Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

Dynamic patterning programmed by DNA tiles captured on a DNA origami substrate

Abstract

The aim of nanotechnology is to put specific atomic and molecular species where we want them, when we want them there. Achieving such dynamic and functional control could lead to programmable chemical synthesis and nanoscale systems that are responsive to their environments. Structural DNA nanotechnology offers a powerful route to this goal by combining stable branched DNA motifs1 with cohesive ends to produce programmed nanomechanical devices2 and fixed3,4,5 or modified6,7 patterned lattices. Here, we demonstrate a dynamic form of patterning8 in which a pattern component is captured between two independently programmed DNA devices. A simple and robust error-correction protocol has been developed that yields programmed targets in all cases. This capture system can lead to dynamic control either on patterns or on programmed elements; this capability enables computation or a change of structural state as a function of information in the surroundings of the system.

Your institute does not have access to this article

Relevant articles

Open Access articles citing this article.

Access options

Buy article

Get time limited or full article access on ReadCube.

$32.00

All prices are NET prices.

Figure 1: Schematics of the four different capture molecules.
Figure 2: Origami arrays and capture molecules.
Figure 3: Atomic force micrographs of the correction procedure for the diamond-shaped capture molecule.

References

  1. Seeman, N. C. Nucleic acid junctions and lattices. J. Theor. Biol. 99, 237–247 (1982).

    CAS  Google Scholar 

  2. Seeman, N. C. & Lukeman, P. S. Nucleic acid nanostructures. Rep. Prog. Phys. 68, 237–270 (2005).

    CAS  Article  Google Scholar 

  3. Winfree, E., Liu, F., Wenzler, L. A. & Seeman, N. C. Design and self-assembly of two-dimensional DNA crystals. Nature 394, 539–544 (1998).

    CAS  Article  Google Scholar 

  4. Rothemund, P. W. K. Scaffolded DNA origami for nanoscale shapes and patterns. Nature 440, 297–302 (2006).

    CAS  Article  Google Scholar 

  5. Rothemund, P. W. K., Papadakis, N. & Winfree, E. Algorithmic self-assembly of Sierpinski triangles. PLoS Biol. 2, 2041–2053 (2004).

    CAS  Article  Google Scholar 

  6. Liu, F., Sha, R. & Seeman, N. C. Modifying the surface features of two-dimensional DNA crystals. J. Am. Chem. Soc. 121, 917–922 (1999).

    CAS  Article  Google Scholar 

  7. Garibotti, A. V., Knudsen, S. M., Ellington, A. D. & Seeman, N. C. Functional DNAzymes organized into 2D arrays. Nano Lett. 6, 1505–1507 (2006).

    CAS  Article  Google Scholar 

  8. Carbone, A. & Seeman, N. C. Circuits and programmable self-assembling DNA structures. Proc. Natl Acad. Sci. USA 99, 12577–12582 (2002).

    CAS  Article  Google Scholar 

  9. Yan, H., Zhang, X., Shen, Z. & Seeman, N. C. A robust DNA mechanical device controlled by hybridization topology. Nature 415, 62–65 (2002).

    CAS  Article  Google Scholar 

  10. Ding, B. & Seeman, N. C. Operation of a DNA robot arm inserted into a 2D DNA crystalline substrate. Science 314, 1583–1585 (2006).

    CAS  Article  Google Scholar 

  11. Rinker, S., Ke, Y., Liu, Y., Chhabra, R. & Yan, H. Self-assembled DNA nanostructures for distance-dependent multivalent ligand–protein binding. Nature Nanotech. 3, 418–422 (2008).

    CAS  Article  Google Scholar 

  12. Mao, C., LaBean, T., Reif, J. H. & Seeman, N. C. Logical computation using algorithmic self-assembly of DNA triple crossover molecules. Nature 407, 493–496 (2000).

    CAS  Article  Google Scholar 

  13. Zheng, J. et al. 2D nanoparticle arrays show the organizational power of robust DNA motifs. Nano Lett. 6, 1502–1504 (2006).

    CAS  Article  Google Scholar 

  14. Ke, Y., Lindsay, S., Chang, Y., Liu, Y. & Yan, H. Self-assembled water-soluble nucleic acid probe molecules for label-free RNA hybridization. Science 319, 180–183 (2008).

    CAS  Article  Google Scholar 

Download references

Acknowledgements

We are grateful to A. Carbone, H. Yan, N. Jonoska and C. Mao for comments on this manuscript. This research has been supported by grants to N.C.S. from the National Institute of General Medical Sciences, the National Science Foundation, the Army Research Office, the NYNBIT program of the Department of Energy and the W.M. Keck Foundation and to S.J.X. from the National Basic Research Program of China (no. 2007CB925101) and NSFC (no. 20721002). J.C. thanks the Chinese Scholarship Council for a research fellowship.

Author information

Authors and Affiliations

Authors

Supplementary information

Supplementary Information

Supplementary Information (PDF 3839 kb)

Rights and permissions

Reprints and Permissions

About this article

Cite this article

Gu, H., Chao, J., Xiao, SJ. et al. Dynamic patterning programmed by DNA tiles captured on a DNA origami substrate. Nature Nanotech 4, 245–248 (2009). https://doi.org/10.1038/nnano.2009.5

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1038/nnano.2009.5

Further reading

Search

Quick links

Find nanotechnology articles, nanomaterial data and patents all in one place. Visit Nano by Nature Research