Nanoscale “Curtain Rods”: High-Throughput Tools For Studying DNA-Protein Interactions

Abstract

In this work, we combine nanoscale engineering with single-molecule biology to probe the biochemical interactions between individual proteins and DNA. This approach, a vast improvement over previous methods, constructs a platform to observe thousands of protein-DNA interactions in real time with unprecedented detail. A key challenge in these experiments involves collecting enough statistically relevant data in order to analyze reactions which are designed to be probed individually. “DNA curtains” are formed by flowing the DNA tethered to a lipid bilayer across nanopatterned barriers, facilitating massively parallel data acquisition.

This is a preview of subscription content, access via your institution.

References

  1. 1.

    A. Graneli, C. Yeykal, R.B. Robertson, & E.C. Greene, Proceedings of the National Academy of Sciences, USA 103, 1221–1226 (2006).

    CAS  Article  Google Scholar 

  2. 2.

    J. Gorman, A. Chowdhury, J.A. Surtees, J. Shimada, D.R. Reichman, E. Alani, & E.C. Greene, Mol Cell 28, 359–370 (2007).

    CAS  Article  Google Scholar 

  3. 3.

    A. Graneli, C. Yeykal, T.K. Prasad, & E.C. Greene, Langmuir 22, 292–299 (2006).

    CAS  Article  Google Scholar 

  4. 4.

    C. C. Yeykal, E.C. Greene, Cell Cycle 5 (10), 1033–1038 (2006).

    CAS  Article  Google Scholar 

  5. 5.

    E. Sackmann, Science 271, 43–48 (1996).

    CAS  Article  Google Scholar 

  6. 6.

    P. S. Cremer, & S.G. Boxer, J. Phys. Chem. B 103, 2554–2559 (1999).

    CAS  Article  Google Scholar 

  7. 7.

    T. A. Fazio, M.L. Visnapuu, S.J. Wind, and E.C. Greene, Langmuir 24 (18), 10524–10531 (2008).

    CAS  Article  Google Scholar 

  8. 8.

    M. L. Visnapuu, T.A. Fazio, S.J. Wind, E.C. Greene, Langmuir 24 (19), 11293–11299 (2008).

    CAS  Article  Google Scholar 

  9. 9.

    Avanti . Polar Lipids.

  10. 10.

    J. Tsai, E. Sun, Y. Gao, J. C. Hone, and L.C. Kam, Nano Letters 8 (2), 425–430 (2008).

    CAS  Article  Google Scholar 

Download references

Author information

Affiliations

Authors

Corresponding author

Correspondence to A. Fazio Teresa.

Rights and permissions

Reprints and Permissions

About this article

Cite this article

Teresa, A.F., Visnapuu, ML., Shalom, J.W. et al. Nanoscale “Curtain Rods”: High-Throughput Tools For Studying DNA-Protein Interactions. MRS Online Proceedings Library 1138, 803 (2008). https://doi.org/10.1557/PROC-1138-FF08-03

Download citation