Ribozymes

TRAMA

This volume provides protocols designed to study the function and the structure of diverse ribozymes. Chapters guide readers through different techniques to identify and characterize new ribozymes and methods to use ribozymes to alter the function of CRISPR-based guide RNAs, AgoshRNAs and aptamers or to study RNA capping and long non-coding RNAs. 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.  Authoritative and cutting-edge, Ribozymes: Methods and Protocols aims to help in accelerating ribozyme research and inspiring others to develop new methods to study ribozyme structure and function.

SOMMARIO

Part I: Ribozyme Function 1. Conjugation as a Highly Sensitive Assay to Study Group II Intron Splicing in vivo Félix LaRoche-Johnston, Caroline Monat, and Benoit Cousineau   2. Co-transcriptional Analysis of Self-cleaving Ribozymes and their Ligand Dependence Luiz F. M. Passalacqua and Andrej Lupták   Part II: Ribozyme Indentification and Characterization 3. Cloning and Detection of Genomic Retrozymes and their circRNA Intermediates Amelia Cervera and Marcos de la Peña   4. Demonstration of a Ribozyme in Epsilon Domain of Hepatitis B Virus RNA Dibyajnan Chakraborty and Sagarmoy Ghosh   5. In vitro Selection of Varkud Satellite Ribozyme Variants that Cleave a Modified Stem-loop Substrate Pierre Dagenais and Pascale Legault   6. Characterization and Optimization of a Deoxyribozyme with a Short Left Binding Arm Yueyao Wang and Hanyang Yu   7. Computer-aided Design of Active Pseudoknotted Hammerhead Ribozymes Sabrine Najeh, Kasra Zandi, Samia Djerroud, Nawwaf Kharma, and Jonathan Perreault   8. Inverse RNA Folding Workflow to Design and Test Ribozymes Including Pseudoknots Mohammad Kayedkhordeh, Ryota Yamagami, Philip C. Bevilacqua, and David H. Mathews   Part III : Ribozyme Structure 9. Using an L7Ae-tethered, Hydroxyl Radical-Mediated Footprinting Strategy to Identify and Validate Kink-Turns in RNAs Stella M. Lai and Venkat Gopalan   10. SHAPE Profiling to Probe Group II Intron Conformational Dynamics during Splicing Timothy Wiryaman and Navtej Toor   11. Dynamics-Function Analysis in Catalytic RNA Using NMR Spin Relaxation and Conformationally Restricted Nucleotides Charles G. Hoogstraten, Montserrat Terrazas, Anna Aviñó, Neil A. White, and Minako Sumita   Part IV : Ribozyme Conjugations 12. Design and Evaluation of Guide RNA Transcripts with a 3’-terminal HDV Ribozyme to Enhance CRISPR-based Gene Inactivation Ben Berkhout, Zongliang Gao and Elena Herrera-Carrillo   13. Design and Evaluation of AgoshRNAs with 3’-terminal HDV Ribozymes to Enhance the Silencing Activity Ben Berkhout and Elena Herrera-Carrillo   14. Cloning and Detection of Aptamer-ribozyme Conjugations Ryan P. Goguen, Anne Gatignol, and Robert J. Scarborough   Part V: Ribozyme as Tools to Study other RNAs 15. Use of a Lariat Capping Ribozyme to Study Cap Function in Vivo Max Pietschmann, Gregor Tempel, Maral Halladjian, Nicolai Krogh, and Henrik Nielsen   16. Long Non-coding RNA Depletion using Self-cleaving Ribozymes Alex C Tuck and Marc Bühler

ALTRE INFORMAZIONI

• Condizione: Nuovo
• ISBN: 9781071607183
• Collana: Methods in Molecular Biology
• Dimensioni: 254 x 178 mm Ø 610 gr
• Formato: Brossura
• Illustration Notes: XI, 304 p. 72 illus., 43 illus. in color.
• Pagine Arabe: 304
• Pagine Romane: xi