Rapid prototyping of 3D DNA-origami shapes with caDNAno

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ID: 296131
2009
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Abstract
DNA nanotechnology exploits the programmable specificity afforded by base-pairing to produce self-assembling macromolecular objects of custom shape. For building megadalton-scale DNA nanostructures, a long 'scaffold' strand can be employed to template the assembly of hundreds of oligonucleotide 'staple' strands into a planar antiparallel array of cross-linked helices. We recently adapted this 'scaffolded DNA origami' method to producing 3D shapes formed as pleated layers of double helices constrained to a honeycomb lattice. However, completing the required design steps can be cumbersome and time-consuming. Here we present caDNAno, an open-source software package with a graphical user interface that aids in the design of DNA sequences for folding 3D honeycomb-pleated shapes A series of rectangular-block motifs were designed, assembled, and analyzed to identify a well-behaved motif that could serve as a building block for future studies. The use of caDNAno significantly reduces the effort required to design 3D DNA-origami structures. The software is available at http://cadnano.org/, along with example designs and video tutorials demonstrating their construction. The source code is released under the MIT license.
Reference Key
openalex_W2129096474 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Shawn M. Douglas, Adam Marblestone, Surat Teerapittayanon, Alejandro Vázquez, George M. Church, William M. Shih
Journal Nucleic Acids Research
Year 2009
DOI
10.1093/nar/gkp436
URL
https://doi.org/10.1093/nar/gkp436
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