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Bacterial Regulatory RNA

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Cover of 'Bacterial Regulatory RNA'

Table of Contents

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    Book Overview
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    Chapter 1 Workflow for a Computational Analysis of an sRNA Candidate in Bacteria
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    Chapter 2 Guidelines for Inferring and Characterizing a Family of Bacterial trans-Acting Small Noncoding RNAs
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    Chapter 3 Bioinformatic Approach for Prediction of CsrA/RsmA-Regulating Small RNAs in Bacteria
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    Chapter 4 Host-Pathogen Transcriptomics by Dual RNA-Seq
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    Chapter 5 Identification of New Bacterial Small RNA Targets Using MS2 Affinity Purification Coupled to RNA Sequencing
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    Chapter 6 Assessment of External Guide Sequences’ (EGS) Efficiency as Inducers of RNase P-Mediated Cleavage of mRNA Target Molecules
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    Chapter 7 Evaluating the Effect of Small RNAs and Associated Chaperones on Rho-Dependent Termination of Transcription In Vitro
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    Chapter 8 Mapping Changes in Cell Surface Protein Expression Through Selective Labeling of Live Cells
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    Chapter 9 Fluorescence-Based Methods for Characterizing RNA Interactions In Vivo
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    Chapter 10 Mutational Analysis of sRNA–mRNA Base Pairing by Electrophoretic Mobility Shift Assay
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    Chapter 11 An Integrated Cell-Free Assay to Study Translation Regulation by Small Bacterial Noncoding RNAs
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    Chapter 12 Quantitative Super-Resolution Imaging of Small RNAs in Bacterial Cells
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    Chapter 13 Extraction and Analysis of RNA Isolated from Pure Bacteria-Derived Outer Membrane Vesicles
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    Chapter 14 Absolute Regulatory Small Noncoding RNA Concentration and Decay Rates Measurements in Escherichia coli
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    Chapter 15 High-Resolution, High-Throughput Analysis of Hfq-Binding Sites Using UV Crosslinking and Analysis of cDNA (CRAC)
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    Chapter 16 Producing Hfq/Sm Proteins and sRNAs for Structural and Biophysical Studies of Ribonucleoprotein Assembly
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    Chapter 17 Single-Molecule FRET Assay to Observe the Activity of Proteins Involved in RNA/RNA Annealing
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    Chapter 18 Techniques to Analyze sRNA Protein Cofactor Self-Assembly In Vitro
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    Chapter 19 Sequence-Specific Affinity Chromatography of Bacterial Small Regulatory RNA-Binding Proteins from Bacterial Cells
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    Chapter 20 Identification of Small RNA–Protein Partners in Plant Symbiotic Bacteria
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    Chapter 21 A Modular Genetic System for High-Throughput Profiling and Engineering of Multi-Target Small RNAs
Attention for Chapter 9: Fluorescence-Based Methods for Characterizing RNA Interactions In Vivo
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Chapter title
Fluorescence-Based Methods for Characterizing RNA Interactions In Vivo
Chapter number 9
Book title
Bacterial Regulatory RNA
Published in
Methods in molecular biology, January 2018
DOI 10.1007/978-1-4939-7634-8_9
Pubmed ID
Book ISBNs
978-1-4939-7633-1, 978-1-4939-7634-8
Authors

Abigail N. Leistra, Mia K. Mihailovic, Lydia M. Contreras, Leistra, Abigail N., Mihailovic, Mia K., Contreras, Lydia M.

Abstract

Fluorescence-based tools that measure RNA-RNA and RNA-protein interactions in vivo offer useful experimental approaches to probe the complex and dynamic physiological behavior of bacterial RNAs. Here we document the step-by-step design and application of two fluorescence-based methods for studying the regulatory interactions RNAs perform in vivo: (i) the in vivo RNA Structural Sensing System (iRS3) for measuring RNA accessibility and (ii) the trifluorescence complementation (TriFC) assay for measuring RNA-protein interactions.

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Mendeley readers

The data shown below were compiled from readership statistics for 12 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 12 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 4 33%
Researcher 2 17%
Librarian 1 8%
Student > Doctoral Student 1 8%
Unknown 4 33%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 4 33%
Chemical Engineering 2 17%
Agricultural and Biological Sciences 1 8%
Computer Science 1 8%
Physics and Astronomy 1 8%
Other 0 0%
Unknown 3 25%