Single-tube collection and nucleic acid analysis of clinical samples for SARS-CoV-2 saliva testing

• Published in: Scientific reports Vol. 12; no. 1; p. 3951
• Main Authors: Cole, Kyle H, Bouin, Alexis, Ruiz, Caila, Semler, Bert L, Inlay, Matthew A, Lupták, Andrej
• Format: Journal Article
• Language: English
• Published: England Nature Publishing Group 10.03.2022; Nature Publishing Group UK; Nature Portfolio
• Subjects: Contact tracing; COVID-19; COVID-19 Nucleic Acid Testing - instrumentation; COVID-19 Nucleic Acid Testing - methods; Denaturation; Gene amplification; Humans; Inoculation; Molecular Diagnostic Techniques; Nucleic Acid Amplification Techniques; Nucleic acids; Pandemics; Polymerase chain reaction; Real-Time Polymerase Chain Reaction; Reverse transcription; Saliva; Saliva - virology; SARS-CoV-2 - genetics; Severe acute respiratory syndrome coronavirus 2; Sodium lauryl sulfate; Specimen Handling - instrumentation; Specimen Handling - methods
• ISSN: 2045-2322; 2045-2322
• DOI: 10.1038/s41598-022-07871-4

The SARS-CoV-2 pandemic has brought to light the need for expedient diagnostic testing. Cost and availability of large-scale testing capacity has led to a lag in turnaround time and hindered contact tracing efforts, resulting in a further spread of SARS-CoV-2. To increase the speed and frequency of testing, we developed a cost-effective single-tube approach for collection, denaturation, and analysis of clinical samples. The approach utilizes 1 µL microbiological inoculation loops to collect saliva, sodium dodecyl sulfate (SDS) to inactivate and release viral genomic RNA, and a diagnostic reaction mix containing polysorbate 80 (Tween 80). In the same tube, the SDS-denatured clinical samples are introduced to the mixtures containing all components for nucleic acids detection and Tween 80 micelles to absorb the SDS and allow enzymatic reactions to proceed, obviating the need for further handling of the samples. The samples can be collected by the tested individuals, further decreasing the need for trained personnel to administer the test. We validated this single-tube sample-to-assay method with reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR) and reverse transcription loop-mediated isothermal amplification (RT-LAMP) and discovered little-to-no difference between Tween- and SDS-containing reaction mixtures, compared to control reactions. This approach reduces the logistical burden of traditional large-scale testing and provides a method of deployable point-of-care diagnostics to increase testing frequency.