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Isothermal Hybridization Kinetics of DNA Assembly of Two-Dimensional DNA Origami

Authors

  • Jie Song,

    1. Centre for DNA Nanotechnology (CDNA), at Interdisciplinary Nanoscience Center (iNANO), Aarhus University, DK-8000 Aarhus C, Denmark, Phone: +45-87156729, Fax: +45-87154041
    2. School of Physical Science and Technology, Lanzhou University, Lanzhou 730000, PR China
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  • Zhao Zhang,

    1. Centre for DNA Nanotechnology (CDNA), at Interdisciplinary Nanoscience Center (iNANO), Aarhus University, DK-8000 Aarhus C, Denmark, Phone: +45-87156729, Fax: +45-87154041
    2. Department of Chemistry, Aarhus University, DK-8000 Aarhus C, Denmark
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  • Shuai Zhang,

    1. Centre for DNA Nanotechnology (CDNA), at Interdisciplinary Nanoscience Center (iNANO), Aarhus University, DK-8000 Aarhus C, Denmark, Phone: +45-87156729, Fax: +45-87154041
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  • Lei Liu,

    1. Centre for DNA Nanotechnology (CDNA), at Interdisciplinary Nanoscience Center (iNANO), Aarhus University, DK-8000 Aarhus C, Denmark, Phone: +45-87156729, Fax: +45-87154041
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  • Qiang Li,

    1. Centre for DNA Nanotechnology (CDNA), at Interdisciplinary Nanoscience Center (iNANO), Aarhus University, DK-8000 Aarhus C, Denmark, Phone: +45-87156729, Fax: +45-87154041
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  • Erqing Xie,

    1. School of Physical Science and Technology, Lanzhou University, Lanzhou 730000, PR China
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  • Kurt Vesterager Gothelf,

    1. Centre for DNA Nanotechnology (CDNA), at Interdisciplinary Nanoscience Center (iNANO), Aarhus University, DK-8000 Aarhus C, Denmark, Phone: +45-87156729, Fax: +45-87154041
    2. Department of Chemistry, Aarhus University, DK-8000 Aarhus C, Denmark
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  • Flemming Besenbacher,

    Corresponding author
    1. Centre for DNA Nanotechnology (CDNA), at Interdisciplinary Nanoscience Center (iNANO), Aarhus University, DK-8000 Aarhus C, Denmark, Phone: +45-87156729, Fax: +45-87154041
    2. Department of Physics and Astronomy, Aarhus University, DK-8000 Aarhus C, Denmark
    • Centre for DNA Nanotechnology (CDNA), at Interdisciplinary Nanoscience Center (iNANO), Aarhus University, DK-8000 Aarhus C, Denmark, Phone: +45-87156729, Fax: +45-87154041.
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  • Mingdong Dong

    Corresponding author
    1. Centre for DNA Nanotechnology (CDNA), at Interdisciplinary Nanoscience Center (iNANO), Aarhus University, DK-8000 Aarhus C, Denmark, Phone: +45-87156729, Fax: +45-87154041
    • Centre for DNA Nanotechnology (CDNA), at Interdisciplinary Nanoscience Center (iNANO), Aarhus University, DK-8000 Aarhus C, Denmark, Phone: +45-87156729, Fax: +45-87154041.
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Errata

This article is corrected by:

  1. Errata: Isothermal Hybridization Kinetics of DNA Assembly of Two-Dimensional DNA Origami Volume 10, Issue 4, 630, Article first published online: 18 February 2014

Abstract

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.

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