Wunsch, Marie, Aschemeier, Dominik, Heger, Eva, Ehrentraut, Denise, Kruger, Jan, Hufbauer, Martin, Syed, Adnan S., Horemheb-Rubio, Gibran, Dewald, Felix, Fish, Irina, Schlotz, Maike, Gruell, Henning, Augustin, Max, Lehmann, Clara, Kaiser, Rolf, Knops, Elena, Silling, Steffi and Klein, Florian (2021). Safe and effective pool testing for SARS-CoV-2 detection. J. Clin. Virol., 145. AMSTERDAM: ELSEVIER. ISSN 1873-5967

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Abstract

Objectives: The global spread of SARS-CoV-2 is a serious public health issue. Large-scale surveillance screenings are crucial but can exceed test capacities. We (A) optimized test conditions and (B) implemented pool testing of respiratory swabs into SARS-CoV-2 diagnostics. Study design: (A) We determined the optimal pooling strategy and pool size. In addition, we measured the impact of vortexing prior to sample processing, compared a pipette-pooling method (by combining transport medium of several specimens) and a swab-pooling method (by combining several swabs into a test tube filled with PBS) as well as determined the sensitivities of three PCR assays. (B) Finally, we applied high-throughput pool testing for diagnostics. Results: (A) In a low prevalence setting, we defined a preferable pool size of ten in a two-stage hierarchical pool testing strategy. Vortexing of swabs (n = 33) increased cellular yield by a factor of 2.34. By comparing Ct-values of 16 pools generated with two different pooling strategies, pipette-pooling was more efficient compared to swab-pooling. Measuring dilution series of 20 SARS-CoV-2 positive samples in three PCR assays simultaneously revealed detection rates of 85% (assay I), 50% (assay II), and 95% (assay III) at a 1:100 dilution. (B) We systematically pooled 55,690 samples in a period of 44 weeks resulting in a reduction of 47,369 PCR reactions. Conclusions: For implementing pooling strategies into high-throughput diagnostics, we recommend utilizing a pipette-pooling method, performing sensitivity validation of the PCR assays used, and vortexing swabs prior to analyses. Pool testing for SARS-CoV-2 detection is feasible and effective in a low prevalence setting.

Item Type: Journal Article
Creators:
CreatorsEmailORCIDORCID Put Code
Wunsch, MarieUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Aschemeier, DominikUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Heger, EvaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Ehrentraut, DeniseUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Kruger, JanUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Hufbauer, MartinUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Syed, Adnan S.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Horemheb-Rubio, GibranUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Dewald, FelixUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Fish, IrinaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Schlotz, MaikeUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Gruell, HenningUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Augustin, MaxUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Lehmann, ClaraUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Kaiser, RolfUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Knops, ElenaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Silling, SteffiUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Klein, FlorianUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
URN: urn:nbn:de:hbz:38-577122
DOI: 10.1016/j.jcv.2021.105018
Journal or Publication Title: J. Clin. Virol.
Volume: 145
Date: 2021
Publisher: ELSEVIER
Place of Publication: AMSTERDAM
ISSN: 1873-5967
Language: English
Faculty: Unspecified
Divisions: Unspecified
Subjects: no entry
Uncontrolled Keywords:
KeywordsLanguage
COLLECTION; VIRUSES; SWABSMultiple languages
VirologyMultiple languages
URI: http://kups.ub.uni-koeln.de/id/eprint/57712

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