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Streamlined inactivation, amplification, and Cas13-based detection of SARS-CoV-2.
Arizti-Sanz, Jon; Freije, Catherine A; Stanton, Alexandra C; Petros, Brittany A; Boehm, Chloe K; Siddiqui, Sameed; Shaw, Bennett M; Adams, Gordon; Kosoko-Thoroddsen, Tinna-Solveig F; Kemball, Molly E; Uwanibe, Jessica N; Ajogbasile, Fehintola V; Eromon, Philomena E; Gross, Robin; Wronka, Loni; Caviness, Katie; Hensley, Lisa E; Bergman, Nicholas H; MacInnis, Bronwyn L; Happi, Christian T; Lemieux, Jacob E; Sabeti, Pardis C; Myhrvold, Cameron.
  • Arizti-Sanz J; Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, 02142, USA.
  • Freije CA; Harvard-MIT Program in Health Sciences and Technology, 77 Massachusetts Avenue, Cambridge, MA, 02139, USA.
  • Stanton AC; Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, 02142, USA.
  • Petros BA; Program in Virology, Harvard Medical School, Boston, MA, 02115, USA.
  • Boehm CK; Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, 02142, USA.
  • Siddiqui S; Program in Virology, Harvard Medical School, Boston, MA, 02115, USA.
  • Shaw BM; Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, 02142, USA.
  • Adams G; Harvard-MIT Program in Health Sciences and Technology, 77 Massachusetts Avenue, Cambridge, MA, 02139, USA.
  • Kosoko-Thoroddsen TF; Harvard/MIT MD-PhD Program, Boston, MA, 02139, USA.
  • Kemball ME; Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, 02142, USA.
  • Uwanibe JN; Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, 02142, USA.
  • Ajogbasile FV; Computational and Systems Biology PhD Program, MIT, Cambridge, MA, 02139, USA.
  • Eromon PE; Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, 02142, USA.
  • Gross R; Division of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, 55 Fruit Street Gray 730, Boston, MA, 02114, USA.
  • Wronka L; Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, 02142, USA.
  • Caviness K; Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, 02142, USA.
  • Hensley LE; Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, 02142, USA.
  • Bergman NH; African Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
  • MacInnis BL; Department of Biological Sciences, College of Natural Sciences, Redeemer's University, Ede, Osun State, Nigeria.
  • Happi CT; African Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
  • Lemieux JE; Department of Biological Sciences, College of Natural Sciences, Redeemer's University, Ede, Osun State, Nigeria.
  • Sabeti PC; African Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
  • Myhrvold C; Integrated Research Facility, Division of Clinical Research, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Frederick, MD, 21702, USA.
Nat Commun ; 11(1): 5921, 2020 11 20.
Article in English | MEDLINE | ID: covidwho-939436
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.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: Molecular Diagnostic Techniques / CRISPR-Associated Proteins / Betacoronavirus Type of study: Diagnostic study / Prognostic study Limits: Humans Language: English Journal: Nat Commun Journal subject: Biology / Science Year: 2020 Document Type: Article Affiliation country: S41467-020-19097-x

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Full text: Available Collection: International databases Database: MEDLINE Main subject: Molecular Diagnostic Techniques / CRISPR-Associated Proteins / Betacoronavirus Type of study: Diagnostic study / Prognostic study Limits: Humans Language: English Journal: Nat Commun Journal subject: Biology / Science Year: 2020 Document Type: Article Affiliation country: S41467-020-19097-x