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      DNA origami cryptography for secure communication

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          Abstract

          Biomolecular cryptography exploiting specific biomolecular interactions for data encryption represents a unique approach for information security. However, constructing protocols based on biomolecular reactions to guarantee confidentiality, integrity and availability (CIA) of information remains a challenge. Here we develop DNA origami cryptography (DOC) that exploits folding of a M13 viral scaffold into nanometer-scale self-assembled braille-like patterns for secure communication, which can create a key with a size of over 700 bits. The intrinsic nanoscale addressability of DNA origami additionally allows for protein binding-based steganography, which further protects message confidentiality in DOC. The integrity of a transmitted message can be ensured by establishing specific linkages between several DNA origamis carrying parts of the message. The versatility of DOC is further demonstrated by transmitting various data formats including text, musical notes and images, supporting its great potential for meeting the rapidly increasing CIA demands of next-generation cryptography.

          Abstract

          Biomolecular cyptography that exploits specific interactions could be used for data encryption. Here the authors use the folding of M13 DNA to encrypt information for secure communication.

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          Most cited references31

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          Self-assembly of DNA into nanoscale three-dimensional shapes

          Molecular self-assembly offers a ‘bottom-up’ route to fabrication with subnanometre precision of complex structures from simple components1. DNA has proven a versatile building block2–5 for programmable construction of such objects, including two-dimensional crystals6, nanotubes7–11, and three-dimensional wireframe nanopolyhedra12–17. Templated self-assembly of DNA18 into custom two-dimensional shapes on the megadalton scale has been demonstrated previously with a multiple-kilobase ‘scaffold strand’ that is folded into a flat array of antiparallel helices by interactions with hundreds of oligonucleotide ‘staple strands’19, 20. Here we extend this method to building custom three-dimensional shapes formed as pleated layers of helices constrained to a honeycomb lattice. We demonstrate the design and assembly of nanostructures approximating six shapes — monolith, square nut, railed bridge, genie bottle, stacked cross, slotted cross — with precisely controlled dimensions ranging from 10 to 100 nm. We also show hierarchical assembly of structures such as homomultimeric linear tracks and of heterotrimeric wireframe icosahedra. Proper assembly requires week-long folding times and calibrated monovalent and divalent cation concentrations. We anticipate that our strategy for self-assembling custom three-dimensional shapes will provide a general route to the manufacture of sophisticated devices bearing features on the nanometer scale.
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            A silicon-based nuclear spin quantum computer

            B. E. Kane (1998)
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              DNA rendering of polyhedral meshes at the nanoscale.

              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.
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                Author and article information

                Contributors
                liuhuajie@tongji.edu.cn
                fanchunhai@sjtu.edu.cn
                Journal
                Nat Commun
                Nat Commun
                Nature Communications
                Nature Publishing Group UK (London )
                2041-1723
                29 November 2019
                29 November 2019
                2019
                : 10
                : 5469
                Affiliations
                [1 ]ISNI 0000 0004 0368 8293, GRID grid.16821.3c, School of Chemistry and Chemical Engineering, and Institute of Molecular Medicine, Renji Hospital, School of Medicine, , Shanghai Jiao Tong University, ; Shanghai, 200240 China
                [2 ]ISNI 0000 0000 9989 3072, GRID grid.450275.1, Division of Physical Biology, CAS Key Laboratory of Interfacial Physics and Technology, , Shanghai Institute of Applied Physics, Chinese Academy of Sciences, ; Shanghai, 201800 China
                [3 ]ISNI 0000 0004 0369 3615, GRID grid.453246.2, Key Laboratory for Organic Electronics & Information Displays (KLOEID), Institute of Advanced Materials (IAM) and School of Materials Science and Engineering, , Nanjing University of Posts & Telecommunications, ; 9 Wenyuan Road, Nanjing, 210046 China
                [4 ]ISNI 0000000123704535, GRID grid.24516.34, School of Chemical Science and Engineering, Shanghai Research Institute for Intelligent Autonomous Systems, Key Laboratory of Advanced Civil Engineering Materials of Ministry of Education, , Tongji University, ; Shanghai, 200092 China
                [5 ]ISNI 0000000123222966, GRID grid.6936.a, Physics of Synthetic Biological Systems (E14), Physics Department, , Technische Universität München, ; Am Coulombwall 4a, 85748 Garching, Germany
                [6 ]ISNI 0000 0004 0369 6365, GRID grid.22069.3f, Shanghai Key Laboratory of Green Chemistry and Chemical Processes, School of Chemistry and Molecular Engineering, , East China Normal University, ; 500 Dongchuan Road, Shanghai, 200241 China
                [7 ]ISNI 0000 0004 0497 0637, GRID grid.458506.a, Shanghai Synchrotron Radiation Facility, Zhangjiang Laboratory, , Shanghai Advanced Research Institute, Chinese Academy of Sciences, ; Shanghai, 201210 China
                Author information
                http://orcid.org/0000-0003-1030-9944
                http://orcid.org/0000-0002-7703-8061
                http://orcid.org/0000-0002-8602-3259
                http://orcid.org/0000-0002-7834-399X
                http://orcid.org/0000-0002-9628-8680
                http://orcid.org/0000-0001-9030-9172
                http://orcid.org/0000-0003-3829-3446
                http://orcid.org/0000-0002-7171-7338
                Article
                13517
                10.1038/s41467-019-13517-3
                6884444
                31784537
                945862e4-edae-495e-8e47-5ff7b8ab7648
                © The Author(s) 2019

                Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

                History
                : 1 May 2019
                : 29 October 2019
                Funding
                Funded by: FundRef https://doi.org/10.13039/501100001809, National Natural Science Foundation of China (National Science Foundation of China);
                Award ID: 21675167, 21603262
                Award Recipient :
                Categories
                Article
                Custom metadata
                © The Author(s) 2019

                Uncategorized
                self-assembly,dna computing
                Uncategorized
                self-assembly, dna computing

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