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An Ultrahigh-throughput Microfluidic Platform for Single-cell Genome Sequencing

An Ultrahigh-throughput Microfluidic Platform for Single-cell Genome Sequencing

Published on: May 23, 2018

A high-speed sequential liquid compartmentalization method for digital loop-mediated isothermal amplification in a

Riku Honda¹, Taketo Saruwatari¹, Daigo Natsuhara^2,3

¹Department of Mechanical Engineering, Toyohashi University of Technology, 1-1 Hibarigaoka, Tempaku-cho, Toyohashi, Aichi 441-8580, Japan. shibata@me.tut.ac.jp.

|August 6, 2025

Summary

This study introduces a high-throughput digital loop-mediated isothermal amplification (dLAMP) platform for precise nucleic acid quantification. The simple, pipette-operated microfluidic device offers robust performance for molecular diagnostics in diverse settings.

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Area of Science:

Biotechnology
Molecular Diagnostics
Microfluidics

Background:

Accurate nucleic acid quantification is vital for molecular diagnostics, especially in resource-limited settings.
Existing methods often require complex equipment and procedures.
There is a need for simple, robust, and high-throughput nucleic acid quantification technologies.

Purpose of the Study:

To develop and validate a high-throughput digital loop-mediated isothermal amplification (dLAMP) platform for absolute nucleic acid quantification.
To assess the device's performance in terms of compartmentalization, accuracy, and robustness.
To demonstrate its utility for point-of-care testing (POCT) applications.

Main Methods:

A polydimethylsiloxane (PDMS)-based microfluidic device with ten thousand nanoliter-scale reaction chambers was fabricated.
A simple, pipette-operated liquid compartmentalization strategy using fluorinated oil was employed.
Fluorescent loop-mediated isothermal amplification (LAMP) assays targeting *Salmonella* and cannabis DNA were performed.

Main Results:

The device achieved rapid (60 s) and uniform liquid compartmentalization (97% chambers filled, CV=0.07) without complex pre-treatments.
Strong correlations (R² > 0.98) were observed between estimated and true DNA concentrations, with minor underestimation requiring correction factors.
The platform successfully detected cannabis DNA in the presence of inhibitory humic acid, outperforming conventional LAMP.

Conclusions:

The pipette-operated dLAMP platform provides a scalable, simple, and high-throughput solution for accurate nucleic acid quantification.
Its robustness against inhibitors makes it suitable for point-of-care testing (POCT) in challenging environments.
This technology enhances molecular diagnostics capabilities, particularly in resource-limited settings.