Features cutting-edge methodologies focused on the study of this diverse field of study
Includes unique genetic, molecular, biochemical, and computational approaches
Contains expert tips and implementation advice
The recent expansion in diversity of RNA and DNA editing types has stimulated the development of many unique genetic, molecular, biochemical, and computational approaches to biological issues. In RNA and DNA Editing: Methods and Protocols, leading experts in the field introduce methods developed over the last few years to study editing substrates, mechanisms of specificity, and functions of RNA and DNA editing enzymes and complexes. Sections of the book are dedicated to state-of-the art techniques which enable investigation of uracil insertion/deletion RNA editing in mitochondrion of Trypanosoma brucei, adenosine to inosine RNA editing, cytidine to uracil RNA and DNA editing, as well as tRNA editing and RNA modifications. 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 key tips on troubleshooting and avoiding known pitfalls.
Authoritative and cutting-edge,
RNA and DNA Editing: Methods and Protocols seeks to inspire the further development of these vital and powerful techniques.
Part I: Uracil Insertion/Deletion RNA Editing in Mitochondrion of Trypanosoma brucei
1. Three-Dimensional Reconstruction of Trypanosoma brucei Editosomes Using Single-Particle Electron Microscopy
H. Ulrich Göringer, Holger Stark, Cordula Böhm, Bjoern Sander, and Monika M. Golas
2. iCODA: RNAi-Based Inducible Knock-In System in Trypanosoma brucei
Gene-Errol Ringpis, Richard H. Lathrop, and Ruslan Aphasizhev
Part II: Adenosine to Inosine RNA Editing
3. Perturbing A-to-I RNA Editing Using Genetics and Homologous Recombination
Cynthia J. Staber, Selena Gell, James E.C. Jepson, and Robert A. Reenan
4. Laser Microdissection and Pressure Catapulting of Single Human Motor Neurons for RNA Editing Analysis
Hui Sun, Mary A. O´Connell, Valerie Mann, Brendon Noble, and Liam P. Keegan
5. Biochemical Identification of A-to-I RNA Editing sites by the Inosine Chemical Erasing (ICE) Method
Masayuki Sakurai and Tsutomu Suzuki
Part III: Cytidine to Uracil RNA and DNA Editing
6. Identifying mRNA Editing Deaminase Targets by RNA-Seq
Brad R. Rosenberg, Scott Dewell, and F. Nina Papavasiliou
7. Mouse and Other Rodent Models of C to U RNA Editing
Valerie Blanc and Nicholas O. Davidson
8. In vivo Analysis of RNA Editing in Plastids
Stephanie Ruf and Ralph Bock
9. Identifying Specific Trans-Factors of RNA Editing in Plant Mitochondria by Multiplex Single Base Extension Typing
Mizuki Takenaka
10. Complementation of Mutants in Plant Mitochondrial RNA Editing by Protoplast Transfection
Mizuki Takenaka and Anja Zehrmann
11. A High Throughput Assay for DNA Deaminases
Meng Wang, Cristina Rada, and Michael S. Neuberger
12. Biochemical Fractionation and Purification of High-Molecular-Mass APOBEC3G Complexes
Ya-Lin Chiu
Part IV: tRNA Editing and RNA Modifications
13. Analysis of tRNA Editing in Native and Synthetic Substrates
Jessica L. Spears, Kirk W. Gaston, and Juan D. Alfonzo
14. Post-Tranillegalscriptional Modification of RNAs by Artificial Box H/ACA and Box C/D RNPs
Chao Huang, John Karijolich, and Yi-Tao Yu
15. Functional Analysis of Non-Coding RNAs in Trypanosomes: RNA Walk, A Novel Approach to Study RNA-RNA Interactions Between Small RNA and Its Target
Chaim Wachtel and Shulamit Michaeli
16. A Post-Labeling Approach for the Characterization and Quantification of RNA Modifications Based on Site-Directed Cleavage by DNAzymes
Madeleine Meusburger, Martin Hengesbach, and Mark Helm
From the reviews:
"This book on RNA and DNA Editing, Methods and Protocols provides methods to study editing substrates, mechanisms of specificity and functions of RNA and DNA editing enzymes and complexes ... . The apparent audience is molecular biologists interested in RNA and DNA editing.” (Omer Iqbal, Doody´s Book Reviews, March, 2012)
"It is quite timely that a Methods book dedicated at experimental approaches to investigate RNA editing mechanisms should find its rightful place in the series. To achieve this aim, the editor ... has successfully united many leading experts in this field to write several Chapters dedicated at explaining state-of-the-art techniques ... . this is an invaluable store of information that can potentially save weeks or months spent simply in learning what-to-do and what-not-to-do when setting up a particular procedure in their own lab.” (Emanuele Buratti, Molecular Biotechnology, September, 2011)
Covering many state-of-the-art techniques, this book features leading experts in the field who introduce methods developed in recent years to study editing substrates, mechanisms of specificity, and the functions of RNA- and DNA-editing enzymes and complexes.
The recent expansion in diversity of RNA and DNA editing types has stimulated the development of many unique genetic, molecular, biochemical, and computational approaches to biological issues. In RNA and DNA Editing: Methods and Protocols, leading experts in the field introduce methods developed over the last few years to study editing substrates, mechanisms of specificity, and functions of RNA and DNA editing enzymes and complexes. Sections of the book are dedicated to state-of-the art techniques which enable investigation of uracil insertion/deletion RNA editing in mitochondrion of Trypanosoma brucei, adenosine to inosine RNA editing, cytidine to uracil RNA and DNA editing, as well as tRNA editing and RNA modifications. Written in the highly successful Methods in Molecular Biology(TM) series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls.
