Optimisation of microfluidic polymerase chain reaction devices

The invention and development of Polymerase Chain Reaction (PCR) technology have revolutionised molecular biology and molecular diagnostics. There is an urgent need to optimise the performance of these devices while reducing the total construction and operation costs. This study proposes a CFD-enabl...

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Autores principales:	Zagklavara Foteini, Jimack Peter K., Kapur Nikil, Querin Osvaldo M., Thompson Harvey M.
Formato:	article
Lenguaje:	EN FR
Publicado:	EDP Sciences 2021
Materias:	Environmental sciences GE1-350
Acceso en línea:	https://doaj.org/article/624d215e58ab4f54a47a7fbf69590fab
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spelling	oai:doaj.org-article:624d215e58ab4f54a47a7fbf69590fab2021-11-12T11:44:34ZOptimisation of microfluidic polymerase chain reaction devices2267-124210.1051/e3sconf/202132101007https://doaj.org/article/624d215e58ab4f54a47a7fbf69590fab2021-01-01T00:00:00Zhttps://www.e3s-conferences.org/articles/e3sconf/pdf/2021/97/e3sconf_icchmt2021_01007.pdfhttps://doaj.org/toc/2267-1242The invention and development of Polymerase Chain Reaction (PCR) technology have revolutionised molecular biology and molecular diagnostics. There is an urgent need to optimise the performance of these devices while reducing the total construction and operation costs. This study proposes a CFD-enabled optimisation methodology for continuous flow (CF) PCR devices with serpentine-channel structure, which enables the optimisation of DNA amplification efficiency and pressure drop to be explored while varying the width (W) and height (H) of the microfluidic (μ) channel. This is achieved by using a surrogate-enabled optimisation approach accounting for the geometrical features of a μCFPCR device by performing a series of simulations using COMSOL Multiphysics 5.4®. The values of the objectives are extracted from the CFD solutions, and the response surfaces are created using polyharmonic splines. Genetic algorithms are then used to locate the optimum design parameters. The results indicate that there is the possibility of improving the DNA concentration and the pressure drop in a PCR cycle by ~2.1 % ([W, H] = [400 μm, 50 μm]) and ~95.2 % ([W, H] = [400 μm, 80 μm]) respectively, by modifying its geometry.Zagklavara FoteiniJimack Peter K.Kapur NikilQuerin Osvaldo M.Thompson Harvey M.EDP SciencesarticleEnvironmental sciencesGE1-350ENFRE3S Web of Conferences, Vol 321, p 01007 (2021)
institution	DOAJ
collection	DOAJ
language	EN FR
topic	Environmental sciences GE1-350
spellingShingle	Environmental sciences GE1-350 Zagklavara Foteini Jimack Peter K. Kapur Nikil Querin Osvaldo M. Thompson Harvey M. Optimisation of microfluidic polymerase chain reaction devices
description	The invention and development of Polymerase Chain Reaction (PCR) technology have revolutionised molecular biology and molecular diagnostics. There is an urgent need to optimise the performance of these devices while reducing the total construction and operation costs. This study proposes a CFD-enabled optimisation methodology for continuous flow (CF) PCR devices with serpentine-channel structure, which enables the optimisation of DNA amplification efficiency and pressure drop to be explored while varying the width (W) and height (H) of the microfluidic (μ) channel. This is achieved by using a surrogate-enabled optimisation approach accounting for the geometrical features of a μCFPCR device by performing a series of simulations using COMSOL Multiphysics 5.4®. The values of the objectives are extracted from the CFD solutions, and the response surfaces are created using polyharmonic splines. Genetic algorithms are then used to locate the optimum design parameters. The results indicate that there is the possibility of improving the DNA concentration and the pressure drop in a PCR cycle by ~2.1 % ([W, H] = [400 μm, 50 μm]) and ~95.2 % ([W, H] = [400 μm, 80 μm]) respectively, by modifying its geometry.
format	article
author	Zagklavara Foteini Jimack Peter K. Kapur Nikil Querin Osvaldo M. Thompson Harvey M.
author_facet	Zagklavara Foteini Jimack Peter K. Kapur Nikil Querin Osvaldo M. Thompson Harvey M.
author_sort	Zagklavara Foteini
title	Optimisation of microfluidic polymerase chain reaction devices
title_short	Optimisation of microfluidic polymerase chain reaction devices
title_full	Optimisation of microfluidic polymerase chain reaction devices
title_fullStr	Optimisation of microfluidic polymerase chain reaction devices
title_full_unstemmed	Optimisation of microfluidic polymerase chain reaction devices
title_sort	optimisation of microfluidic polymerase chain reaction devices
publisher	EDP Sciences
publishDate	2021
url	https://doaj.org/article/624d215e58ab4f54a47a7fbf69590fab
work_keys_str_mv	AT zagklavarafoteini optimisationofmicrofluidicpolymerasechainreactiondevices AT jimackpeterk optimisationofmicrofluidicpolymerasechainreactiondevices AT kapurnikil optimisationofmicrofluidicpolymerasechainreactiondevices AT querinosvaldom optimisationofmicrofluidicpolymerasechainreactiondevices AT thompsonharveym optimisationofmicrofluidicpolymerasechainreactiondevices
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Optimisation of microfluidic polymerase chain reaction devices

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