An atlas of Hfq-bound transcripts reveals 3′ UTRs as a genomic reservoir of regulatory small RNAs

Multiple factors dictate target selection by Hfq-binding small RNAs

(2012) Chase L Beisel et al.   EMBO JOURNAL

Noncanonical repression of translation initiation through small RNA recruitment of the RNA chaperone Hfq

(2012) G. Desnoyers et al.   GENES & DEVELOPMENT

Superfolder GFP reporters validate diverse new mRNA targets of the classic porin regulator, MicF RNA

(2012) Colin P. Corcoran et al.   MOLECULAR MICROBIOLOGY

Quorum-sensing non-coding small RNAs use unique pairing regions to differentially control mRNA targets

(2012) Yi Shao et al.   MOLECULAR MICROBIOLOGY

Targeting of csgD by the small regulatory RNA RprA links stationary phase, biofilm formation and cell envelope stress in Escherichia coli

(2012) Franziska Mika et al.   MOLECULAR MICROBIOLOGY

A mixed double negative feedback loop between the sRNA MicF and the global regulator Lrp

(2012) Erik Holmqvist et al.   MOLECULAR MICROBIOLOGY

Small regulatory RNAs control the multi-cellular adhesive lifestyle of Escherichia coli

(2012) Mikkel Girke Jørgensen et al.   MOLECULAR MICROBIOLOGY

A small RNA that regulates motility and biofilm formation in response to changes in nutrient availability in Escherichia coli

(2012) Maureen K. Thomason et al.   MOLECULAR MICROBIOLOGY

The ancestral SgrS RNA discriminates horizontally acquired Salmonella mRNAs through a single G-U wobble pair

(2012) K. Papenfort et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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 functional Hfq-binding module of bacterial sRNAs consists of a double or single hairpin preceded by a U-rich sequence and followed by a 3' poly(U) tail

(2012) H. Ishikawa et al.   RNA

The crucial role of PNPase in the degradation of small RNAs that are not associated with Hfq

(2012) J. M. Andrade et al.   RNA

Accessibility and Evolutionary Conservation Mark Bacterial Small-RNA Target-Binding Regions

(2011) A. Peer et al.   JOURNAL OF BACTERIOLOGY

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

Regulation by Small RNAs in Bacteria: Expanding Frontiers

(2011) Gisela Storz et al.   MOLECULAR CELL

Competition among Hfq-binding small RNAs in Escherichia coli

(2011) Kyung Moon et al.   MOLECULAR MICROBIOLOGY

Pervasive post-transcriptional control of genes involved in amino acid metabolism by the Hfq-dependent GcvB small RNA

(2011) Cynthia M. Sharma et al.   MOLECULAR MICROBIOLOGY

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

(2011) Elisabeth Sonnleitner et al.   MOLECULAR MICROBIOLOGY

A tale of two mRNA degradation pathways mediated by RNase E

(2011) Marie Bouvier et al.   MOLECULAR MICROBIOLOGY

Hfq and its constellation of RNA

(2011) Jörg Vogel et al.   NATURE REVIEWS MICROBIOLOGY

A conserved RpoS-dependent small RNA controls the synthesis of major porin OmpD

(2011) Kathrin S. Fröhlich et al.   NUCLEIC ACIDS RESEARCH

The small RNA SgrS controls sugar–phosphate accumulation by regulating multiple PTS genes

(2011) Jennifer B. Rice et al.   NUCLEIC ACIDS RESEARCH

PolyU tail of rho-independent terminator of bacterial small RNAs is essential for Hfq action

(2011) Hironori Otaka et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Small RNAs endow a transcriptional activator with essential repressor functions for single-tier control of a global stress regulon

(2011) E. B. Gogol et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural basis for RNA 3′-end recognition by Hfq

(2011) Evelyn Sauer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Two antisense RNAs target the transcriptional regulator CsgD to inhibit curli synthesis

(2010) Erik Holmqvist et al.   EMBO JOURNAL

Integrating anaerobic/aerobic sensing and the general stress response through the ArcZ small RNA

(2010) Pierre Mandin et al.   EMBO JOURNAL

RNAs actively cycle on the Sm-like protein Hfq

(2010) A. Fender et al.   GENES & DEVELOPMENT

Translational Regulation of Gene Expression by an Anaerobically Induced Small Non-coding RNA in Escherichia coli

(2010) Anders Boysen et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A minimal base-pairing region of a bacterial small RNA SgrS required for translational repression of ptsG mRNA

(2010) Kimika Maki et al.   MOLECULAR MICROBIOLOGY

Reprogramming of anaerobic metabolism by the FnrS small RNA

(2010) Sylvain Durand et al.   MOLECULAR MICROBIOLOGY

Recognition of heptameric seed sequence underlies multi-target regulation by RybB small RNA in Salmonella enterica

