.   mBio

SraL sRNA interaction regulates the terminator by preventing premature transcription termination of rho mRNA

(2019) Inês Jesus Silva et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The sRNA PinT contributes to PhoP-mediated regulation of the SPI1 T3SS in Salmonella enterica serovar Typhimurium

(2019) Kyungsub Kim et al.   JOURNAL OF BACTERIOLOGY

Determinants of target prioritization and regulatory hierarchy for the bacterial small RNA SgrS

(2019) Maksym Bobrovskyy et al.   MOLECULAR MICROBIOLOGY

RsaC sRNA modulates the oxidative stress response of Staphylococcus aureus during manganese starvation

(2019) David Lalaouna et al.   NUCLEIC ACIDS RESEARCH

The power of cooperation: Experimental and computational approaches in the functional characterization of bacterial sRNAs

(2019) Jens Georg et al.   MOLECULAR MICROBIOLOGY

Bacterial RNA Biology on a Genome Scale

(2018) Jens Hör et al.   MOLECULAR CELL

Global Maps of ProQ Binding In Vivo Reveal Target Recognition via RNA Structure and Stability Control at mRNA 3′ Ends

(2018) Erik Holmqvist et al.   MOLECULAR CELL

The transcription factor SlyA from Salmonella Typhimurium regulates genes in response to hydrogen peroxide and sodium hypochlorite

(2018) Carolina E. Cabezas et al.   RESEARCH IN MICROBIOLOGY

CRP-cAMP mediates silencing of Salmonella virulence at the post-transcriptional level

(2018) Youssef El Mouali et al.   PLoS Genetics

Gene network analysis identifies a central post-transcriptional regulator of cellular stress survival

(2018) Matthew Tien et al.   eLife

Hfq links translation repression to stress-induced mutagenesis in E. coli

(2017) Jiandong Chen et al.   GENES & DEVELOPMENT

Identification of unknown RNA partners using MAPS

(2017) David Lalaouna et al.   METHODS

Mapping the small RNA interactome in bacteria using RIL-seq

(2017) Sahar Melamed et al.   Nature Protocols

Contrasting silencing mechanisms of the same target mRNA by two regulatory RNAs in Escherichia coli

(2017) David Lalaouna et al.   NUCLEIC ACIDS RESEARCH

A transposon-derived small RNA regulates gene expression in Salmonella Typhimurium

(2017) Michael J. Ellis et al.   NUCLEIC ACIDS RESEARCH

The RNA targetome of Staphylococcus aureus non-coding RNA RsaA: impact on cell surface properties and defense mechanisms

(2017) Arnaud Tomasini et al.   NUCLEIC ACIDS RESEARCH

Activation of master virulence regulator PhoP in acidic pH requires theSalmonella-specific protein UgtL

(2017) Jeongjoon Choi et al.   Science Signaling

The transcriptional regulator SsrB is involved in a molecular switch controlling virulence lifestyles of Salmonella

(2017) Deyanira Pérez-Morales et al.   PLoS Pathogens

Resolving host–pathogen interactions by dual RNA-seq

(2017) Alexander J. Westermann et al.   PLoS Pathogens

Activation of master virulence regulator PhoP in acidic pH requires theSalmonella-specific protein UgtL

(2017) Jeongjoon Choi et al.   Science Signaling

Salmonella Typhimurium PagP- and UgtL-dependent resistance to antimicrobial peptides contributes to the gut colonization

(2017) Ryosuke Goto et al.   PLoS One

Small RNA interactome of pathogenic E. coli revealed through crosslinking of RNase E

(2016) Shafagh A Waters et al.   EMBO JOURNAL

Global Mapping of Small RNA-Target Interactions in Bacteria

(2016) Sahar Melamed et al.   MOLECULAR CELL

Dual RNA-seq unveils noncoding RNA functions in host–pathogen interactions

(2016) Alexander J. Westermann et al.   NATURE

Molecular phenotyping of infection-associated small non-coding RNAs

(2016) Lars Barquist et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Mapping the Regulatory Network for Salmonella enterica Serovar Typhimurium Invasion

(2016) Carol Smith et al.   mBio

The Impact of 18 Ancestral and Horizontally-Acquired Regulatory Proteins upon the Transcriptome and sRNA Landscape of Salmonella enterica serovar Typhimurium

(2016) Aoife M. Colgan et al.   PLoS Genetics

GRIL-seq provides a method for identifying direct targets of bacterial small regulatory RNA by in vivo proximity ligation

