RNA Nanotechnology and Therapeutics
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RNA Nanotechnology and Therapeutics
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Book Description
Interest in RNA nanotechnology has increased in recent years as recognition of its potential for applications in nanomedicine has grown. Edited by the world's foremost experts in nanomedicine, this comprehensive, state-of-the-art reference details the latest research developments and challenges in the biophysical and single molecule approaches in RNA nanotechnology. In addition, the text also provides in-depth discussions of RNA structure for nanoparticle construction, RNA computation and modeling, single molecule imaging of RNA, RNA nanoparticle assembly, RNA nanoparticles in therapeutics, RNA chemistry for nanoparticle synthesis, and conjugation and labeling.
Table of Contents
Section I Introduction: Principles and Fundamentals of RNA Nanotechnology
The Emerging Field of RNA Nanotechnology
Peixuan Guo
Uniqueness, Advantages, Challenges, Solutions, and Perspectives in Therapeutics Applying RNA Nanotechnology
Peixuan Guo, Farzin Haque, Brent Hallahan, Randall Reif, Hui Li, and Shaoying Wang
Section II RNA Folding, Structure, and Motifs in RNA Nanoparticle Assembly
Kink Turn Structural Motif in RNA
Peter Daldrop, Lin Huang, Kersten T. Schroeder, Jia Wang, and David M. J. Lilley
RNA Nanotechnology: Learning from Biologically Active RNA Nanomachines
Neocles B. Leontis and Emil F. Khisamutdinov
Natural Selection and Structural Polymorphism of RNA 3D Structures Involving GNRA Loops and Their Receptor Motifs
Takahiro Tanaka, Hiroyuki Furuta, and Yoshiya Ikawa
RNA Junction Motifs as Scaffolds for Construction of Multifunctional RNA Nanoparticles
Farzin Haque and Peixuan Guo
Section III RNA Computation and Structure Prediction for RNA Nanoparticle Construction
Role of Dynamics in RNA Nanostructure Design
Wojciech Kasprzak and Bruce A. Shapiro
RNA Three-Dimensional Structure Determination Using Experimental Constraints
Feng Ding and Nikolay V. Dokholyan
Section IV RNA Chemistry for Nanoparticle Synthesis, Conjugation, and Labeling
Nucleotide Chemistry for RNA Nanoparticle Labeling, Conjugation, and Synthesis
Brian M. Laing and Donald E. Bergstrom
RNA Conjugations and Ligations for RNA Nanotechnology
Eduardo Paredes and Subha R. Das
Atom-Specific Mutagenesis of RNAs for Structure, Function, and Therapeutics Studies
Huiyan Sun and Zhen Huang
Section V Single-Molecule and Biophysical Techniques in RNA Nanostructure Analysis
Atomic Force Microscopy of RNA: Imaging and Beyond
Peter M. Schön, Luda S. Shlyakhtenko, and Yuri L. Lyubchenko
Single-Molecule Approach to Study RNA Nanoparticles
Hui Zhang, Chris Richards, Zhengyi Zhao, and Peixuan Guo
Section VI Methods for the Assembly of RNA Nanoparticles
Fabrication Methods for RNA Nanoparticle Assembly Based on Bacteriophage phi29 Packaging RNA Structural Features
Yi Shu, Bahar Seremi, and Peixuan Guo
Synthetic RNA–Protein Nanostructures and Their Potential Applications
Hirohisa Ohno, Eriko Osada, Tan Inoue, and Hirohide Saito
DNA Nanotechnology as Reference for RNA Nanotechnology
Zhen-Gang Wang and Baoquan Ding
Section VII RNA Nanoparticles for Therapy of Cancer, Viral Infections, and Genetic Diseases
Thermodynamically Stable RNA Three-Way Junction for Constructing Multifunctional Nanoparticles for Delivery of Therapeutics
Dan Shu, Yi Shu, Farzin Haque, Sherine Abdelmawla, and Peixuan Guo
Design and Construction of RNA Nanoparticles Targeting Prostate Cancer
Randall Reif and Peixuan Guo
Conjugation of RNA Aptamer to RNA Nanoparticles for Targeted Drug Delivery
Katherine Germer, Fengmei Pi, Peixuan Guo, and Xiaoting Zhang
Extracellular Membrane Vesicles and Extracellular Membrane Vesicle–Based Therapeutics for Brain Diseases
Jayden A. Smith, Clara Alfaro-Cervello, Chiara Cossetti, Nunzio Iraci, Matilde Stefanini, and Stefano Pluchino
Pharmacokinetics and Pharmacodynamics of RNA Nanoparticles
Markos Leggas
Section VIII RNA Nanotechnology for Diagnostic Applications
RNA Nanotechnology in Sensing, Detection, and Disease Diagnosis
Ping Lei and Guanxin Shen
Potentials of RNA Aptamers for Viral Detection and Treatment
