Full Description
Revealing the many roles of RNA in regulating gene expressionFor decades after the discoveries of messenger RNA, transfer RNA, and ribosomal RNA, it was largely assumed that the role of RNA in the cell was limited to shuttling the genomic message, chaperoning amino acids, and toiling in the ribosomes.Eventually, hints that RNA molecules might have regulatory roles began to appear. With the advent of genomics and bioinformatics, it became evident that numerous other RNA forms exist and have specific functions, including small RNAs (sRNA), RNA thermometers, and riboswitches to regulate core metabolic pathways, bacterial pathogenesis, iron homeostasis, quorum sensing, and biofilm formation.All of these functions, and more, are presented in Regulating with RNA in Bacteria and Archaea, written by RNA biologists from around the globe. Divided into eight sections-RNases and Helicases, Cis-Acting RNAs, Cis Encoded Base Pairing RNAs, Trans-Encoded Base Pairing RNAs, Protein Titration and Scaffolding, General Considerations, Emerging Topics, and Resources-this book serves as an excellent resource for established RNA biologists and for the many scientists who are studying regulated cellular systems.It is no longer a fair assumption that gene expression regulation is the provenance of proteins only or that control is exerted primarily at the level of transcription. This book makes clear that regulatory RNAs are key partners along with proteins in controlling the complex interactions and pathways found within prokaryotes.
Contents
ContributorsForewordPrefaceAcknowledgmentsAbout the EditorsSection I: RNases and Helicases1. RNase E and the High-Fidelity Orchestration of RNA MetabolismKatarzyna J. Bandyra and Ben F. Luisi2. Enzymes Involved in Posttranscriptional RNA Metabolism in Gram-Negative BacteriaBijoy K. Mohanty and Sidney R. Kushner3. RNases and Helicases in Gram-Positive BacteriaSylvain Durand and Ciaran CondonSection II: Cis-acting RNAs4. RNA Thermometers in Bacterial PathogensEdmund Loh, Francesco Righetti, Hannes Eichner, Christian Twittenhoff, Franz Narberhaus5. Small Molecule-Binding RiboswitchesThea S. Lotz and Beatrix Suess6. The T-Box Riboswitch: tRNA as an Effector to Modulate Gene RegulationKiel D. Kreuzer and Tina M. Henkin7. rRNA Mimicry in RNA Regulation of Gene ExpressionMichelle M. Meyer8. Processive AntiterminationJonathan R. Goodson and Wade C. Winkler9. Genes within genes in bacterial genomesSezen Meydan, Nora Vazquez-Laslop, and Alexander S. Mankin10. Leaderless mRNAs in the Spotlight: Ancient but Not Outdated!Heather J. Beck and Isabella MollSection III: Cis-encoded base pairing RNAs11. Type I Toxin-Antitoxin Systems: Regulating Toxin Expression via Shine-Dalgarno Sequence Sequestration and Small RNA BindingSara Masachis and Fabien Darfeuille12. Widespread Antisense Transcription in ProkaryotesJens Georg and Wolfgang R. HessSection IV: Trans-encoded base pairing RNAs 13. Small Regulatory RNAs in the Enterobacterial Response to Envelope Damage and Oxidative StressKathrin S. Froehlich and Susan Gottesman14. Carbohydrate Utilization in Bacteria: Making the Most Out of Sugars with the Help of Small Regulatory RNAsSvetlana Durica-Mitic, Yvonne Goepel, Boris Goerke15. Small RNAs Involved in Regulation of Nitrogen MetabolismDaniela Prasse and Ruth A. Schmitz16. Bacterial Iron Homeostasis Regulation by sRNAsSylvia Chareyre and Pierre Mandin17. Small-RNA-Based Regulation of Bacterial Quorum Sensing and Biofilm FormationSine Lo Svenningsen18. Regulatory RNAs in Virulence and Host-Microbe InteractionsAlexander J. WestermannSection V: Protein titration and scaffolding19. Global Regulation by CsrA and Its sRNA AntagonistsTony Romeo and Paul Babitzke20. 6S RNA, a Global Regulator of TranscriptionKaren M. Wassarman21. Bacterial Y RNAs: Gates, Tethers, and tRNA MimicsSoyeong Sim and Sandra L. WolinSection VI: General considerations22. Proteins That Chaperone RNA RegulationSarah A. Woodson, Subrata Panja, and Andrew Santiago-Frangos23. Epitranscriptomics: RNA Modifications in Bacteria and ArchaeaKatharina Hoefer and Andres Jaschke24. RNA Localization in BacteriaJingyi Fei and Cynthia M. Sharma25. Sponges and Predators in the Small RNA WorldNara Figueroa-Bossi and Lionello Bossi26. Bacterial Small RNAs in Mixed Regulatory NetworksAnais Brosse and Maude Guillier27. Dual-Function RNAsMedha Raina, Alisa King, Colleen Bianco, and Carin K. Vanderpool28. Origin, Evolution, and Loss of Bacterial Small RNAsH. Auguste Dutcher and Rahul RaghavanSection VII: Emerging topics29. Cross-regulation between bacteria and phages at a posttranscriptional LevelShoshy Altuvia, Gisela Storz, Kai Papenfort30. Large Noncoding RNAs in BacteriaKimberly A. Harris and Ronald R. Breaker31. Synthetic Biology of Small RNAs and RiboswitchesJordan K. Villa, Yichi Su, Lydia M. Contreras, Ming C. HammondSection VIII: Resources32. Functional Transcriptomics for Bacterial Gene DetectivesBlanca Perez-Sepulveda and Jay C.D. Hinton33. Structure and Interaction Prediction in Prokaryotic RNA BiologyPatrick R. Wright, Martin Mann, Rolf BackofenIndex
