A decontamination strategy for resolving SARS-CoV-2 amplicon contamination in a next-generation sequencing laboratory

作者：Peter N. Mwangi, Milton T. Mogotsi, Ayodeji E. Ogunbayo, Teboho Mooko, Wairimu M. Maringa, Hlengiwe Sondlane, Kelebogile R. Nkwadipo, Olusesan Adeyemi Adelabu, Philip Armand Bester, Dominique Goedhals, Martin M. Nyaga · 发表于：Archives of Virology · 年份：2022 · DOI：10.1007/s00705-022-05411-z · 被引用次数：8 · 研究领域：SARS-CoV-2 detection and testing、Biosensors and Analytical Detection、Viral gastroenteritis research and epidemiology

Severe acute respiratory syndrome coronavirus type 2 (SARS-CoV-2) amplicon contamination was discovered due to next-generation sequencing (NGS) reads mapping in the negative controls. Environmental screening was undertaken to determine the source of contamination, which was suspected to be evaporation during polymerase chain reaction (PCR) assays while using the coronavirus disease 2019 (COVID-19) ARTIC protocol. A decontamination strategy is hereby documented to assist laboratories that may experience similar amplicon contamination. Routine molecular laboratory environmental screening as a quality control is highly recommended.