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

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 evaporati...

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Detalles Bibliográficos
Autores principales: Mwangi, Peter, Mogotsi, Milton, Ogunbayo, Ayodeji, Mooko, Teboho, Maringa, Wairimu, Sondlane, Hlengiwe, Nkwadipo, Kelebogile, Adelabu, Olusesan, Bester, Philip Armand, Goedhals, Dominique, Nyaga, Martin
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Vienna 2022
Materias:
Brief Report
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8926888/
https://www.ncbi.nlm.nih.gov/pubmed/35298714
http://dx.doi.org/10.1007/s00705-022-05411-z
Descripción
Sumario: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. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s00705-022-05411-z.

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