IDEAS home Printed from https://ideas.repec.org/a/nat/natcom/v11y2020i1d10.1038_s41467-020-19097-x.html
   My bibliography  Save this article

Streamlined inactivation, amplification, and Cas13-based detection of SARS-CoV-2

Author

Listed:
  • Jon Arizti-Sanz

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard
    Harvard-MIT Program in Health Sciences and Technology)

  • Catherine A. Freije

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard
    Harvard Medical School)

  • Alexandra C. Stanton

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard
    Harvard Medical School)

  • Brittany A. Petros

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard
    Harvard-MIT Program in Health Sciences and Technology
    Harvard/MIT MD-PhD Program)

  • Chloe K. Boehm

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard)

  • Sameed Siddiqui

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard
    MIT)

  • Bennett M. Shaw

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard
    Massachusetts General Hospital)

  • Gordon Adams

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard)

  • Tinna-Solveig F. Kosoko-Thoroddsen

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard)

  • Molly E. Kemball

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard)

  • Jessica N. Uwanibe

    (Redeemer’s University
    Redeemer’s University)

  • Fehintola V. Ajogbasile

    (Redeemer’s University
    Redeemer’s University)

  • Philomena E. Eromon

    (Redeemer’s University)

  • Robin Gross

    (National Institute of Allergy and Infectious Diseases, National Institutes of Health)

  • Loni Wronka

    (National Biodefense Analysis and Countermeasures Center)

  • Katie Caviness

    (National Biodefense Analysis and Countermeasures Center)

  • Lisa E. Hensley

    (National Institute of Allergy and Infectious Diseases, National Institutes of Health)

  • Nicholas H. Bergman

    (National Biodefense Analysis and Countermeasures Center)

  • Bronwyn L. MacInnis

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard
    Harvard T.H. Chan School of Public Health)

  • Christian T. Happi

    (Redeemer’s University
    Redeemer’s University
    Harvard T.H. Chan School of Public Health)

  • Jacob E. Lemieux

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard
    Massachusetts General Hospital)

  • Pardis C. Sabeti

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard
    Harvard T.H. Chan School of Public Health
    Harvard University
    Howard Hughes Medical Institute)

  • Cameron Myhrvold

    (Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard
    Harvard University
    Massachusetts Consortium on Pathogen Readiness
    Princeton University)

Abstract

The COVID-19 pandemic has highlighted that new diagnostic technologies are essential for controlling disease transmission. Here, we develop SHINE (Streamlined Highlighting of Infections to Navigate Epidemics), a sensitive and specific diagnostic tool that can detect SARS-CoV-2 RNA from unextracted samples. We identify the optimal conditions to allow RPA-based amplification and Cas13-based detection to occur in a single step, simplifying assay preparation and reducing run-time. We improve HUDSON to rapidly inactivate viruses in nasopharyngeal swabs and saliva in 10 min. SHINE’s results can be visualized with an in-tube fluorescent readout — reducing contamination risk as amplification reaction tubes remain sealed — and interpreted by a companion smartphone application. We validate SHINE on 50 nasopharyngeal patient samples, demonstrating 90% sensitivity and 100% specificity compared to RT-qPCR with a sample-to-answer time of 50 min. SHINE has the potential to be used outside of hospitals and clinical laboratories, greatly enhancing diagnostic capabilities.

Suggested Citation

  • Jon Arizti-Sanz & Catherine A. Freije & Alexandra C. Stanton & Brittany A. Petros & Chloe K. Boehm & Sameed Siddiqui & Bennett M. Shaw & Gordon Adams & Tinna-Solveig F. Kosoko-Thoroddsen & Molly E. Ke, 2020. "Streamlined inactivation, amplification, and Cas13-based detection of SARS-CoV-2," Nature Communications, Nature, vol. 11(1), pages 1-9, December.
    • Handle: RePEc:nat:natcom:v:11:y:2020:i:1:d:10.1038_s41467-020-19097-x
    DOI: 10.1038/s41467-020-19097-x
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/s41467-020-19097-x
    File Function: Abstract
    Download Restriction: no
    File URL: https://libkey.io/10.1038/s41467-020-19097-x?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:natcom:v:11:y:2020:i:1:d:10.1038_s41467-020-19097-x. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    We have no bibliographic references for this item. You can help adding them by using this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.