Balasubramanian Ramkumar, Pal Sohini, Joshi Himanshu, Rao Anjana, Naik Akshay, Varma Manoj, Chakraborty Banani, Maiti Prabal K
Centre for Nano Science and Engineering, Indian Institute of Science, Bangalore 560012, India.
Department of Physics, Indian Institute of Science, Bangalore 560012, India.
J Phys Chem C Nanomater Interfaces. 2019 May 9;123(18):11908-11916. doi: 10.1021/acs.jpcc.9b00399. Epub 2019 Apr 23.
Pore functionalization has been explored by several groups as a strategy to control DNA translocation through solid-state nanopores. Here we present a hybrid nanopore system consisting of single-layer graphene and a DNA origami layer to achieve base-selective control of DNA translocation rate through aligned nanopores of the two layers. This is achieved by incorporating unpaired dangling bases called overhangs to the origami near the pore region. Molecular dynamics simulations were used to optimize the design of the origami nanopore and the overhangs. Specifically, we considered the influence of the number and spatial distribution of overhangs on translocation times. The simulations revealed that specific interactions between the overhangs and the translocating single-stranded DNA resulted in base-specific residence times.
几个研究小组已经探索了通过孔功能化来控制DNA通过固态纳米孔转运的策略。在此，我们展示了一种由单层石墨烯和DNA折纸层组成的混合纳米孔系统，以实现对DNA通过两层对齐纳米孔的转运速率进行碱基选择性控制。这是通过在靠近孔区域的折纸中引入称为悬垂端的未配对悬空碱基来实现的。分子动力学模拟被用于优化折纸纳米孔和悬垂端的设计。具体而言，我们考虑了悬垂端的数量和空间分布对转运时间的影响。模拟结果表明，悬垂端与转运的单链DNA之间的特定相互作用导致了碱基特异性停留时间。
