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<p>The four-way DNA junction is the most prevalent structural motif in DNA nanotechnology. Recently, a reconfigurable DNA nanoarray (domino array) was created with this basic motif to realize intricate, stepwise transformation by the information relay between neighboring four-way junction units. Here, we generate a DNA domino array with same sequences at every junction, and use it as a platform to study how the design of DNA bases at junctions influences the kinetics and thermodynamics of transformation of four-way junctions in reconfigurable DNA nanoarrays. By regulating the energy difference and thus the conversion between the two configurations of four-way junctions, we show the transformation of DNA nanoarray can be modulated in a designable manner. The coordinated transformation of four-way junctions in the DNA domino array enables a detailed investigation on array transformation by using Atomic Force Microscopy (AFM) imaging and single-molecule Förster resonance energy transfer (FRET) microscopy.</p>

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Modulating transformation of DNA origami nanoarray via sequence design

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2025年7月1日

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  • Dongfang Wang,
  • Fiona Cole,
  • Martina Pfeiffer,
  • Mengting Cao,
  • Tim Schröder,
  • Philip Tinnefeld,
  • Yonggang Ke

摘要

The four-way DNA junction is the most prevalent structural motif in DNA nanotechnology. Recently, a reconfigurable DNA nanoarray (domino array) was created with this basic motif to realize intricate, stepwise transformation by the information relay between neighboring four-way junction units. Here, we generate a DNA domino array with same sequences at every junction, and use it as a platform to study how the design of DNA bases at junctions influences the kinetics and thermodynamics of transformation of four-way junctions in reconfigurable DNA nanoarrays. By regulating the energy difference and thus the conversion between the two configurations of four-way junctions, we show the transformation of DNA nanoarray can be modulated in a designable manner. The coordinated transformation of four-way junctions in the DNA domino array enables a detailed investigation on array transformation by using Atomic Force Microscopy (AFM) imaging and single-molecule Förster resonance energy transfer (FRET) microscopy.