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Regulating DNA Self-Assembly Dynamics with Controlled Nucleation.

Shuoxing Jiang1, Nibedita Pal2, Fan Hong1

  • 1Center for Molecular Design and Biomimetics at the Biodesign Institute, and School of Molecular Sciences, Arizona State University, Tempe, Arizona 85287, United States.

ACS Nano
|March 11, 2021
PubMed
Summary
This summary is machine-generated.

Researchers engineered a DNA tile system to control self-assembly nucleation. They identified three nucleation modes and developed a method to precisely control assembly timing and location using a DNA origami frame and UV trigger.

Keywords:
DNA origamidynamic DNA nanotechnologymolecular templatenucleationtriggered growth

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Area of Science:

  • Biomolecular Engineering
  • Nanotechnology
  • Materials Science

Background:

  • Controlling nucleation is key for complex self-assembly.
  • DNA tile systems offer programmable self-assembly capabilities.
  • Understanding nucleation dynamics is crucial for precise structural engineering.

Purpose of the Study:

  • To investigate the dynamics of unseeded, facet, and seeded nucleation in DNA tile self-assembly.
  • To develop a model system for studying and controlling nucleation pathways.
  • To demonstrate external control over the timing and location of DNA tile nucleation.

Main Methods:

  • Designed a 'frame-filling' DNA tile and DNA origami frame model system.
  • Utilized kinetic simulations to determine optimal temperature ranges for nucleation mode differentiation.
  • Employed Mg2+-triggered kinetic measurements and single-molecule observations to monitor tile polymerization.
  • Developed a 'nucleation-growth' model to quantify nucleation tendency.
  • Integrated an ultraviolet (UV)-responsive trigger into the DNA origami frame.

Main Results:

  • Successfully differentiated and monitored three distinct nucleation modes (unseeded, facet, seeded).
  • Quantified nucleation tendency using an empirical nucleation number within a nucleation-growth model.
  • Demonstrated external control over nucleation timing and location using a UV-responsive DNA origami frame.
  • Correlated temperature-dependent kinetics across all three nucleation modes.

Conclusions:

  • Revealed the dynamic mechanisms underlying different nucleation modes in DNA tile self-assembly.
  • Provided a general strategy for externally controlling DNA tile self-assembly nucleation.
  • The developed system offers precise control over structural complexity and dynamic behaviors in nanomaterials.