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Research Article

Construction of RNA nanotubes

Hui Li1,†,,, ,§, Shaoying Wang1,‡,,, ,§, Zhouxiang Ji1,§, Congcong Xu1, Lyudmila S. Shlyakhtenko2, Peixuan Guo1( )
Center for RNA Nanobiotechnology and Nanomedicine; Division of Pharmaceutics and Pharmaceutical Chemistry, College of Pharmacy; Department of Physiology&Cell Biology, College of Medicine,Dorothy M.Davis Heart and Lung Research Institute and James Comprehensive Cancer Center, The Ohio State University, Columbus, OH,43210,USA;
UNMC Nanoimaging Core Facility, Department of Pharmaceutical Sciences,College of Pharmacy University of Nebraska Medical Center,Omaha, NE,68182,USA;

† Present address: University of California, San Francisco, CA, 94158, USA

§ Hui Li, Shaoying Wang, and Zhouxiang Ji contributed equally to this work.

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Graphical Abstract

Abstract

Nanotubes are miniature materials with significant potential applications in nanotechnological, medical, biological and material sciences. The quest for manufacturing methods of nano-mechanical modules is in progress. For example, the application of carbon nanotubes has been extensively investigated due to the precise width control, but the precise length control remains challenging. Here we report two approaches for the one-pot self-assembly of RNA nanotubes. For the first approach, six RNA strands were used to assemble the nanotube by forming a 11 nm long hollow channel with the inner diameter of 1.7 nm and the outside diameter of 6.3 nm. For the second approach, six RNA strands were designed to hybridize with their neighboring strands by complementary base pairing and formed a nanotube with a six-helix hollow channel similar to the nanotube assembled by the first approach. The fabricated RNA nanotubes were characterized by gel electrophoresis and atomic force microscopy (AFM), confirming the formation of nanotube-shaped RNA nanostructures. Cholesterol molecules were introduced into RNA nanotubes to facilitate their incorporation into lipid bilayer. Incubation of RNA nanotube complex with the free-standing lipid bilayer membrane under applied voltage led to discrete current signatures. Addition of peptides into the sensing chamber revealed discrete steps of current blockage. Polyarginine peptides with different lengths can be detected by current signatures, suggesting that the RNA-cholesterol complex holds the promise of achieving single molecule sensing of peptides.

Keywords

RNA nanotechnologypeptide sensingRNA nanotubenanobiotechnology

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Nano Research
Volume 12 Issue 8,
August 2019
Pages 1952-1958
DOI: 10.1007/s12274-019-2463-z
Cite this article:
Li H, Wang S, Ji Z, et al. Construction of RNA nanotubes. Nano Research, 2019, 12(8): 1952-1958. https://doi.org/10.1007/s12274-019-2463-z
Topics:
Atomic force microscopyCholesterol Lipid bilayersNanobiotechnologyPeptidesRNA

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Received: 12 February 2019
Revised: 06 June 2019
Accepted: 17 June 2019
Published: 11 July 2019
© Tsinghua University Press and Springer-Verlag GmbH Germany, part of Springer Nature 2019
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