Longxin Chen, Runting Li, and Runlin Z. Ma
Section IX Application of RNA Aptamers in RNA Nanotechnology and Therapeutics
Application of RNA Aptamers in Nanotechnology and Therapeutics
Hua Shi
Aptamers Targeting a Subunit or a Conformation of Glutamate Ion Channel Receptors
Zhen Huang, William Jaremko, Chi-yen Lin, and Li Niu
Section X Application of miRNAs in RNA Nanotechnology and Therapeutics
Application of MicroRNAs in RNA Nanotechnology and Antiviral Therapeutics
Ye Qiu, Xin Ye, Maged Hemida, Mary Zhang, Paul Hanson, and Decheng Yang
MicroRNAs: Biology and Role in RNA Nanotechnology
Bin Guo and Daniel W. Binzel
Section XI Application of siRNAs in RNA Nanotechnology and Therapeutics
Current Advances in Self-Assembly RNAi Nanoparticles
Ka-To Shum, Jiehua Zhou, and John J. Rossi
Self-Assembly of siRNA Containing Nanoparticles
Mengyao Zheng, Thomas Kissel, and Olivia M. Merkel
Index
Editor(s)
Biography
Peixuan Guo is the Director of the NIH Nanomedicine Development Center at the University of Cincinnati, Ohio and the Director of the NIH/NCI Cancer Nanotechnology Platform Partnership Program: RNA Nanotechnology for Cancer Therapy at Purdue University, Indiana.
Reviews
"The main strength of this book is in its focus on RNA as a functional agent. RNA can be derivatized using a variety of biochemical technologies to incorporate therapeutic or imaging functionalities. This book spans different aspects of techniques that are necessary to obtain functional RNA nanoparticles, including computational design, synthesis of components, assembly of functional units, and their biochemical and biophysical characterization. It also discusses promises and challenges in the applications of RNA nanoparticles as therapeutics. … This book is unique in that it covers a very broad spectrum of topics related to RNA nanotechnology, yet it maintains a focus on constructing and analyzing RNA nanoparticles. It introduces the reader to the basics of RNA structure, and discusses functions of various natural RNAs, from small molecules to large molecular machines such as the ribosome. It also introduces the concept of designing new RNAs, and provides a comprehensive coverage of modern techniques, linking theory and experiment. Technologies discussed include RNA structure prediction, prediction of interactions, simulations of RNA folding, computational design, chemical methods for RNA nanoparticle synthesis, assembly, and labeling, as well as methods for their biophysical and biochemical characterization and biomolecular imaging. … Chapters 1, 4, 7 are very exciting. Chapter 1 is a condensed introduction to the topic of RNA nanotechnology and to challenges and opportunities in using the RNA molecules as therapeutic agents. It is quite obvious that Dr. Guo is an enthusiast of RNA nanotechnology and in fact, this enthusiasm is quite contagious. Chapters 4 and 7 provide more focused description of two issues: 1) naturally existing RNAs as molecular machines, with a very informative discussion of differences between molecular machines and macro-machines, using ribosome as an example and 2) the role of dynamics (as opposed to 3D structure alone) in RNA design. Both these chapters demonstrate the extraordinary interdisciplinary character of the field of RNA nanotechnology, as well asof this very book. I definitely want to have this book on my shelf, and I intend to read all chapters as soon as I get it!"
––Prof. Janusz M. Bujnicki, International Institute of Molecular and Cell Biology in Warsaw, and Adam Mickiewicz University in Poznań, Poland"This book is very good in this field. I want to have this book on my shelf. … This book has a broad coverage from principles and fundamentals of RNA nanotechnology, RNA nanotechnology design and construction to diagnostic and therapeutic application. These detailing descriptions provide a clear and complete picture of up-to-date knowledge of RNA nanotechnology and applications."
––Prof. Shu-Feng Zhou, University of South Florida"The range of topics is excellent. … A nice collection of, basic and focused, articles on RNA."nanotechnology, a fast developing field."
—Eric Westhof, IBMC-CNRS, Université de Strasbourg, France