(2010) Roberto Balbontín et al.   MOLECULAR MICROBIOLOGY

A dual-function sRNA from B. subtilis: SR1 acts as a peptide encoding mRNA on the gapA operon

(2010) Matthias Gimpel et al.   MOLECULAR MICROBIOLOGY

Hfq binding at RhlB-recognition region of RNase E is crucial for the rapid degradation of target mRNAs mediated by sRNAs in Escherichia coli

(2010) Yoshiki Ikeda et al.   MOLECULAR MICROBIOLOGY

The primary transcriptome of the major human pathogen Helicobacter pylori

(2010) Cynthia M. Sharma et al.   NATURE

All things must pass: contrasts and commonalities in eukaryotic and bacterial mRNA decay

(2010) Joel G. Belasco   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Evidence for an autonomous 5' target recognition domain in an Hfq-associated small RNA

(2010) K. Papenfort et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Deep sequencing of Salmonella RNA associated with heterologous Hfq proteins in vivo reveals small RNAs as a major target class and identifies RNA processing phenotypes

(2010) Alexandra Sittka et al.   RNA Biology

Computational prediction of sRNAs and their targets in bacteria

(2010) Rolf Backofen et al.   RNA Biology

The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets

(2009) J. W. Nicol et al.   BIOINFORMATICS

A trans-Acting Riboswitch Controls Expression of the Virulence Regulator PrfA in Listeria monocytogenes

(2009) Edmund Loh et al.   CELL

An overview of RNAs with regulatory functions in gram-positive bacteria

(2009) Pascale Romby et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Activation of gene expression by small RNA

(2009) Kathrin S. Fröhlich et al.   CURRENT OPINION IN MICROBIOLOGY

Caught at its own game: regulatory small RNA inactivated by an inducible transcript mimicking its target

(2009) N. Figueroa-Bossi et al.   GENES & DEVELOPMENT

Role of the sRNA GcvB in regulation of cycA in Escherichia coli

(2009) S. C. Pulvermacher et al.   MICROBIOLOGY-SGM

Regulator Trafficking on Bacterial Transcription Units In Vivo

(2009) Rachel A. Mooney et al.   MOLECULAR CELL

A conserved small RNA promotes silencing of the outer membrane protein YbfM

(2009) Anders Aamann Rasmussen et al.   MOLECULAR MICROBIOLOGY

Rapid cleavage of RNA by RNase E in the absence of 5′ monophosphate stimulation

(2009) Louise Kime et al.   MOLECULAR MICROBIOLOGY

A PhoQ/P-regulated small RNA regulates sensitivity of Escherichia coli to antimicrobial peptides

(2009) Kyung Moon et al.   MOLECULAR MICROBIOLOGY

Specific and pleiotropic patterns of mRNA regulation by ArcZ, a conserved, Hfq-dependent small RNA

(2009) Kai Papenfort et al.   MOLECULAR MICROBIOLOGY

The transcription unit architecture of the Escherichia coli genome

(2009) Byung-Kwan Cho et al.   NATURE BIOTECHNOLOGY

Coding sequence targeting by MicC RNA reveals bacterial mRNA silencing downstream of translational initiation

(2009) Verena Pfeiffer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Genome-Wide Identification of Transcription Start Sites, Promoters and Transcription Factor Binding Sites in E. coli

(2009) Alfredo Mendoza-Vargas et al.   PLoS One

Structure of Escherichia coli Hfq bound to polyriboadenylate RNA

(2009) T. M. Link et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

The role of the small regulatory RNA GcvB in GcvB/mRNA posttranscriptional regulation of oppA and dppA in Escherichia coli

(2008) Sarah C. Pulvermacher et al.   FEMS MICROBIOLOGY LETTERS

Lysine Represses Transcription of the Escherichia coli dapB Gene by Preventing Its Activation by the ArgP Activator

(2008) J. Bouvier et al.   JOURNAL OF BACTERIOLOGY

Detection of small RNAs in Pseudomonas aeruginosa by RNomics and structure-based bioinformatic tools

(2008) E. Sonnleitner et al.   MICROBIOLOGY-SGM

Small RNA Binding to 5′ mRNA Coding Region Inhibits Translational Initiation

(2008) Marie Bouvier et al.   MOLECULAR CELL

The bacterial enzyme RppH triggers messenger RNA degradation by 5′ pyrophosphate removal

(2008) Atilio Deana et al.   NATURE

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

The 5′ end of two redundant sRNAs is involved in the regulation of multiple targets, including their own regulator

(2008) Maude Guillier et al.   NUCLEIC ACIDS RESEARCH

Deep Sequencing Analysis of Small Noncoding RNA and mRNA Targets of the Global Post-Transcriptional Regulator, Hfq

(2008) Alexandra Sittka et al.   PLoS Genetics