RNase J depletion leads to massive changes in mRNA abundance inHelicobacter pylori

Widespread Co-translational RNA Decay Reveals Ribosome Dynamics

(2015) Vicent Pelechano et al.   CELL

NAD captureSeq indicates NAD as a bacterial cap for a subset of regulatory RNAs

(2014) Hana Cahová et al.   NATURE

A variable homopolymeric G-repeat defines small RNA-mediated posttranscriptional regulation of a chemotaxis receptor in Helicobacter pylori

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

Transcriptome-Wide Analyses of 5′-Ends in RNase J Mutants of a Gram-Positive Pathogen Reveal a Role in RNA Maturation, Regulation and Degradation

(2014) Patrick Linder et al.   PLoS Genetics

Specificity of RppH-dependent RNA degradation in Bacillus subtilis

(2013) P.-k. Hsieh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Software for Computing and Annotating Genomic Ranges

(2013) Michael Lawrence et al.   PLoS Computational Biology

Comparative dynamic transcriptome analysis (cDTA) reveals mutual feedback between mRNA synthesis and degradation

(2012) M. Sun et al.   GENOME RESEARCH

A minimal bacterial RNase J-based degradosome is associated with translating ribosomes

(2012) Yulia Redko et al.   NUCLEIC ACIDS RESEARCH

MicroScope—an integrated microbial resource for the curation and comparative analysis of genomic and metabolic data

(2012) David Vallenet et al.   NUCLEIC ACIDS RESEARCH

Condition-Dependent Transcriptome Reveals High-Level Regulatory Architecture in Bacillus subtilis

(2012) P. Nicolas et al.   SCIENCE

Three Essential Ribonucleases—RNase Y, J1, and III—Control the Abundance of a Majority of Bacillus subtilis mRNAs

(2012) Sylvain Durand et al.   PLoS Genetics

Transcriptome Complexity and Riboregulation in the Human Pathogen Helicobacter pylori

(2012) Sandy R. Pernitzsch et al.   Frontiers in Cellular and Infection Microbiology

RNase E action at a distance: degradation of target mRNAs mediated by an Hfq-binding small RNA in bacteria

(2011) T. Morita et al.   GENES & DEVELOPMENT

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Sequencing, annotation, and comparative genome analysis of the gerbil-adapted Helicobacter pylori strain B8

(2010) Max Farnbacher et al.   BMC GENOMICS

Euryarchaeal β-CASP Proteins with Homology to Bacterial RNase J Have 5′- to 3′-Exoribonuclease Activity

(2010) Béatrice Clouet-d'Orval et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The primary transcriptome of the major human pathogen Helicobacter pylori

(2010) Cynthia M. Sharma et al.   NATURE

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

Genome sequence analysis of Helicobacter pylori strains associated with gastric ulceration and gastric cancer

(2009) Mark S McClain et al.   BMC GENOMICS

Growth Rate-Dependent Global Effects on Gene Expression in Bacteria

(2009) Stefan Klumpp et al.   CELL

RNase Y, a novel endoribonuclease, initiates riboswitch turnover in Bacillus subtilis

(2009) Karen Shahbabian et al.   EMBO JOURNAL

Co-translational mRNA decay in Saccharomyces cerevisiae

(2009) Wenqian Hu et al.   NATURE

RNase J1 endonuclease activity as a probe of RNA secondary structure

(2009) R. Daou-Chabo et al.   RNA

Development of Inducible Systems To Engineer Conditional Mutants of Essential Genes of Helicobacter pylori

(2008) I. G. Boneca et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

mRNA processing by RNases J1 and J2 affects Bacillus subtilis gene expression on a global scale

(2008) Ulrike Mäder et al.   MOLECULAR MICROBIOLOGY

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

(2008) Atilio Deana et al.   NATURE

Transgenic expression of Helicobacter pylori CagA induces gastrointestinal and hematopoietic neoplasms in mouse

(2008) N. Ohnishi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA