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A decontamination strategy for resolving SARS-CoV-2 amplicon contamination in a next-generation sequencing laboratory.
Mwangi, Peter; Mogotsi, Milton; Ogunbayo, Ayodeji; Mooko, Teboho; Maringa, Wairimu; Sondlane, Hlengiwe; Nkwadipo, Kelebogile; Adelabu, Olusesan; Bester, Philip Armand; Goedhals, Dominique; Nyaga, Martin.
  • Mwangi P; Next Generation Sequencing Unit and Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein, 9300, South Africa.
  • Mogotsi M; Next Generation Sequencing Unit and Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein, 9300, South Africa.
  • Ogunbayo A; Next Generation Sequencing Unit and Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein, 9300, South Africa.
  • Mooko T; Next Generation Sequencing Unit and Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein, 9300, South Africa.
  • Maringa W; Next Generation Sequencing Unit and Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein, 9300, South Africa.
  • Sondlane H; Next Generation Sequencing Unit and Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein, 9300, South Africa.
  • Nkwadipo K; Next Generation Sequencing Unit and Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein, 9300, South Africa.
  • Adelabu O; Next Generation Sequencing Unit and Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein, 9300, South Africa.
  • Bester PA; Division of Virology, National Health Laboratory Service and University of the Free State, Bloemfontein, South Africa.
  • Goedhals D; Division of Virology, National Health Laboratory Service and University of the Free State, Bloemfontein, South Africa.
  • Nyaga M; Pathcare Vermaak, Pretoria, 0157, South Africa.
Arch Virol ; 167(4): 1175-1179, 2022 Apr.
Article in English | MEDLINE | ID: covidwho-1748474
ABSTRACT
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.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: COVID-19 / Laboratories Limits: Humans Language: English Journal: Arch Virol Year: 2022 Document Type: Article Affiliation country: S00705-022-05411-z

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Full text: Available Collection: International databases Database: MEDLINE Main subject: COVID-19 / Laboratories Limits: Humans Language: English Journal: Arch Virol Year: 2022 Document Type: Article Affiliation country: S00705-022-05411-z