Mapping the thermal behavior of DNA origami nanostructures

Xixi Wei, Jeanette Nangreave, Shuoxing Jiang, Hao Yan, Yan Liu

Research output: Contribution to journalArticle

30 Citations (Scopus)

Abstract

Understanding the thermodynamic properties of complex DNA nanostructures, including rationally designed two- and three-dimensional (2D and 3D, respectively) DNA origami, facilitates more accurate spatiotemporal control and effective functionalization of the structures by other elements. In this work fluorescein and tetramethylrhodamine (TAMRA), a Förster resonance energy transfer (FRET) dye pair, were incorporated into selected staples within various 2D and 3D DNA origami structures. We monitored the temperature-dependent changes in FRET efficiency that occurred as the dye-labeled structures were annealed and melted and subsequently extracted information about the associative and dissociative behavior of the origami. In particular, we examined the effects of local and long-range structural defects (omitted staple strands) on the thermal stability of common DNA origami structures. The results revealed a significant decrease in thermal stability of the structures in the vicinity of the defects, in contrast to the negligible long-range effects that were observed. Furthermore, we probed the global assembly and disassembly processes by comparing the thermal behavior of the FRET pair at several different positions. We demonstrated that the staple strands located in different areas of the structure all exhibit highly cooperative hybridization but have distinguishable melting temperatures depending on their positions. This work underscores the importance of understanding fundamental aspects of the self-assembly of DNA nanostructures and can be used to guide the design of more complicated DNA nanostructures, to optimize annealing protocol and manipulate functionalized DNA nanostructures.

Original languageEnglish
Pages (from-to)6165-6176
Number of pages12
JournalJournal of the American Chemical Society
Volume135
Issue number16
DOIs
Publication statusPublished - Apr 24 2013

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Nanostructures
DNA
Hot Temperature
Energy Transfer
Energy transfer
Thermodynamic stability
Coloring Agents
Dyes
Defects
Temperature
Fluorescein
Thermodynamics
Self assembly
Freezing
Melting point
Thermodynamic properties
Annealing

ASJC Scopus subject areas

  • Chemistry(all)
  • Catalysis
  • Biochemistry
  • Colloid and Surface Chemistry

Cite this

Mapping the thermal behavior of DNA origami nanostructures. / Wei, Xixi; Nangreave, Jeanette; Jiang, Shuoxing; Yan, Hao; Liu, Yan.

In: Journal of the American Chemical Society, Vol. 135, No. 16, 24.04.2013, p. 6165-6176.

Research output: Contribution to journalArticle

Wei, Xixi ; Nangreave, Jeanette ; Jiang, Shuoxing ; Yan, Hao ; Liu, Yan. / Mapping the thermal behavior of DNA origami nanostructures. In: Journal of the American Chemical Society. 2013 ; Vol. 135, No. 16. pp. 6165-6176.
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