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Isothermal Hybridization Kinetics of DNA Assembly of Two‐Dimensional DNA Origami
Author(s) -
Song Jie,
Zhang Zhao,
Zhang Shuai,
Liu Lei,
Li Qiang,
Xie Erqing,
Gothelf Kurt Vesterager,
Besenbacher Flemming,
Dong Mingdong
Publication year - 2013
Publication title -
small
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.785
H-Index - 236
eISSN - 1613-6829
pISSN - 1613-6810
DOI - 10.1002/smll.201202861
Subject(s) - dna origami , dna nanotechnology , nanopore , nanotechnology , kinetics , dna–dna hybridization , materials science , dna , nanoscopic scale , isothermal process , force spectroscopy , base pair , nanostructure , atomic force microscopy , chemistry , physics , thermodynamics , biochemistry , quantum mechanics
The Watson–Crick base‐pairing with specificity and predictability makes DNA molecules suitable for building versatile nanoscale structures and devices, and the DNA origami method enables researchers to incorporate more complexities into DNA‐based devices. Thermally controlled atomic force microscopy in combination with nanomechanical spectroscopy with forces controlled in the pico Newton (pN) range as a novel technique is introduced to directly investigate the kinetics of multistrand DNA hybridization events on DNA origami nanopores under defined isothermal conditions. For the synthesis of DNA nanostructures under isothermal conditions at 60 °C, a higher hybridization rate, fewer defects, and a higher stability are achieved compared to room‐temperature studies. By quantifying the assembly times for filling pores in origami structures at several constant temperatures, the fill factors show a consistent exponential increase over time. Furthermore, the local hybridization rate can be accelerated by adding a higher concentration of the staples. The new insight gained on the kinetics of staple‐scaffold hybridization on the synthesis of two dimensional DNA origami structures may open up new routes and ideas for designing DNA assembly systems with increased potential for their application.