ArticleNano letters2022
Simulations of DNA-Origami Self-Assembly Reveal Design-Dependent Nucleation Barriers.
Article in Nano letters, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- Bioproduction of ∼10 knt single-stranded DNA for constructing large DNA origami structures.Materials today. Bio · 2026Article
- Complex cooperativity in DNA origami revealed via design-dependent defectivity.Nucleic acids research · 2026Article
- Unraveling the Folding Dynamics of DNA Origami Structures.Small (Weinheim an der Bergstrasse, Germany) · 2025Article
- Article
- Design and Assembly of a Cargo-Agnostic Hollow Two-Lidded DNA Origami Box.ACS applied bio materials · 2025Article
- Kinetics and dynamics of oligonucleotide hybridization.Nature reviews. Chemistry · 2025Review
- Article
- Mechanism of DNA origami folding elucidated by mesoscopic simulations.Nature communications · 2024Article
- 3D RNA-scaffolded wireframe origami.Nature communications · 2023Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Nucleation is the rate-determining step in the kinetics of many self-assembly processes. However, the importance of nucleation in the kinetics of DNA-origami self-assembly, which involves both the binding of staple strands and the folding of the scaffold strand, is unclear. Here, using Monte Carlo simulations of a lattice model of DNA origami, we find that some, but not all, designs can have a nucleation barrier and that this barrier disappears at lower temperatures, rationalizing the success of isothermal assembly. We show that the height of the nucleation barrier depends primarily on the coaxial stacking of staples that are adjacent on the same helix, a parameter that can be modified with staple design. Creating a nucleation barrier to DNA-origami assembly could be useful in optimizing assembly times and yields, while eliminating the barrier may allow for fast molecular sensors that can assemble/disassemble without hysteresis in response to changes in the environment.
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