Arluison Véronique, Wien Frank (eds.) RNA Spectroscopy: Methods and Protocols

Humana Press, 2020. — 357 p. — (Methods in Molecular Biology 2113). — ISBN: 978-1-07-160277-5This volume looks at the different spectroscopic and biophysical methods used by researchers to study the structure and folding of RNA, and to follow their interactions with proteins. The chapters in this book cover topics such as single-molecule spectroscopy of multiple RNA species; surface plasmon resonance, MS or microcalorimetry for investigating molecular interactions with RNA; FTIR, SAXS, SANS and SRCD spectroscopies to analyze RNA structure; use of fluorescent nucleotides to map RNA-binding sites on proteins surfaces or CryoEM; and much more. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.Cutting-edge and comprehensive, RNA Spectroscopy: Methods and Protocols is a valuable resource for anyone interested in learning more about this developing field.Encapsulation of Fluorescently Labeled RNAs into Surface-Tethered Vesicles for Single-Molecule FRET Studies in TIRF Microscopy
Preparation of SNAPf-Beads for Colocalization Single-Molecule Spectroscopy (CoSMoS) of RNA-Protein Complexes
Comparative Colocalization Single-Molecule Spectroscopy (CoSMoS) with Multiple RNA Species
Dynamic Light Scattering Analysis on RNA Associated to Proteins
Bioinformatic Application of Fluorescence-Based In Vivo RNA Regional Accessibility Data to Identify Novel sRNA Targets
Surface Plasmon Resonance for Investigating Molecular Interactions with RNA
RNA Folding and Unfolding Under Force: Single-Molecule Experiments and Their Analysis
Mapping of Posttranscriptional tRNA Modifications by Two-Dimensional Gel Electrophoresis Mass Spectrometry
Native Electrospray Ionization Mass Spectrometry of RNA-Ligand Complexes
Application of FTIR Spectroscopy to Analyze RNA Structure
Application of Synchrotron Radiation Circular Dichroism for RNA Structural Analysis
Application of NIR Raman Spectroscopy to Probe the Flexibility of RNA Structure
Small-Angle Neutron Scattering of RNA–Protein Complexes
Structural Analysis of RNA by Small-Angle X-ray Scattering
Site-Specific Spin Labeling of RNA for NMR and EPR Structural Studies
Analysis of the HIV-1 Genomic RNA Dimerization Initiation Site Binding to Aminoglycoside Antibiotics Using Isothermal Titration Calorimetry
Use of Fluorescent Nucleotides to Map RNA-Binding Sites on Protein Surface
Fluorescent Oligonucleotide Probes for the Quantification of RNA by Real-Time qPCR
Probing RNA–Protein Interactions and RNA Compaction by Sedimentation Velocity Analytical Ultracentrifugation
RNA Nanostructure Molecular Imaging
Grad-cryo-EM: Tool to Isolate Translation Initiation Complexes from Rabbit Reticulocyte Lysate Suitable for Structural Studies
Application of NMR Spectroscopy to Determine Small RNA Structure