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Research Article

Complex RNA-DNA hybrid nanoshapes from iterative mix-and-match screening

Shi Chen3, Zhiyuan Zhang1, Eugene Alforque1, Thomas Hermann1,2( )
Department of Chemistry and Biochemistry, University of California, San Diego, CA 92093, USA
Center for Drug Discovery Innovation, University of California, San Diego, CA 92093, USA
Materials Science and Engineering Program, University of California, San Diego, CA 92093, USA
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Graphical Abstract

Abstract

Hybrid nucleic acid nanostructures partition architectural and functional roles between ribonucleic acid (RNA) joints and deoxyribonucleic acid (DNA) connectors. Nanoshapes self-assemble from nucleic acid modules through synergistic stabilization of marginally stable base pairing interactions within circularly closed polygons. Herein, we report the development of hybrid nanoshapes that include multiple different RNA modules such as internal loop and three-way junction (3WJ) motifs. An iterative mix-and-match screening approach was used to identify suitable DNA connectors that furnished stable nanoshapes for combinations of different RNA modules. The resulting complex multicomponent RNA-DNA hybrid nanoshapes were characterized by atomic force microscopy (AFM) imaging. Our research provides proof of concept for modular design, assembly and screening of RNA-DNA hybrid nanoshapes as building blocks for complex extended nucleic acid materials with features at the sub-10 nm scale.

Keywords

nucleic acid nanotechnologynanoshapesribonucleic acid (RNA) three-way junction (3WJ)RNAdeoxyribonucleic acid (DNA)sub-10 nm features

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Nano Research
Volume 14 Issue 1,
January 2021
Pages 46-51
DOI: 10.1007/s12274-020-3008-1
Cite this article:
Chen S, Zhang Z, Alforque E, et al. Complex RNA-DNA hybrid nanoshapes from iterative mix-and-match screening. Nano Research, 2021, 14(1): 46-51. https://doi.org/10.1007/s12274-020-3008-1
Topics:
Atomic force microscopyBiomolecules DNA RNA

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Received: 06 June 2020
Revised: 22 July 2020
Accepted: 26 July 2020
Published: 05 January 2021
© Tsinghua University Press and Springer-Verlag GmbH Germany, part of Springer Nature
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