High-resolution transcriptional analysis of the regulatory influence of cell-to-cell signalling reveals novel genes that contribute toXanthomonasphytopathogenesis

How deep is deep enough for RNA-Seq profiling of bacterial transcriptomes?

(2012) Brian J Haas et al.   BMC GENOMICS

The Burkholderia cenocepacia BDSF quorum sensing fatty acid is synthesized by a bifunctional crotonase homologue having both dehydratase and thioesterase activities

(2012) Hongkai Bi et al.   MOLECULAR MICROBIOLOGY

Top 10 plant pathogenic bacteria in molecular plant pathology

(2012) JOHN MANSFIELD et al.   MOLECULAR PLANT PATHOLOGY

Differential analysis of gene regulation at transcript resolution with RNA-seq

(2012) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Differential expression in RNA-seq: A matter of depth

(2011) S. Tarazona et al.   GENOME RESEARCH

Pathogenomics of Xanthomonas: understanding bacterium–plant interactions

(2011) Robert P. Ryan 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

sRNA-Xcc1, an integron-encoded transposon- and plasmid-transferred trans-acting sRNA, is under the positive control of the key virulence regulators HrpG and HrpX ofXanthomonas campestrispathovarcampestris

(2011) Xiao-Lin Chen et al.   RNA Biology

Advances in bacterial transcriptome and transposon insertion-site profiling using second-generation sequencing

(2011) Melanie Febrer et al.   TRENDS IN BIOTECHNOLOGY

Communication with a growing family: diffusible signal factor (DSF) signaling in bacteria

(2011) Robert P. Ryan et al.   TRENDS IN MICROBIOLOGY

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Comprehensive identification and quantification of microbial transcriptomes by genome-wide unbiased methods

(2010) Ulrike Mäder et al.   CURRENT OPINION IN BIOTECHNOLOGY

Studying bacterial transcriptomes using RNA-seq

(2010) Nicholas J Croucher et al.   CURRENT OPINION IN MICROBIOLOGY

mRNA deep sequencing reveals 75 new genes and a complex transcriptional landscape in Mimivirus

(2010) M. Legendre et al.   GENOME RESEARCH

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Cartography of Methicillin-Resistant S. aureus Transcripts: Detection, Orientation and Temporal Expression during Growth Phase and Stress Conditions

(2010) Marie Beaume et al.   PLoS One

Cell-cell signal-dependent dynamic interactions between HD-GYP and GGDEF domain proteins mediate virulence in Xanthomonas campestris

(2010) R. P. Ryan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

Diffusible signals and interspecies communication in bacteria

(2008) R. P. Ryan et al.   MICROBIOLOGY-SGM

A cell-cell signaling sensor is required for virulence and insect transmission of Xylella fastidiosa

(2008) S. Chatterjee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA