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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.
Kundrod, Kathryn A; Natoli, Mary E; Chang, Megan M; Smith, Chelsey A; Paul, Sai; Ogoe, Dereq; Goh, Christopher; Santhanaraj, Akshaya; Price, Anthony; Eldin, Karen W; Patel, Keyur P; Baker, Ellen; Schmeler, Kathleen M; Richards-Kortum, Rebecca.
  • Kundrod KA; Department of Bioengineering, Rice University, Houston, Texas, United States of America.
  • Natoli ME; Department of Bioengineering, Rice University, Houston, Texas, United States of America.
  • Chang MM; Department of Bioengineering, Rice University, Houston, Texas, United States of America.
  • Smith CA; Department of Bioengineering, Rice University, Houston, Texas, United States of America.
  • Paul S; Department of Bioengineering, Rice University, Houston, Texas, United States of America.
  • Ogoe D; Rice 360° Institute of Global Health, Rice University, Houston, Texas, United States of America.
  • Goh C; Rice 360° Institute of Global Health, Rice University, Houston, Texas, United States of America.
  • Santhanaraj A; Rice 360° Institute of Global Health, Rice University, Houston, Texas, United States of America.
  • Price A; Department of Gynecologic Oncology and Reproductive Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
  • Eldin KW; McGovern Medical School, The University of Texas Health Science Center, Houston, Texas, United States of America.
  • Patel KP; Department of Hematopathology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
  • Baker E; Department of Gynecologic Oncology and Reproductive Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
  • Schmeler KM; Department of Gynecologic Oncology and Reproductive Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
  • Richards-Kortum R; Department of Bioengineering, Rice University, Houston, Texas, United States of America.
PLoS One ; 17(2): e0264130, 2022.
Article in English | MEDLINE | ID: covidwho-1910538
ABSTRACT
The 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.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: Saliva / Nasopharynx / Nose / Population Surveillance / COVID-19 Testing / SARS-CoV-2 / COVID-19 Type of study: Cohort study / Diagnostic study / Observational study / Prognostic study Limits: Humans Language: English Journal: PLoS One Journal subject: Science / Medicine Year: 2022 Document Type: Article Affiliation country: Journal.pone.0264130

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Full text: Available Collection: International databases Database: MEDLINE Main subject: Saliva / Nasopharynx / Nose / Population Surveillance / COVID-19 Testing / SARS-CoV-2 / COVID-19 Type of study: Cohort study / Diagnostic study / Observational study / Prognostic study Limits: Humans Language: English Journal: PLoS One Journal subject: Science / Medicine Year: 2022 Document Type: Article Affiliation country: Journal.pone.0264130