Transcriptomic Profiling of Yersinia pseudotuberculosis Reveals Reprogramming of the Crp Regulon by Temperature and Uncovers Crp as a Master Regulator of Small RNAs

Community Behavior and Spatial Regulation within a Bacterial Microcolony in Deep Tissue Sites Serves to Protect against Host Attack

(2015) Kimberly M. Davis et al.   Cell Host & Microbe

Reprogramming of Yersinia from Virulent to Persistent Mode Revealed by Complex In Vivo RNA-seq Analysis

(2015) Kemal Avican et al.   PLoS Pathogens

TSSAR: TSS annotation regime for dRNA-seq data

(2014) Fabian Amman et al.   BMC BIOINFORMATICS

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

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

Colonization of Cecum Is Important for Development of Persistent Infection by Yersinia pseudotuberculosis

(2014) Anna Fahlgren et al.   INFECTION AND IMMUNITY

Genome-Wide Analysis of Small RNAs Expressed by Yersinia pestis Identifies a Regulator of the Yop-Ysc Type III Secretion System

(2014) C. A. Schiano et al.   JOURNAL OF BACTERIOLOGY

The Pyruvate-Tricarboxylic Acid Cycle Node

(2014) René Bücker et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Parallel independent evolution of pathogenicity within the genus Yersinia

(2014) S. Reuter et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A direct link between the global regulator PhoP and the Csr regulon inY. pseudotuberculosisthrough the small regulatory RNA CsrC

(2014) Aaron M Nuss et al.   RNA Biology

Posttranscriptional Regulation of the Yersinia pestis Cyclic AMP Receptor Protein Crp and Impact on Virulence

(2014) W. W. Lathem et al.   mBio

Transcriptional regulation of bacterial virulence gene expression by molecular oxygen and nitric oxide

(2014) Jeffrey Green et al.   Virulence

Small RNA functions in carbon metabolism and virulence of enteric pathogens

(2014) Kai Papenfort et al.   Frontiers in Cellular and Infection Microbiology

Global mapping of transcription start sites and promoter motifs in the symbiotic α-proteobacterium Sinorhizobium meliloti 1021

(2013) Jan-Philip Schlüter et al.   BMC GENOMICS

A Decade of Riboswitches

(2013) Alexander Serganov et al.   CELL

Determination of sRNA Expressions by RNA-seq in Yersinia pestis Grown In Vitro and during Infection

(2013) Yanfeng Yan et al.   PLoS One

Identification and characterization of small RNAs inYersinia pestis

(2013) Arthur Beauregard et al.   RNA Biology

Bacterial virulence and Fis: adapting regulatory networks to the host environment

(2013) Alexandre Duprey et al.   TRENDS IN MICROBIOLOGY

Small RNA-mediated regulation of host–pathogen interactions

(2013) Jennifer F Harris et al.   Virulence

Genome-Wide Identification of Regulatory RNAs in the Human Pathogen Clostridium difficile

(2013) Olga A. Soutourina et al.   PLoS Genetics

Identification by cDNA cloning of abundant sRNAs in a human-avirulent Yersinia pestis strain grown under five different growth conditions

(2012) Yi Qu et al.   Future 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

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Bacterial RNA thermometers: molecular zippers and switches

(2012) Jens Kortmann et al.   NATURE REVIEWS MICROBIOLOGY

The Pseudomonas aeruginosa Transcriptome in Planktonic Cultures and Static Biofilms Using RNA Sequencing

(2012) Andreas Dötsch et al.   PLoS One

Autoproteolysis and Intramolecular Dissociation of Yersinia YscU Precedes Secretion of Its C-Terminal Polypeptide YscUCC

(2012) Stefan Frost et al.   PLoS One

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 Csr/Rsm system of Yersinia and related pathogens

(2012) Ann Kathrin Heroven et al.   RNA Biology

Comparative Analysis of Regulatory Elements between Escherichia coli and Klebsiella pneumoniae by Genome-Wide Transcription Start Site Profiling

