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Design and Synthesis of a Reconfigurable DNA Accordion Rack

Design and Synthesis of a Reconfigurable DNA Accordion Rack

Published on: August 15, 2018

Assembling programmable FRET-based photonic networks using designer DNA scaffolds.

Susan Buckhout-White¹, Christopher M Spillmann², W Russ Algar³

¹1] Center for Bio/Molecular Science and Engineering, Code 6900, U.S. Naval Research Laboratory, 4555 Overlook Avenue, South West, Washington DC, Washington 20375, USA [2] College of Science, George Mason University, 4400 University Drive, Fairfax, Virginia 22030, USA.

Nature Communications

|December 16, 2014

Summary

DNA nanostructures efficiently channel energy using multiple dye arrangements. Optimized designs with shorter distances and multiple pathways significantly boost energy transfer efficiency in nanoantennae.

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Area of Science:

Nanotechnology
Biophysics
Materials Science

Background:

DNA's capability in creating designer nanostructures and devices is expanding.
Förster resonance energy transfer (FRET) is increasingly utilized in DNA-based devices for functionality and characterization.
Growing device complexity necessitates enhanced FRET performance.

Purpose of the Study:

To create and assess multi-dye FRET cascades within DNA nanoantennae.
To evaluate how DNA can effectively marshal organic dyes for focused excitonic energy transfer.
To optimize FRET efficiency by systematically varying design complexity and fluorophore spacing.

Main Methods:

Construction of 36 DNA nanostructures with varying complexity (linear, bifurcated, Holliday junction, 8-arm star, dendrimers).
Incorporation of up to five different organic dyes for four-consecutive FRET steps.
Systematic variation of fluorophore spacing relative to the Förster distance (R0).
Utilized Förster modeling to analyze energy transfer pathways.

Main Results:

Decreasing R0 and increasing collection area with multiple donors enhanced terminal exciton delivery efficiency.
Dendrimer structures showed significantly improved efficiency compared to initial linear constructs.
Multiple interacting FRET pathways yielded better results than independent channels.

Conclusions:

DNA nanoantennae can be engineered to efficiently focus excitonic energy through multi-dye FRET cascades.
Optimized design parameters, including fluorophore spacing and pathway multiplicity, are crucial for maximizing energy transfer efficiency.
Complex DNA nanostructures offer a powerful platform for advanced photonic and energy transfer applications.