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

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

Published on: October 31, 2013

Direct force measurements on double-stranded RNA in solid-state nanopores.

Michiel van den Hout¹, Igor D Vilfan, Susanne Hage

¹Kavli Institute of Nanoscience, Faculty of Applied Sciences Delft University of Technology, Lorentzweg 1, 2628 CJ Delft. The Netherlands.

|January 7, 2010

Summary

This study introduces a novel nanopore-optical tweezers system for measuring forces on double-stranded RNA (dsRNA). The findings reveal how dsRNA force changes with nanopore size, offering new RNA research possibilities.

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Nanomanipulation of Single RNA Molecules by Optical Tweezers

Nanomanipulation of Single RNA Molecules by Optical Tweezers

Published on: August 20, 2014

Area of Science:

Biophysics
Molecular Biology
Nanotechnology

Background:

Solid-state nanopores enable single-molecule analysis via voltage-driven translocation.
Integrating optical tweezers enhances nanopore sensitivity and versatility for force measurements.

Purpose of the Study:

To demonstrate the first application of nanopore-optical tweezers for studying double-stranded RNA (dsRNA).
To measure the net force on individual dsRNA molecules across various nanopore sizes.
To compare the force on dsRNA with that on double-stranded DNA (dsDNA).

Main Methods:

Utilized a combined nanopore-optical tweezers system.
Translocated individual dsRNA molecules through nanopores ranging from 35 nm to 3.5 nm.
Measured the net force exerted on dsRNA during translocation.
Compared force measurements with dsDNA in identical nanopores.

Main Results:

The force on dsRNA decreases as nanopore size increases, consistent with numerical calculations.
Force measurements were independent of the distance between the optical trap and nanopore.
The force on dsRNA was found to be slightly lower than that on dsDNA.

Conclusions:

The nanopore-optical tweezers system is effective for probing dsRNA.
This technique expands possibilities for studying RNA structure, protein interactions, and molecular motor activity.
Potential applications include detecting RNA-bound proteins and analyzing RNA secondary structure.