(2012) Donghyuk Kim et al.   PLoS Genetics

Concerted Actions of a Thermo-labile Regulator and a Unique Intergenic RNA Thermosensor Control Yersinia Virulence

(2012) Katja Böhme et al.   PLoS Pathogens

The Single-Nucleotide Resolution Transcriptome of Pseudomonas aeruginosa Grown in Body Temperature

(2012) Omri Wurtzel et al.   PLoS Pathogens

Post-Transcriptional Regulation of Gene Expression in Yersinia Species

(2012) Chelsea A. Schiano et al.   Frontiers in Cellular and Infection Microbiology

Crp Induces Switching of the CsrB and CsrC RNAs in Yersinia pseudotuberculosis and Links Nutritional Status to Virulence

(2012) Ann Kathrin Heroven et al.   Frontiers in Cellular and Infection Microbiology

Negative Effect of Glucose on ompA mRNA Stability: a Potential Role of Cyclic AMP in the Repression of hfq in Escherichia coli

(2011) H.-H. Lin et al.   JOURNAL OF BACTERIOLOGY

Prospects for Riboswitch Discovery and Analysis

(2011) Ronald R. Breaker   MOLECULAR CELL

Hfq and its constellation of RNA

(2011) Jörg Vogel et al.   NATURE REVIEWS MICROBIOLOGY

Genome-wide transcriptome analysis of the plant pathogen Xanthomonas identifies sRNAs with putative virulence functions

(2011) Cornelius Schmidtke et al.   NUCLEIC ACIDS RESEARCH

Global discovery of small RNAs in Yersinia pseudotuberculosis identifies Yersinia-specific small, noncoding RNAs required for virulence

(2011) J. T. Koo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regulatory RNA in Bacterial Pathogens

(2010) Kai Papenfort et al.   Cell Host & Microbe

The presence of professional phagocytes dictates the number of host cells targeted for Yop translocation during infection

(2010) Enrique A. Durand et al.   CELLULAR MICROBIOLOGY

The role of Hfq in bacterial pathogens

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

The Small RNA Chaperone Hfq Is Required for the Virulence of Yersinia pseudotuberculosis

(2010) C. A. Schiano et al.   INFECTION AND IMMUNITY

The Importance of the Small RNA Chaperone Hfq for Growth of Epidemic Yersinia pestis, but Not Yersinia pseudotuberculosis, with Implications for Plague Biology

(2010) G. Bai et al.   JOURNAL OF BACTERIOLOGY

The primary transcriptome of the major human pathogen Helicobacter pylori

(2010) Cynthia M. Sharma et al.   NATURE

Common and divergent features in transcriptional control of the homologous small RNAs GlmY and GlmZ in Enterobacteriaceae

(2010) Yvonne Göpel et al.   NUCLEIC ACIDS RESEARCH

The role of mRNA structure in translational control in bacteria

(2010) Thomas Geissmann et al.   RNA Biology

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Direct and negative regulation of the sycO-ypkA-ypoJ operon by cyclic AMP receptor protein (CRP) in Yersinia pestis

(2009) Lingjun Zhan et al.   BMC MICROBIOLOGY

Intrinsic Thermal Sensing Controls Proteolysis of Yersinia Virulence Regulator RovA

(2009) Katharina Herbst et al.   PLoS Pathogens

Riboswitch RNAs: using RNA to sense cellular metabolism

(2008) T. M. Henkin   GENES & DEVELOPMENT

The Cyclic AMP Receptor Protein, CRP, Is Required for Both Virulence and Expression of the Minimal CRP Regulon in Yersinia pestis Biovar microtus

(2008) L. Zhan et al.   INFECTION AND IMMUNITY

A widespread riboswitch candidate that controls bacterial genes involved in molybdenum cofactor and tungsten cofactor metabolism

(2008) Elizabeth E. Regulski et al.   MOLECULAR MICROBIOLOGY

Ribosomes bind leaderless mRNA in Escherichia coli through recognition of their 5'-terminal AUG

(2008) J. E. Brock et al.   RNA