RNase III-CLASH of multi-drug resistant Staphylococcus aureus reveals a regulatory mRNA 3′UTR required for intermediate vancomycin resistance

RNase III-CLASH of multi-drug resistant Staphylococcus aureus reveals a regulatory mRNA 3′UTR required for intermediate vancomycin resistance

(2022) Daniel G. Mediati et al.   Nature Communications

Regulatory roles of Escherichia coli 5' UTR and ORF-internal RNAs detected by 3' end mapping

(2021) Philip P Adams et al.   eLife

RNA antitoxin SprF1 binds ribosomes to attenuate translation and promote persister cell formation in Staphylococcus aureus

(2021) Marie-Laure Pinel-Marie et al.   Nature Microbiology

Distinct expression profiles of regulatory RNAs in the response to biocides in Staphylococcus aureus and Enterococcus faecium

(2021) Loren Dejoies et al.   Scientific Reports

Burning the Candle at Both Ends: Have Exoribonucleases Driven Divergence of Regulatory RNA Mechanisms in Bacteria?

(2021) Daniel G. Mediati et al.   mBio

An RNA biology perspective on species‐specific programmable RNA antibiotics

(2020) Jörg Vogel   MOLECULAR MICROBIOLOGY

An mRNA-mRNA Interaction Couples Expression of a Virulence Factor and Its Chaperone in Listeria monocytogenes

(2020) Dmitriy Ignatov et al.   Cell Reports

Prevalence of small base-pairing RNAs derived from diverse genomic loci

(2020) Philip P. Adams et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

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

(2019) David Lalaouna et al.   NUCLEIC ACIDS RESEARCH

High-resolution RNA 3′-ends mapping of bacterial Rho-dependent transcripts

(2018) Daniel Dar et al.   NUCLEIC ACIDS RESEARCH

Tailor-made gene silencing of Staphylococcus aureus clinical isolates by CRISPR interference

(2018) Yusuke Sato’o et al.   PLoS One

Genome-scale analysis of Methicillin-resistant Staphylococcus aureus USA300 reveals a tradeoff between pathogenesis and drug resistance

(2018) Donghui Choe et al.   Scientific Reports

A D-Alanine auxotrophic live vaccine is effective against lethal infection caused by Staphylococcus aureus

(2018) Miriam Moscoso et al.   Virulence

In vivo cleavage rules and target repertoire of RNase III in Escherichia coli

(2018) Yael Altuvia et al.   NUCLEIC ACIDS RESEARCH

Bacterial Noncoding RNAs Excised from within Protein-Coding Transcripts

(2018) Daniel Dar et al.   mBio

ANNOgesic: a Swiss army knife for the RNA-seq based annotation of bacterial/archaeal genomes

(2018) Sung-Huan Yu et al.   GigaScience

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

Kinetic CRAC uncovers a role for Nab3 in determining gene expression profiles during stress

(2017) Rob van Nues et al.   Nature Communications

TSS-EMOTE, a refined protocol for a more complete and less biased global mapping of transcription start sites in bacterial pathogens

(2016) Julien Prados et al.   BMC GENOMICS

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

(2016) Shafagh A Waters et al.   EMBO JOURNAL

Term-seq reveals abundant ribo-regulation of antibiotics resistance in bacteria

(2016) D. Dar et al.   SCIENCE

Peptidoglycan Recycling in Gram-Positive Bacteria Is Crucial for Survival in Stationary Phase

(2016) Marina Borisova et al.   mBio

Widespread formation of alternative 3′ UTR isoforms via transcription termination in archaea

(2016) Daniel Dar et al.   Nature Microbiology

Staphylococcus aureus Infections: Epidemiology, Pathophysiology, Clinical Manifestations, and Management

(2015) Steven Y. C. Tong et al.   CLINICAL MICROBIOLOGY REVIEWS

The Staphylococcus aureus Protein-Coding GenegdpSModulatessarSExpression via mRNA-mRNA Interaction

(2015) Chuan Chen et al.   INFECTION AND IMMUNITY

Inhibiting the growth of methicillin-resistant Staphylococcus aureus in vitro with antisense peptide nucleic acid conjugates targeting the ftsZ gene

(2015) Shumei Liang et al.   INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES

The Streptococcus mutans irvA Gene Encodes a trans -Acting Riboregulatory mRNA

(2015) Nan Liu et al.   MOLECULAR CELL

SRD: aStaphylococcusregulatory RNA database

(2015) Mohamed Sassi et al.   RNA

Complete Bypass of Restriction Systems for Major Staphylococcus aureus Lineages

(2015) Ian R. Monk et al.   mBio

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Differential RNA-seq: the approach behind and the biological insight gained

