Yang Y. Artificially Controllable Nanodevices Constructed by DNA Origami Technology: Photofunctionalization and Single-Molecule Analysis

Springer, Japan, 2015. — 76 p. — ISBN10: 4431557687.In this book, the author deals mainly with two topics: (1) single-molecule visualization of switching behaviors in the DNA nanoframe system utilizing different kinds of molecular switches through the use of high-speed atomic force microscope (AFM); (2) construction of photocontrollable DNA nanostructures in programmed patterns and direct visualization of the dynamic assembling process. Here, high-speed AFM was employed to observe the dynamic movements of single molecules. Compared to a traditional single-molecule analysis method, such as fluorescence spectroscopy or electron microscopy, high-speed AFM makes possible the real-time observation of molecule behaviors. DNA nanostructures were designed and assembled as scaffolds to incorporate interested biomolecules. The observations were carried out under robust conditions without complicated pretreatment. Moreover, the photoresponsive molecules were successfully assembled into around 100 nm-sized DNA nanostructures. The assembly/disassembly of nanostructures can be regulated reversibly by photoirradiation. This book explains how DNA origami has gradually become a useful tool for the investigation of biochemical interactions in defined nanospace. It also shows the possibility of DNA nanostructures acting as nanodevices for application in biological systems, serving as a good introduction to basic DNA nanotechnology.Topics
Nanochemistry
Nanotechnology
Biological Microscopy
Spectroscopy and MicroscopyIntroduction: Overview of DNA Origami as Biomaterials and Application
2D DNA Origami Nanostructures
Programmed Arrangements of Large Sized DNA Nanostructures
3D DNA Origami Nanostructures
Functionalization of 2D Origami Nanostructures
Applications to Single Molecule Analysis
Applications to DNA Molecular Machines
Applications to Biological System
Conclusion and Prospects
Direct Observation of Single Hybridization and Dissociation of Photoresponsive Oligonucleotides in the Designed DNA Nanostructure
Direct Imaging of the Single Photoresponsive Duplex by AFM
Photoirradiation of Oligonucleotides Containing Photoresponsive Domains
Photoirradiation of Photoresponsive Nanoframe in Solution
Direct Observation of Dissociation of Photoresponsive Domains in Nanoframe Under UV Irradiation
Direct Observation of Association of Photoresponsive
Domains in Nanoframe Under Visible Light Irradiation
Reversible Photoswitching of Photoresponsive Domains Repeatly in a Single DNA Nanoframe
Direct Observation of Logic-Gated Dual-Switching Behaviors Inducing the State Transition in a DNA Nanostructure
Design of DNA Nanoframe Containing Six Connecting Positions
Assembly of Dual-Switching DNA Nanoframe Containing Photoresponsive Oligonucleotides
and G-Tracts
Photoirradiation to the Dual-Switching DNA Nanoframe
Evaluation of the State Transition in Solution by Switching Photoirradiation and Potassium Ion
Direct Visualization of the State Transition from AS-1 to AS-2 Using High-Speed AFM
Direct Visualization of the Reverse State Transition
Multi-directional Assembly/Disassembly of Photocontrolled DNA Nanostructures in Programmed Patterns
Modification of Staple Strands Along Hexagonal Edges with Photoresponsive Oligonucleotides
Assembly of Single Hexagonal Unit
Agarose Gel Electrophoresis Analysis
Fluorescent Analysis of Disassemble/Assemble of Hexagonal Dimers
Preparation and Characterization of Hexagonal Dimer
Hexagonal Trimmers in Linear and Curved Arrangement Without Facing Orientation Control 4.3.3 Hexagonal Oligomers Without Facing Orientation Control
Hexagonal Oligomers in Linear and Curved Arrangements with Facing Orientation Control
Large Hexagonal Oligomers with Restricted Facing Orientation Control
Evaluation of Reversible Assemble and Disassembly of Hexagonal Dimers by Gel Electrophoresis
Dynamic Analysis of Assemble and Disassembly of Photocontrolled Hexagonal Dimers
Arrangement of Gold Nanoparticles onto a Slit-Type DNA Nanostructure in Various
Preparation of Lipoic Acid Attached Oligonucleotides
DNA Slit Preparation AuNPs Attachment onto the DNA Slit for Imaging
Design and Preparation of DNA Slit