Comparative evaluation of 19 reverse transcription loop-mediated isothermal amplification assays for detection of SARS-CoV-2

Abstract Coronavirus disease 2019 (COVID-19) caused by SARS-CoV-2 has caused a global pandemics. To facilitate the detection of SARS-CoV-2 infection, various RT-LAMP assays using 19 sets of primers had been developed, but never been compared. We performed comparative evaluation of the 19 sets of pri...

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Autores principales:	Yajuan Dong, Xiuming Wu, Shenwei Li, Renfei Lu, Yingxue Li, Zhenzhou Wan, Jianru Qin, Guoying Yu, Xia Jin, Chiyu Zhang
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/0f6ac97a74bd4c4ab10af69a7a6331d7
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spelling	oai:doaj.org-article:0f6ac97a74bd4c4ab10af69a7a6331d72021-12-02T14:06:55ZComparative evaluation of 19 reverse transcription loop-mediated isothermal amplification assays for detection of SARS-CoV-210.1038/s41598-020-80314-02045-2322https://doaj.org/article/0f6ac97a74bd4c4ab10af69a7a6331d72021-02-01T00:00:00Zhttps://doi.org/10.1038/s41598-020-80314-0https://doaj.org/toc/2045-2322Abstract Coronavirus disease 2019 (COVID-19) caused by SARS-CoV-2 has caused a global pandemics. To facilitate the detection of SARS-CoV-2 infection, various RT-LAMP assays using 19 sets of primers had been developed, but never been compared. We performed comparative evaluation of the 19 sets of primers using 4 RNA standards and 29 clinical samples from COVID-19 patients. Six of 15 sets of primers were firstly identified to have faster amplification when tested with four RNA standards, and were further subjected to parallel comparison with the remaining four primer sets using 29 clinical samples. Among these 10 primer sets, Set-4 had the highest positive detection rate of SARS-CoV-2 (82.8%), followed by Set-10, Set-11, and Set-13 and Set-17 (75.9%). Set-14 showed the fastest amplification speed (Tt value < 8.5 min), followed by Set-17 (Tt value < 12.5 min). Based on the overall detection performance, Set-4, Set-10, Set-11, Set-13, Set-14 and Set-17 that target Nsp3, S, S, E, N and N gene regions of SARS-CoV-2, respectively, were determined to be better than the other primer sets. Two RT-LAMP assays with the Set-4 primers in combination with any one of four other primer sets (Set-14, Set-10, Set-11, and Set-13) were recommended to be used in the COVID-19 surveillance.Yajuan DongXiuming WuShenwei LiRenfei LuYingxue LiZhenzhou WanJianru QinGuoying YuXia JinChiyu ZhangNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-11 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Yajuan Dong Xiuming Wu Shenwei Li Renfei Lu Yingxue Li Zhenzhou Wan Jianru Qin Guoying Yu Xia Jin Chiyu Zhang Comparative evaluation of 19 reverse transcription loop-mediated isothermal amplification assays for detection of SARS-CoV-2
description	Abstract Coronavirus disease 2019 (COVID-19) caused by SARS-CoV-2 has caused a global pandemics. To facilitate the detection of SARS-CoV-2 infection, various RT-LAMP assays using 19 sets of primers had been developed, but never been compared. We performed comparative evaluation of the 19 sets of primers using 4 RNA standards and 29 clinical samples from COVID-19 patients. Six of 15 sets of primers were firstly identified to have faster amplification when tested with four RNA standards, and were further subjected to parallel comparison with the remaining four primer sets using 29 clinical samples. Among these 10 primer sets, Set-4 had the highest positive detection rate of SARS-CoV-2 (82.8%), followed by Set-10, Set-11, and Set-13 and Set-17 (75.9%). Set-14 showed the fastest amplification speed (Tt value < 8.5 min), followed by Set-17 (Tt value < 12.5 min). Based on the overall detection performance, Set-4, Set-10, Set-11, Set-13, Set-14 and Set-17 that target Nsp3, S, S, E, N and N gene regions of SARS-CoV-2, respectively, were determined to be better than the other primer sets. Two RT-LAMP assays with the Set-4 primers in combination with any one of four other primer sets (Set-14, Set-10, Set-11, and Set-13) were recommended to be used in the COVID-19 surveillance.
format	article
author	Yajuan Dong Xiuming Wu Shenwei Li Renfei Lu Yingxue Li Zhenzhou Wan Jianru Qin Guoying Yu Xia Jin Chiyu Zhang
author_facet	Yajuan Dong Xiuming Wu Shenwei Li Renfei Lu Yingxue Li Zhenzhou Wan Jianru Qin Guoying Yu Xia Jin Chiyu Zhang
author_sort	Yajuan Dong
title	Comparative evaluation of 19 reverse transcription loop-mediated isothermal amplification assays for detection of SARS-CoV-2
title_short	Comparative evaluation of 19 reverse transcription loop-mediated isothermal amplification assays for detection of SARS-CoV-2
title_full	Comparative evaluation of 19 reverse transcription loop-mediated isothermal amplification assays for detection of SARS-CoV-2
title_fullStr	Comparative evaluation of 19 reverse transcription loop-mediated isothermal amplification assays for detection of SARS-CoV-2
title_full_unstemmed	Comparative evaluation of 19 reverse transcription loop-mediated isothermal amplification assays for detection of SARS-CoV-2
title_sort	comparative evaluation of 19 reverse transcription loop-mediated isothermal amplification assays for detection of sars-cov-2
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/0f6ac97a74bd4c4ab10af69a7a6331d7
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Comparative evaluation of 19 reverse transcription loop-mediated isothermal amplification assays for detection of SARS-CoV-2

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