Sample-to-answer, extraction-free, real-time RT-LAMP test for SARS-CoV-2 in nasopharyngeal, nasal, and saliva samples: Implications and use for surveillance testing

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dc.citation.articleNumbere0264130
dc.citation.issueNumber2
dc.citation.journalTitlePLoS ONE
dc.citation.volumeNumber17
dc.contributor.authorKundrod, Kathryn A.
dc.contributor.authorNatoli, Mary E.
dc.contributor.authorChang, Megan M.
dc.contributor.authorSmith, Chelsey A.
dc.contributor.authorPaul, Sai
dc.contributor.authorOgoe, Dereq
dc.contributor.authorGoh, Christopher
dc.contributor.authorSanthanaraj, Akshaya
dc.contributor.authorPrice, Anthony
dc.contributor.authorEldin, Karen W.
dc.contributor.authorPatel, Keyur P.
dc.contributor.authorBaker, Ellen
dc.contributor.authorSchmeler, Kathleen M.
dc.contributor.authorRichards-Kortum, Rebecca
dc.date.accessioned2022-03-17T15:47:55Z
dc.date.available2022-03-17T15:47:55Z
dc.date.issued2022
dc.description.abstractThe global COVID-19 pandemic has highlighted the need for rapid, accurate and accessible nucleic acid tests to enable timely identification of infected individuals. We optimized a sample-to-answer nucleic acid test for SARS-CoV-2 that provides results in <1 hour using inexpensive and readily available reagents. The test workflow includes a simple lysis and viral inactivation protocol followed by direct isothermal amplification of viral RNA using RT-LAMP. The assay was validated using two different instruments, a portable isothermal fluorimeter and a standard thermocycler. Results of the RT-LAMP assay were compared to traditional RT-qPCR for nasopharyngeal swabs, nasal swabs, and saliva collected from a cohort of patients hospitalized due to COVID-19. For all three sample types, positive agreement with RT-LAMP performed using the isothermal fluorimeter was 100% for samples with Ct <30 and 69–91% for samples with Ct <40. Following validation, the test was successfully scaled to test the saliva of up to 400 asymptomatic individuals per day as part of the campus surveillance program at Rice University. Successful development, validation, and scaling of this sample-to-answer, extraction-free real-time RT-LAMP test for SARS-CoV-2 adds a highly adaptable tool to efforts to control the COVID-19 pandemic, and can inform test development strategies for future infectious disease threats.
dc.identifier.citationKundrod, Kathryn A., Natoli, Mary E., Chang, Megan M., et al.. "Sample-to-answer, extraction-free, real-time RT-LAMP test for SARS-CoV-2 in nasopharyngeal, nasal, and saliva samples: Implications and use for surveillance testing." <i>PLoS ONE,</i> 17, no. 2 (2022) Public Library of Science: https://doi.org/10.1371/journal.pone.0264130.
dc.identifier.doihttps://doi.org/10.1371/journal.pone.0264130
dc.identifier.urihttps://hdl.handle.net/1911/112022
dc.language.isoeng
dc.publisherPublic Library of Science
dc.rightsThis is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/
dc.titleSample-to-answer, extraction-free, real-time RT-LAMP test for SARS-CoV-2 in nasopharyngeal, nasal, and saliva samples: Implications and use for surveillance testing
dc.typeJournal article
dc.type.dcmiText
dc.type.publicationpublisher version
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