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Fine-tuning the Size and Minimizing the Noise of Solid-state Nanopores

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Published on: October 31, 2013

Identifying Structure in Short DNA Scaffolds Using Solid-State Nanopores.

Eric Beamish¹, Vincent Tabard-Cossa¹, Michel Godin¹

¹Department of Physics, ‡Department of Mechanical Engineering, and §Ottawa-Carleton Institute for Biomedical Engineering, University of Ottawa , Ottawa, Ontario K1N 6N5, Canada.

|November 29, 2017

Summary

This summary is machine-generated.

This study uses DNA origami and solid-state nanopores to detect molecular substructure, enabling the identification of specific DNA sequences and even small molecules like ATP.

Keywords:

DNA displacement DNA origami molecular substructure identification small molecule detection solid-state nanopore

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Area of Science:

Bionanotechnology
Molecular Biology
Nanotechnology

Background:

Molecular tag identification is crucial for bionanotechnology, disease biomarker detection, and DNA sequencing.
Solid-state nanopores offer electrical detection of molecular substructure and integration into portable sensors.

Purpose of the Study:

To develop a DNA origami-based molecular assembly technique for solid-state nanopores.
To demonstrate the capability of differentiating DNA scaffolds with varying numbers of dsDNA protrusions.
To detect small molecules, such as ATP, indirectly by sensing DNA structural changes.

Main Methods:

Utilizing DNA origami for precise molecular assembly around solid-state nanopores.
Electrically detecting molecular substructure along DNA scaffolds of different lengths (165 bp and 255 bp).
Employing an aptamer-based DNA displacement reaction for ATP detection via scaffold modification.

Main Results:

Successfully differentiated 165 bp DNA scaffolds with zero, one, or two dsDNA protrusions using solid-state nanopores.
Demonstrated a proof-of-concept for detecting ATP by observing the formation of a dsDNA protrusion on a 255 bp scaffold.

Conclusions:

The DNA origami approach provides a scalable and customizable method for molecular detection using solid-state nanopores.
This technique overcomes limitations of directly sensing small molecules like ATP, expanding nanopore sensing capabilities.