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Self-assembly of DNA into nanoscale three-dimensional shapes

Author

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  • Shawn M. Douglas

    (Dana-Farber Cancer Institute
    Harvard Medical School, Boston, Massachusetts 02115, USA.
    Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, Massachusetts 02138, USA.)

  • Hendrik Dietz

    (Dana-Farber Cancer Institute
    Harvard Medical School, Boston, Massachusetts 02115, USA.)

  • Tim Liedl

    (Dana-Farber Cancer Institute
    Harvard Medical School, Boston, Massachusetts 02115, USA.)

  • Björn Högberg

    (Dana-Farber Cancer Institute
    Harvard Medical School, Boston, Massachusetts 02115, USA.)

  • Franziska Graf

    (Dana-Farber Cancer Institute
    Harvard Medical School, Boston, Massachusetts 02115, USA.
    Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, Massachusetts 02138, USA.)

  • William M. Shih

    (Dana-Farber Cancer Institute
    Harvard Medical School, Boston, Massachusetts 02115, USA.
    Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, Massachusetts 02138, USA.)

Abstract

Nanomaterials get complicated An important goal in nanotechnology is the programmable self-assembly of complex, three-dimensional nanostructures. With DNA as the building block, synthesis techniques have developed to the stage where two-dimensional designer structures and certain three-dimensional structures can be produced. Douglas et al. describe a refinement of the scaffolded DNA origami technique capable of producing three-dimensional objects of more or less any desired form, to a scale of ten to a hundred nanometres, and with an impressive degree of control over the positions of the various DNA helices. The synthesis involves DNA helices arranged on pleated strands and assembled into honeycomb-like three-dimensional structures. The various strands link together via phosphate groups. The method produces complex objects that are slow to assemble. But it also provides a route towards assembling custom devices with nanometre-scale features, as demonstrated by the construction of objects with shapes resembling a square nut, slotted cross and wire-frame icosahedron.

Suggested Citation

  • Shawn M. Douglas & Hendrik Dietz & Tim Liedl & Björn Högberg & Franziska Graf & William M. Shih, 2009. "Self-assembly of DNA into nanoscale three-dimensional shapes," Nature, Nature, vol. 459(7245), pages 414-418, May.
    • Handle: RePEc:nat:nature:v:459:y:2009:i:7245:d:10.1038_nature08016
    DOI: 10.1038/nature08016
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    Cited by:

    1. Molly F. Parsons & Matthew F. Allan & Shanshan Li & Tyson R. Shepherd & Sakul Ratanalert & Kaiming Zhang & Krista M. Pullen & Wah Chiu & Silvi Rouskin & Mark Bathe, 2023. "3D RNA-scaffolded wireframe origami," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    2. Jae Young Lee & Heeyuen Koh & Do-Nyun Kim, 2023. "A computational model for structural dynamics and reconfiguration of DNA assemblies," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    3. Eva Bertosin & Christopher M. Maffeo & Thomas Drexler & Maximilian N. Honemann & Aleksei Aksimentiev & Hendrik Dietz, 2021. "A nanoscale reciprocating rotary mechanism with coordinated mobility control," Nature Communications, Nature, vol. 12(1), pages 1-11, December.
    4. Yahong Chen & Chaoyong Yang & Zhi Zhu & Wei Sun, 2022. "Suppressing high-dimensional crystallographic defects for ultra-scaled DNA arrays," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    5. Vishal Maingi & Zhao Zhang & Chris Thachuk & Namita Sarraf & Edwin R. Chapman & Paul W. K. Rothemund, 2023. "Digital nanoreactors to control absolute stoichiometry and spatiotemporal behavior of DNA receptors within lipid bilayers," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    6. Francis Schuknecht & Karol Kołątaj & Michael Steinberger & Tim Liedl & Theobald Lohmueller, 2023. "Accessible hotspots for single-protein SERS in DNA-origami assembled gold nanorod dimers with tip-to-tip alignment," Nature Communications, Nature, vol. 14(1), pages 1-10, December.
    7. A. Mills & N. Aissaoui & D. Maurel & J. Elezgaray & F. Morvan & J. J. Vasseur & E. Margeat & R. B. Quast & J. Lai Kee-Him & N. Saint & C. Benistant & A. Nord & F. Pedaci & G. Bellot, 2022. "A modular spring-loaded actuator for mechanical activation of membrane proteins," Nature Communications, Nature, vol. 13(1), pages 1-10, December.
    8. Chi Chen & Xingfei Wei & Molly F. Parsons & Jiajia Guo & James L. Banal & Yinong Zhao & Madelyn N. Scott & Gabriela S. Schlau-Cohen & Rigoberto Hernandez & Mark Bathe, 2022. "Nanoscale 3D spatial addressing and valence control of quantum dots using wireframe DNA origami," Nature Communications, Nature, vol. 13(1), pages 1-15, December.
    9. Sungwook Woo & Sinem K. Saka & Feng Xuan & Peng Yin, 2024. "Molecular robotic agents that survey molecular landscapes for information retrieval," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    10. Le Luo & Swathi Manda & Yunjeong Park & Busra Demir & Jesse Sanchez & M. P. Anantram & Ersin Emre Oren & Ashwin Gopinath & Marco Rolandi, 2023. "DNA nanopores as artificial membrane channels for bioprotonics," Nature Communications, Nature, vol. 14(1), pages 1-10, December.
    11. Linlin Tang & Zhijin Tian & Jin Cheng & Yijing Zhang & Yongxiu Song & Yan Liu & Jinghao Wang & Pengfei Zhang & Yonggang Ke & Friedrich C. Simmel & Jie Song, 2023. "Circular single-stranded DNA as switchable vector for gene expression in mammalian cells," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    12. Guang Hu & Wen-Yuan Qiu & Arnout Ceulemans, 2011. "A New Euler's Formula for DNA Polyhedra," PLOS ONE, Public Library of Science, vol. 6(10), pages 1-6, October.
    13. Jessica A. Kretzmann & Anna Liedl & Alba Monferrer & Volodymyr Mykhailiuk & Samuel Beerkens & Hendrik Dietz, 2023. "Gene-encoding DNA origami for mammalian cell expression," Nature Communications, Nature, vol. 14(1), pages 1-10, December.
    14. Martina F. Ober & Anna Baptist & Lea Wassermann & Amelie Heuer-Jungemann & Bert Nickel, 2022. "In situ small-angle X-ray scattering reveals strong condensation of DNA origami during silicification," Nature Communications, Nature, vol. 13(1), pages 1-7, December.
    15. Ioanna Smyrlaki & Ferenc Fördős & Iris Rocamonde-Lago & Yang Wang & Boxuan Shen & Antonio Lentini & Vincent C. Luca & Björn Reinius & Ana I. Teixeira & Björn Högberg, 2024. "Soluble and multivalent Jag1 DNA origami nanopatterns activate Notch without pulling force," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
    16. Swarup Dey & Adam Dorey & Leeza Abraham & Yongzheng Xing & Irene Zhang & Fei Zhang & Stefan Howorka & Hao Yan, 2022. "A reversibly gated protein-transporting membrane channel made of DNA," Nature Communications, Nature, vol. 13(1), pages 1-12, December.
    17. Zhao Zhang & Zhaomeng Feng & Xiaowei Zhao & Dominique Jean & Zhiheng Yu & Edwin R. Chapman, 2023. "Functionalization and higher-order organization of liposomes with DNA nanostructures," Nature Communications, Nature, vol. 14(1), pages 1-9, December.

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