DNA rendering of polyhedral meshes at the nanoscale

Nature. 2015 Jul, 523:7561:441-444. DOI: 10.1038/nature14586

Benson, E (2,1); Mohammed, A (3); Gardell, J (2,1); Masich, S (4); Czeizler, E (3); Orponen, P (3); Hogberg, B (2,1)

Author information:

  1. Karolinska Inst, Dept Med Biochem & Biophys, SE-17177 Stockholm, Sweden
  2. Karolinska Inst, Dept Neurosci, SE-17177 Stockholm, Sweden
  3. Aalto Univ, Dept Comp Sci, FI-00076 Aalto, Finland
  4. Karolinska Inst, Dept Cell & Mol Biol, SE-17177 Stockholm, Sweden

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It was suggested more than thirty years ago that Watson–Crick base pairing might be used for the rational design of nanometrescale structures from nucleic acids. Since then, and especially since the introduction of the origami technique2, DNA nanotechnology has enabled increasingly more complex structures3–18. But although general approaches for creating DNA origami polygonal meshes and design software are available14,16,17,19–21, there are still important constraints arising from DNA geometry and sense/ antisense pairing, necessitating some manual adjustment during the design process. Here we present a general method of folding arbitrary polygonal digital meshes in DNA that readily produces structures that would be very difficult to realize using previous approaches. The design process is highly automated, using a routeing algorithm based on graph theory and a relaxation simulation that traces scaffold strands through the target structures. Moreover, unlike conventional origami designs built from closepacked helices, our structures have a more open conformation with one helix per edge and are therefore stable under the ionic conditions usually used in biological assays.

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