Authoritative and cutting-edge,
RNA and DNA Editing: Methods and Protocols seeks to inspire the further development of these vital and powerful techniques.
Three-Dimensional Reconstruction of Trypanosoma brucei Editosomes Using Single-Particle Electron Microscopy.- iCODA: RNAi-Based Inducible Knock-In System in Trypanosoma brucei.- Perturbing A-to-I RNA Editing Using Genetics and Homologous Recombination.- Laser Microdissection and Pressure Catapulting of Single Human Motor Neurons for RNA Editing Analysis.- Biochemical Identification of A-to-I RNA Editing sites by the Inosine Chemical Erasing (ICE) Method.- Identifying mRNA Editing Deaminase Targets by RNA-Seq.- Mouse and Other Rodent Models of C to U RNA Editing.- In vivo Analysis of RNA Editing in Plastids.- Identifying Specific Trans-Factors of RNA Editing in Plant Mitochondria by Multiplex Single Base Extension Typing.- Complementation of Mutants in Plant Mitochondrial RNA Editing by Protoplast Transfection.- A High Throughput Assay for DNA Deaminases.- Biochemical Fractionation and Purification of High-Molecular-Mass APOBEC3G Complexes.- Analysis of tRNA Editing in Native and Synthetic Substrates.- Post-Tranillegalscriptional Modification of RNAs by Artificial Box H/ACA and Box C/D RNPs.- Functional Analysis of Non-Coding RNAs in Trypanosomes: RNA Walk, A Novel Approach to Study RNA-RNA Interactions Between Small RNA and Its Target.- A Post-Labeling Approach for the Characterization and Quantification of RNA Modifications Based on Site-Directed Cleavage by DNAzymes.
From the reviews:
"This book on RNA and DNA Editing, Methods and Protocols provides methods to study editing substrates, mechanisms of specificity and functions of RNA and DNA editing enzymes and complexes ... . The apparent audience is molecular biologists interested in RNA and DNA editing." (Omer Iqbal, Doody's Book Reviews, March, 2012)
"It is quite timely that a Methods book dedicated at experimental approaches to investigate RNA editing mechanisms should find its rightful place in the series. To achieve this aim, the editor ... has successfully united many leading experts in this field to write several Chapters dedicated at explaining state-of-the-art techniques ... . this is an invaluable store of information that can potentially save weeks or months spent simply in learning what-to-do and what-not-to-do when setting up a particular procedure in their own lab." (Emanuele Buratti, Molecular Biotechnology, September, 2011)
Inhaltsverzeichnis
Three-Dimensional Reconstruction of Trypanosoma brucei Editosomes Using Single-Particle Electron Microscopy.- iCODA: RNAi-Based Inducible Knock-In System in Trypanosoma brucei.- Perturbing A-to-I RNA Editing Using Genetics and Homologous Recombination.- Laser Microdissection and Pressure Catapulting of Single Human Motor Neurons for RNA Editing Analysis.- Biochemical Identification of A-to-I RNA Editing sites by the Inosine Chemical Erasing (ICE) Method.- Identifying mRNA Editing Deaminase Targets by RNA-Seq.- Mouse and Other Rodent Models of C to U RNA Editing.- In vivo Analysis of RNA Editing in Plastids.- Identifying Specific Trans-Factors of RNA Editing in Plant Mitochondria by Multiplex Single Base Extension Typing.- Complementation of Mutants in Plant Mitochondrial RNA Editing by Protoplast Transfection.- A High Throughput Assay for DNA Deaminases.- Biochemical Fractionation and Purification of High-Molecular-Mass APOBEC3G Complexes.- Analysis of tRNA Editing in Native and Synthetic Substrates.- Post-Tranillegalscriptional Modification of RNAs by Artificial Box H/ACA and Box C/D RNPs.- Functional Analysis of Non-Coding RNAs in Trypanosomes: RNA Walk, A Novel Approach to Study RNA-RNA Interactions Between Small RNA and Its Target.- A Post-Labeling Approach for the Characterization and Quantification of RNA Modifications Based on Site-Directed Cleavage by DNAzymes.
Klappentext
The recent expansion in diversity of RNA and DNA editing types has stimulated the development of many unique genetic, molecular, biochemical, and computational approaches to biological issues. In RNA and DNA Editing: Methods and Protocols, leading experts in the field introduce methods developed over the last few years to study editing substrates, mechanisms of specificity, and functions of RNA and DNA editing enzymes and complexes. Sections of the book are dedicated to state-of-the art techniques which enable investigation of uracil insertion/deletion RNA editing in mitochondrion of Trypanosoma brucei, adenosine to inosine RNA editing, cytidine to uracil RNA and DNA editing, as well as tRNA editing and RNA modifications. 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 key tips on troubleshooting and avoiding known pitfalls.n Authoritative and cutting-edge, RNA and DNA Editing: Methods and Protocols seeks to inspire the further development of these vital and powerful techniques.
Features cutting-edge methodologies focused on the study of this diverse field of study
Includes unique genetic, molecular, biochemical, and computational approaches
Contains expert tips and implementation advice
Includes supplementary material: sn.pub/extras
