About: Screening for SARS-CoV-2 infections with colorimetric RT-LAMP and LAMP sequencing

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An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Screening for SARS-CoV-2 infections with colorimetric RT-LAMP and LAMP sequencing
Creator	Kräusslich, Hans-Georg Schnitzler, Paul Chlanda, Petr Freistaedter, Andrew Anders, Simon Barreto Miranda, Isabel Boerner, Kathleen Dao, Viet Galmozzi, Carla Herbst, Konrad Khalid, Dina Kirrmaier, Daniel Klein, Steffen Knop, Michael Meurer, Matthias Papagiannidis, Dimitrios Pm Kremer, Lukas
Source	MedRxiv
abstract	The SARS-CoV-2 (COVID-19) pandemic poses a significant public-health problem. In order to control the pandemic, rapid tests for detecting existing infections and assessing virus spread are critical. Approaches to detect viral RNA based on reverse transcription loop-mediated isothermal amplification (RT-LAMP) hold outstanding promise towards greatly simplified and broadly applicable testing methods. RT-LAMP assays appear more robust than qPCR-based methods and only require incubation at a constant temperature, thus eliminating the need for sophisticated instrumentation. Here, we tested a two-color RT-LAMP protocol using clinical SARS-CoV-2 samples and also established a protocol that does not require prior RNA isolation (%22swab-to-RT-LAMP%22). Our study is based on several hundred clinical patient samples with a wide range of viral loads, thus allowing, for the first time, to accurately determine the sensitivity and specificity of the RT-LAMP assay for the detection of SARS-CoV-2 in patients. We found that RT-LAMP can reliably detect SARS-CoV-2 samples with a qPCR threshold cycle number (CT value) of up to 30 in the standard RT-qPCR assay. We used both, either purified RNA or direct pharyngeal swab specimens and showed that RT-LAMP assays have, despite a decreased sensitivity compared to RT-qPCR, excellent specificity. We also developed a multiplexed LAMP-sequencing protocol as a validation and backup procedure to double-check the results of visual RT-LAMP assays. LAMP-sequencing is fully scalable and can assess the results of thousands of LAMP reactions in parallel. We propose decentralised COVID-19 testing as a routine to allow facilities and institutions to return to near-to-full functionality.
has issue date	2020-05-09(xsd:dateTime)
bibo:doi	10.1101/2020.05.05.20092288
has license	medrxiv
sha1sum (hex)	fb77d8f63128f0c6522e2fe1f76c9cc76df7a73b
schema:url	https://doi.org/10.1101/2020.05.05.20092288
resource representing a document's title	Screening for SARS-CoV-2 infections with colorimetric RT-LAMP and LAMP sequencing
resource representing a document's body	covid:fb77d8f63128f0c6522e2fe1f76c9cc76df7a73b#body_text
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