Designer nanoscale DNA assemblies programmed from the top down
Scaffolded DNA origami is a versatile means of synthesizing complex molecular architectures. However, the approach is limited by the need to forward-design specific Watson-Crick basepairing manually for any given target structure. Here, we report a general, top-down strategy to design nearly arbitr...
| Main Authors: | , , , , , , |
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| Other Authors: | |
| Format: | Article |
| Language: | en_US |
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American Association for the Advancement of Science (AAAS)
2017
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| Online Access: | http://hdl.handle.net/1721.1/106652 https://orcid.org/0000-0002-2726-3770 https://orcid.org/0000-0002-1766-807X https://orcid.org/0000-0002-6199-6855 |
| _version_ | 1811070351706161152 |
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| author | Zhang, K. Zhang, F. Yan, H. Chiu, W. Veneziano, Remi Ratanalert, Sakul Bathe, Mark |
| author2 | Massachusetts Institute of Technology. Department of Biological Engineering |
| author_facet | Massachusetts Institute of Technology. Department of Biological Engineering Zhang, K. Zhang, F. Yan, H. Chiu, W. Veneziano, Remi Ratanalert, Sakul Bathe, Mark |
| author_sort | Zhang, K. |
| collection | MIT |
| description | Scaffolded DNA origami is a versatile means of synthesizing complex molecular architectures. However, the approach is limited by the need to forward-design specific Watson-Crick basepairing manually for any given target structure. Here, we report a general, top-down strategy to
design nearly arbitrary DNA architectures autonomously based only on target shape. Objects are represented as closed surfaces rendered as polyhedral networks of parallel DNA duplexes, which enables complete DNA scaffold routing with a spanning tree algorithm. The asymmetric polymerase chain reaction was applied to produce stable, monodisperse assemblies with custom scaffold length and sequence that are verified structurally in 3D to be high fidelity using single-particle cryo-electron microscopy. Their long-term stability in serum and low-salt buffer confirms their utility for biological as well as nonbiological applications. |
| first_indexed | 2024-09-23T08:34:35Z |
| format | Article |
| id | mit-1721.1/106652 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T08:34:35Z |
| publishDate | 2017 |
| publisher | American Association for the Advancement of Science (AAAS) |
| record_format | dspace |
| spelling | mit-1721.1/1066522022-09-23T13:01:55Z Designer nanoscale DNA assemblies programmed from the top down Zhang, K. Zhang, F. Yan, H. Chiu, W. Veneziano, Remi Ratanalert, Sakul Bathe, Mark Massachusetts Institute of Technology. Department of Biological Engineering Massachusetts Institute of Technology. Department of Chemical Engineering Veneziano, Remi Ratanalert, Sakul Bathe, Mark Scaffolded DNA origami is a versatile means of synthesizing complex molecular architectures. However, the approach is limited by the need to forward-design specific Watson-Crick basepairing manually for any given target structure. Here, we report a general, top-down strategy to design nearly arbitrary DNA architectures autonomously based only on target shape. Objects are represented as closed surfaces rendered as polyhedral networks of parallel DNA duplexes, which enables complete DNA scaffold routing with a spanning tree algorithm. The asymmetric polymerase chain reaction was applied to produce stable, monodisperse assemblies with custom scaffold length and sequence that are verified structurally in 3D to be high fidelity using single-particle cryo-electron microscopy. Their long-term stability in serum and low-salt buffer confirms their utility for biological as well as nonbiological applications. United States. Office of Naval Research (Grant N000141410609) Human Frontier Science Program (Strasbourg, France) (Grant RGP0029/2015) National Science Foundation (U.S.) (Grant CCF-1547999) National Science Foundation (U.S.) (Grant 1334109) 2017-01-27T15:52:09Z 2017-01-27T15:52:09Z 2016-05 2016-02 Article http://purl.org/eprint/type/JournalArticle 0036-8075 1095-9203 http://hdl.handle.net/1721.1/106652 Veneziano, R. et al. “Designer Nanoscale DNA Assemblies Programmed from the Top down.” Science 352.6293 (2016): 1534–1534. https://orcid.org/0000-0002-2726-3770 https://orcid.org/0000-0002-1766-807X https://orcid.org/0000-0002-6199-6855 en_US http://dx.doi.org/10.1126/science.aaf4388 Science Article is made available in accordance with the publisher's policy and may be subject to US copyright law. Please refer to the publisher's site for terms of use. application/pdf American Association for the Advancement of Science (AAAS) PMC |
| spellingShingle | Zhang, K. Zhang, F. Yan, H. Chiu, W. Veneziano, Remi Ratanalert, Sakul Bathe, Mark Designer nanoscale DNA assemblies programmed from the top down |
| title | Designer nanoscale DNA assemblies programmed from the top down |
| title_full | Designer nanoscale DNA assemblies programmed from the top down |
| title_fullStr | Designer nanoscale DNA assemblies programmed from the top down |
| title_full_unstemmed | Designer nanoscale DNA assemblies programmed from the top down |
| title_short | Designer nanoscale DNA assemblies programmed from the top down |
| title_sort | designer nanoscale dna assemblies programmed from the top down |
| url | http://hdl.handle.net/1721.1/106652 https://orcid.org/0000-0002-2726-3770 https://orcid.org/0000-0002-1766-807X https://orcid.org/0000-0002-6199-6855 |
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