Preprint Article Version 1 Preserved in Portico This version is not peer-reviewed

A Miniaturized System for Rapid, Isothermal Detection of SARS-CoV-2 in Human and Environmental Samples

Jake Staples
,
Athanasia-Maria Dourou
ORCID logo ,
Irene Liampa
,
Calvin Sjaarda
,
Emily Moslinger
,
Henry Wong
,
Prameet Sheth
,
Stilianos Arhondakis
ORCID logo ,
Ravi Prakash
* ORCID logo
Version 1 : Received: 15 June 2023 / Approved: 16 June 2023 / Online: 16 June 2023 (12:02:22 CEST)

A peer-reviewed article of this Preprint also exists.

Staples, J.; Dourou, A.-M.; Liampa, I.; Sjaarda, C.; Moslinger, E.; Wong, H.; Sheth, P.M.; Arhondakis, S.; Prakash, R. A Miniaturized System for Rapid, Isothermal Detection of SARS-CoV-2 in Human and Environmental Samples. Biomedicines 2023, 11, 2038. Staples, J.; Dourou, A.-M.; Liampa, I.; Sjaarda, C.; Moslinger, E.; Wong, H.; Sheth, P.M.; Arhondakis, S.; Prakash, R. A Miniaturized System for Rapid, Isothermal Detection of SARS-CoV-2 in Human and Environmental Samples. Biomedicines 2023, 11, 2038.

Abstract

We report a small footprint cost-effective isothermal rapid DNA amplification system, with integrated microfluidics for automated sample analysis and detection of SARS-CoV-2 in human and environmental samples. Our system measures low-level fluorescent signal in real-time during amplification, while maintaining the desired assay temperature, on a low power, portable system footprint. A unique soft microfluidic chip design was implemented to mitigate thermocapillary effects and facilitate optical alignment for automated image capture and signal analysis. The system-on-board prototype coupled with the LAMP primers designed by BioCoS, is sensitive enough to detect viral loads of SARS-CoV-2 in a broad concentration range corresponding to a threshold cycle range of 16 to 39. Clinical specimens were tested at Kingston Health Sciences using a clinically validated PCR assay and variants were determined using whole genome sequencing.

Keywords

loop-mediated isothermal amplification (LAMP); soft microfluidic chip; Nucleic Acid Tests; severe acute respiratory syndrome-coronavirus 2 (SARS-Cov-2); System-on-board Integrated Detector

Subject

Engineering, Bioengineering

Copyright: This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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