(2016) Kook Han et al.   Nature Microbiology

A 3′ External Transcribed Spacer in a tRNA Transcript Acts as a Sponge for Small RNAs to Prevent Transcriptional Noise

(2015) David Lalaouna et al.   MOLECULAR CELL

Differential RNA-seq ofVibrio choleraeidentifies the VqmR small RNA as a regulator of biofilm formation

(2015) Kai Papenfort et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA-seq Brings New Insights to the Intra-Macrophage Transcriptome of Salmonella Typhimurium

(2015) Shabarinath Srikumar et al.   PLoS Pathogens

READemption--a tool for the computational analysis of deep-sequencing-based transcriptome data

(2014) K. U. Forstner et al.   BIOINFORMATICS

Quorum regulatory small RNAs repress type VI secretion inVibrio cholerae

(2014) Yi Shao et al.   MOLECULAR MICROBIOLOGY

A multicopy sRNA ofListeria monocytogenesregulates expression of the virulence adhesin LapB

(2014) Susanne Sievers et al.   NUCLEIC ACIDS RESEARCH

Regulation of Hfq by the RNA CrcZ in Pseudomonas aeruginosa Carbon Catabolite Repression

(2014) Elisabeth Sonnleitner et al.   PLoS Genetics

An Infection-Relevant Transcriptomic Compendium for Salmonella enterica Serovar Typhimurium

(2013) Carsten Kröger et al.   Cell Host & Microbe

Global Impact ofSalmonellaPathogenicity Island 2-secreted Effectors on the Host Phosphoproteome

(2013) Koshi Imami et al.   MOLECULAR & CELLULAR PROTEOMICS

RNA-protein analysis using a conditional CRISPR nuclease

(2013) H. Y. Lee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA-Mediated Regulation in Pathogenic Bacteria

(2013) I. Caldelari et al.   Cold Spring Harbor Perspectives in Medicine

Emerging Functions for the Staphylococcus aureus RNome

(2013) Julien Guillet et al.   PLoS Pathogens

GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data

(2012) Jianxing Feng et al.   BIOINFORMATICS

The Salmonella Kinase SteC Targets the MAP Kinase MEK to Regulate the Host Actin Cytoskeleton

(2012) Charlotte Odendall et al.   Cell Host & Microbe

The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium

(2012) C. Kroger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Base-Pairing RNA Spot 42 Participates in a Multioutput Feedforward Loop to Help Enact Catabolite Repression in Escherichia coli

(2011) Chase L. Beisel et al.   MOLECULAR CELL

The small RNA PhrS stimulates synthesis of the Pseudomonas aeruginosa quinolone signal

(2011) Elisabeth Sonnleitner et al.   MOLECULAR MICROBIOLOGY

The Vibrio cholerae quorum sensing response is mediated by Hfq-dependent sRNA/mRNA base pairing interactions

(2011) J. Patrick Bardill et al.   MOLECULAR MICROBIOLOGY

A Genome-Wide Approach to Discovery of Small RNAs Involved in Regulation of Virulence in Vibrio cholerae

(2011) Evan S. Bradley et al.   PLoS Pathogens

A Salmonella Small Non-Coding RNA Facilitates Bacterial Invasion and Intracellular Replication by Modulating the Expression of Virulence Factors

(2011) Hao Gong et al.   PLoS Pathogens

The role of Hfq in bacterial pathogens

(2010) Yanjie Chao et al.   CURRENT OPINION IN MICROBIOLOGY

Sequence- and Structure-Specific RNA Processing by a CRISPR Endonuclease

(2010) Rachel E. Haurwitz et al.   SCIENCE

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

In vivo expression and purification of aptamer-tagged small RNA regulators

(2009) Nelly Said et al.   NUCLEIC ACIDS RESEARCH

Global Systems-Level Analysis of Hfq and SmpB Deletion Mutants in Salmonella: Implications for Virulence and Global Protein Translation

(2009) Charles Ansong et al.   PLoS One

Fast Mapping of Short Sequences with Mismatches, Insertions and Deletions Using Index Structures

(2009) Steve Hoffmann et al.   PLoS Computational Biology

IntaRNA: efficient prediction of bacterial sRNA targets incorporating target site accessibility and seed regions

(2008) Anke Busch et al.   BIOINFORMATICS

Small RNAs encoded within genetic islands of Salmonella typhimurium show host-induced expression and role in virulence

(2008) Gilly Padalon-Brauch et al.   NUCLEIC ACIDS RESEARCH