The DOI matches its Crossref record; 43 of the 43 references it cites were found in a registry or an index.
Remote Toehold: A Mechanism for Flexible Control of DNA Hybridization Kinetics
Abstract
Hybridization of DNA strands can be used to build molecular devices, and control of the kinetics of DNA hybridization is a crucial element in the design and construction of functional and autonomous devices. Toehold-mediated strand displacement has proved to be a powerful mechanism that allows programmable control of DNA hybridization. So far, attempts to control hybridization kinetics have mainly focused on the length and binding strength of toehold sequences. Here we show that insertion of a spacer between the toehold and displacement domains provides additional control: modulation of the nature and length of the spacer can be used to control strand-displacement rates over at least 3 orders of magnitude. We apply this mechanism to operate displacement reactions in potentially useful kinetic regimes: the kinetic proofreading and concentration-robust regimes.
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Cites
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Folding DNA to create nanoscale shapes and patterns
Rothemund, P. W. K. (2006) · Nature · doi:10.1038/nature04586 · Cited by 7,354
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Self-citationEnergy transfer: a spectroscopic ruler.
Stryer, L., & Haugland, R. P. (1967) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.58.2.719 · Cited by 1,957
NUPACK: Analysis and design of nucleic acid systems
Zadeh, J. N., Steenberg, C. D., Bois, J. S., Wolfe, B. R., Pierce, M. B., Khan, A. R., Dirks, R. M., & Pierce, N. A. (2011) · Journal of Computational Chemistry · doi:10.1002/jcc.21596 · Cited by 1,670
Self-assembly of a nanoscale DNA box with a controllable lid
Andersen, E. S., Dong, M., Nielsen, M. M., Jahn, K., Subramani, R., Mamdouh, W., Golas, M. M., Sander, B., Stark, H., Oliveira, C. L. P., et al. (2009) · Nature · doi:10.1038/nature07971 · Cited by 1,627
Programming biomolecular self-assembly pathways
Yin, P., Choi, H. M. T., Calvert, C. R., & Pierce, N. A. (2008) · Nature · doi:10.1038/nature06451 · Cited by 1,600
Enzyme-Free Nucleic Acid Logic Circuits
Seelig, G., Soloveichik, D., Zhang, D. Y., & Winfree, E. (2006) · Science · doi:10.1126/science.1132493 · Cited by 1,540
Self-citationControl of DNA Strand Displacement Kinetics Using Toehold Exchange
Zhang, D. Y., & Winfree, E. (2009) · Journal of the American Chemical Society · doi:10.1021/ja906987s · Cited by 1,444
Self-citationEngineering Entropy-Driven Reactions and Networks Catalyzed by DNA
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Cited by
Principles and Applications of Nucleic Acid Strand Displacement Reactions
Simmel, F. C., Yurke, B., & Singh, H. R. (2019) · Chemical Reviews · doi:10.1021/acs.chemrev.8b00580 · Cited by 792
On the biophysics and kinetics of toehold-mediated DNA strand displacement
Srinivas, N., Ouldridge, T. E., Šulc, P., Schaeffer, J. M., Yurke, B., Louis, A. A., Doye, J. P. K., & Winfree, E. (2013) · Nucleic Acids Research · doi:10.1093/nar/gkt801 · Cited by 506
A spatially localized architecture for fast and modular DNA computing
Chatterjee, G., Dalchau, N., Muscat, R. A., Phillips, A., & Seelig, G. (2017) · Nature Nanotechnology · doi:10.1038/nnano.2017.127 · Cited by 353
Metadata
- Authors
- Genot, A. J., Zhang, D. Y., Bath, J., & Turberfield, A. J.
- Venue
- Journal of the American Chemical Society
- Publisher
- American Chemical Society (ACS)
- Published
- 2011-01-26
- Volume
- 133
- Issue
- 7
- Pages
- 2177-2182
- ISSN
- 0002-7863 (ISSN-L)
- 1520-5126
- OpenAlex
- W2019682748
- Cited by
- 298
- References
- 43
- FWCI
- 7.64
- Type
- journal article
- Language
- en
- Open access
- closed
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