Table of Contents

Title Page; Copyright Page; Editorial Regulatory RNAs in Prokaryotes; References; Table of Contents; Chapter 1 Small RNAs with a Role in the Oxidative Stress Response of Bacteria; 1 Introduction; 2 OxyS and the Oxidative Stress Response in Enterobacteria; 3 The Link Between Iron Levels and Oxidative Stress, and the Role of RyhB; 3.1 How Iron Can Cause Oxidative Stress; 3.2 Mechanisms of RyhB Regulation; 3.3 RyhB Homologues in Other Bacteria; 4 Photooxidative Stress-Induced sRNAs in Photosynthetic Alpha-Proteobacteria; 5 Other sRNAs Involved in Oxidative Stress Responses; 6 Concluding Remarks ReferencesChapter 2 Hfq-associated Regulatory Small RNAs; 1 Introduction; 1.1 Trans-acting sRNAs and the Role for Hfq; 2 Regulatory Mechanisms Employed by Hfq-associated sRNAs; 2.1 Translational Control Near the SD Sequence and AUG Start Codon; 2.2 Primary Role for sRNAs in Translational Silencing; 2.3 Non-canonical Repression of Translation Initiation; 2.4 Control of Protein Synthesis Through Regulation of mRNA Decay; 2.5 Multiple Target Control by sRNAs; 2.6 Small RNAs with Multiple Conserved Targeting Regions; 2.7 Unusually Complex Mechanisms 2.8 5' Regions as a Conserved Mechanism for Targeting Multiple mRNAs2.9 Maturation of Small RNAs; 2.10 Potential Evolution of New sRNAs from 3' UTRs; 3 Perspective; 3.1 Overlap of sRNAs and Targets in Regulons; 3.2 Titration of Hfq: Regulation or Side-effect?; 3.3 Titration of Hfq: Implications for Horizontal Gene Transfer; 3.4 Design of Synthetic sRNAs; 4 Outlook; References; Chapter 3 A Current Overview of Regulatory RNAs in Staphylococcus Aureus; 1 Introduction; 2 Cis-acting Regulatory Elements in mRNAs; 2.1 RNA Thermosensors; 2.2 Riboswitches 2.3 Erythromycin-induced Translation Attenuation2.4 tRNA-mediated Riboswitches; 2.5 Protein-mediated Transcription Termination/Anti-termination; 3 Small Non-coding RNAs Targeting mRNAs; 3.1 Generalities; 3.2 Pathogenicity Island-encoded sRNAs; 3.3 sRNA Stress Response and Metabolism; 3.4 sRNA and Small Colony Variant; 3.5 S. aureus Transcriptome; 4 RNAIII, a mRNA and a Regulatory RNA; 4.1 Quorum Sensing and Virulence in S. aureus; 4.2 RNAIII Encodes a Small Toxin; 4.3 RNAIII as the Regulator; 4.4 RNAIII and its Regulatory Network; 5 CRISPR in Defense Mechanism; 6 Perspectives; Acknowledgments ReferencesChapter 4 Pseudomonas Aeruginosa Small Regulatory RNAs; 1 Introduction; 2 Bacterial Regulatory RNAs and their Mode of Action; 3 P. aeruginosa Housekeeping RNAs; 4 Protein Sequestering RNAs; 4.1 RsmY/Z; 4.2 CrcZ; 5 Verified and Candidate P. Aeruginosa Base-pairing sRNAs; 5.1 Prrf 1/2; 5.2 RgsA; 5.3 PhrS and PhrD; 6 CRISPR; 7 Uncharacterized P. Aeruginosa sRNAs; 8 Conclusion; References; Chapter 5 Natural Antisense Transcripts in Bacteria; 1 Defining Features of an Antisense Transcript; 2 Antisense RNAs were Discovered in Bacteria 2.1 Known Facts About Antisense RNAs from Bacteriophages, Plasmids and Transposons This book provides a comprehensive and up-to-date collection of review articles focusing on RNA-mediated regulation in prokaryotes. The various modes of action include the direct interaction with proteins, direct sensing of metabolites or of physical parameters, and the interaction with RNAs to stimulate or prevent binding of ribosomes or to stimulate degradation. Written by leading experts in the field, the book covers small RNA functions, RNA thermometers, riboswitches, the diversity of small RNA-guided CRISPR-Cas defense systems and selected RNA chaperons in both prokaryotic domains, bacteria and archaea. Recent advances towards the computational identification of regulatory RNAs and their targets are included and particular attention is paid to small RNA in pathogenic bacteria. This volume is the only one exclusively covering regulatory RNAs in the prokaryotic domains to date, making it essential literature for anyone interested in RNA function and gene regulation and a valuable resource for teaching these concepts.