(2014) Cynthia M Sharma et al.   CURRENT OPINION IN MICROBIOLOGY

Nucleosomes Are Context-Specific, H2A.Z-Modulated Barriers to RNA Polymerase

(2014) Christopher M. Weber et al.   MOLECULAR CELL

Identification of Bacteriophage-Encoded Anti-sRNAs in Pathogenic Escherichia coli

(2014) Jai J. Tree et al.   MOLECULAR CELL

A eukaryotic-like 3′ untranslated region in Salmonella enterica hilD mRNA

(2014) Javier López-Garrido et al.   NUCLEIC ACIDS RESEARCH

A small RNA controls a protein regulator involved in antibiotic resistance in Staphylococcus aureus

(2014) Alex Eyraud et al.   NUCLEIC ACIDS RESEARCH

PAR-CLIP data indicate that Nrd1-Nab3-dependent transcription termination regulates expression of hundreds of protein coding genes in yeast

(2014) Shaun Webb et al.   GENOME BIOLOGY

Analysis of the Small RNA Transcriptional Response in Multidrug-Resistant Staphylococcus aureus after Antimicrobial Exposure

(2013) Benjamin P. Howden et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

ArtR, a novel sRNA of Staphylococcus aureus, regulates α-toxin expression by targeting the 5′ UTR of sarT mRNA

(2013) Ting Xue et al.   MEDICAL MICROBIOLOGY AND IMMUNOLOGY

Hyb: A bioinformatics pipeline for the analysis of CLASH (crosslinking, ligation and sequencing of hybrids) data

(2013) Anthony J. Travis et al.   METHODS

High-Resolution Transcriptome Maps Reveal Strain-Specific Regulatory Features of Multiple Campylobacter jejuni Isolates

(2013) Gaurav Dugar et al.   PLoS Genetics

Base Pairing Interaction between 5′- and 3′-UTRs Controls icaR mRNA Translation in Staphylococcus aureus

(2013) Igor Ruiz de los Mozos et al.   PLoS Genetics

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

(2012) Yanjie Chao et al.   EMBO JOURNAL

The excludon: a new concept in bacterial antisense RNA-mediated gene regulation

(2012) Nina Sesto et al.   NATURE REVIEWS MICROBIOLOGY

Loop-loop interactions involved in antisense regulation are processed by the endoribonuclease III inStaphylococcus aureus

(2012) Cédric Romilly et al.   RNA Biology

Transforming the Untransformable: Application of Direct Transformation To Manipulate Genetically Staphylococcus aureus and Staphylococcus epidermidis

(2012) I. R. Monk et al.   mBio

Global Regulatory Functions of the Staphylococcus aureus Endoribonuclease III in Gene Expression

(2012) Efthimia Lioliou et al.   PLoS Genetics

WebMGA: a customizable web server for fast metagenomic sequence analysis

(2011) Sitao Wu et al.   BMC GENOMICS

Genome-wide antisense transcription drives mRNA processing in bacteria

(2011) I. Lasa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reduced Vancomycin Susceptibility in Staphylococcus aureus, Including Vancomycin-Intermediate and Heterogeneous Vancomycin-Intermediate Strains: Resistance Mechanisms, Laboratory Detection, and Clinical Implications

(2010) B. P. Howden et al.   CLINICAL MICROBIOLOGY REVIEWS

Physiological significance of the peptidoglycan hydrolase, LytM, in Staphylococcus aureus

(2010) Vineet K. Singh et al.   FEMS MICROBIOLOGY LETTERS

Complete Genome Sequence of Staphylococcus aureus Strain JKD6008, an ST239 Clone of Methicillin-Resistant Staphylococcus aureus with Intermediate-Level Vancomycin Resistance

(2010) B. P. Howden et al.   JOURNAL OF BACTERIOLOGY

The primary transcriptome of the major human pathogen Helicobacter pylori

(2010) Cynthia M. Sharma et al.   NATURE

A Staphylococcus aureus Small RNA Is Required for Bacterial Virulence and Regulates the Expression of an Immune-Evasion Molecule

(2010) Svetlana Chabelskaya et al.   PLoS Pathogens

Staphylococcus aureus RNAIII Binds to Two Distant Regions of coa mRNA to Arrest Translation and Promote mRNA Degradation

(2010) Clément Chevalier et al.   PLoS Pathogens

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY