Versatile computer-aided design of free-form DNA nanostructures and assemblies

被引:9
作者
Pfeifer, Wolfgang G. [1 ,2 ]
Huang, Chao-Min [1 ,3 ]
Poirier, Michael G. [2 ,4 ,5 ]
Arya, Gaurav [3 ]
Castro, Carlos E. [1 ,4 ]
机构
[1] Ohio State Univ, Dept Mech & Aerosp Engn, Columbus, OH 43210 USA
[2] Ohio State Univ, Dept Phys, Columbus, OH 43210 USA
[3] Duke Univ, Dept Mech Engn & Mat Sci, Durham, NC 27708 USA
[4] Ohio State Univ, Interdisciplinary Biophys Grad Program, Columbus, OH 43210 USA
[5] Ohio State Univ, Dept Chem & Biochem, Columbus, OH 43210 USA
基金
美国国家科学基金会; 美国国家卫生研究院;
关键词
ORIGAMI; DYNAMICS;
D O I
10.1126/sciadv.adi0697
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Recent advances in structural DNA nanotechnology have been facilitated by design tools that continue to push the limits of structural complexity while simplifying an often-tedious design process. We recently introduced the software MagicDNA, which enables design of complex 3D DNA assemblies with many components; however, the design of structures with free-form features like vertices or curvature still required iterative design guided by simulation feedback and user intuition. Here, we present an updated design tool, MagicDNA 2.0, that automates the design of free-form 3D geometries, leveraging design models informed by coarse-grained molecular dynamics simulations. Our GUI-based, stepwise design approach integrates a high level of automation with versatile control over assembly and subcomponent design parameters. We experimentally validated this approach by fabricating a range of DNA origami assemblies with complex free-form geometries, including a 3D Nozzle, G-clef, and Hilbert and Trifolium curves, confirming excellent agreement between design input, simulation, and structure formation.
引用
收藏
页数:9
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