1] Department of Medical Biochemistry and Biophysics, Karolinska Institutet, SE-171 77 Stockholm, Sweden [2] Department of Neuroscience, Karolinska Institutet, SE-171 77 Stockholm, Sweden.
Department of Computer Science, Aalto University, FI-00076 Aalto, Finland.
Nature. 2015 Jul 23;523(7561):441-4. doi: 10.1038/nature14586.
It was suggested more than thirty years ago that Watson-Crick base pairing might be used for the rational design of nanometre-scale structures from nucleic acids. Since then, and especially since the introduction of the origami technique, DNA nanotechnology has enabled increasingly more complex structures. But although general approaches for creating DNA origami polygonal meshes and design software are available, 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 close-packed 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.
三十多年前有人提出，沃森-克里克碱基配对可能被用于从核酸理性设计纳米级结构。从那时起，尤其是折纸技术问世以来，DNA 纳米技术已经能够实现越来越复杂的结构。但是，尽管已经有了用于创建 DNA 折纸多边形网格的通用方法和设计软件，但由于 DNA 几何形状和 sense/antisense 配对的限制，在设计过程中仍然需要进行一些手动调整。在这里，我们提出了一种在 DNA 中折叠任意多边形数字网格的通用方法，该方法可以轻松生成使用以前的方法很难实现的结构。设计过程高度自动化，使用基于图论的路由算法和跟踪支架链穿过目标结构的松弛模拟。此外，与由密堆积螺旋构成的传统折纸设计不同，我们的结构具有更开放的构象，每个边缘一个螺旋，因此在通常用于生物测定的离子条件下是稳定的。
