TY  - JOUR
AU  - Lou, Dan
AU  - Meurer, Matthias
AU  - Ovchinnikova, Svetlana
AU  - Burk, Robin
AU  - Denzler, Anna
AU  - Herbst, Konrad
AU  - Papaioannou, Ioannis A
AU  - Duan, Yuanqiang
AU  - Jacobs, Max L
AU  - Witte, Victoria
AU  - Ürge, Daniel
AU  - Kirrmaier, Daniel
AU  - Krogemann, Michelle
AU  - Gubicza, Krisztina
AU  - Boerner, Kathleen
AU  - Bundschuh, Christian
AU  - Weidner, Niklas M
AU  - Merle, Uta
AU  - Knorr, Britta
AU  - Welker, Andreas
AU  - Denkinger, Claudia M
AU  - Schnitzler, Paul
AU  - Kräusslich, Hans-Georg
AU  - Dao Thi, Viet Loan
AU  - De Allegri, Manuela
AU  - Nguyen, Hoa Thi
AU  - Deckert, Andreas
AU  - Anders, Simon
AU  - Knop, Michael
TI  - Scalable RT-LAMP-based SARS-CoV-2 testing for infection surveillance with applications in pandemic preparedness.
JO  - EMBO reports
VL  - 24
IS  - 5
SN  - 1469-221X
CY  - Hoboken, NJ [u.a.]
PB  - Wiley
M1  - DKFZ-2023-00595
SP  - e57162
PY  - 2023
N1  - #LA:A260# / 2023 May 4;24(5):e57162
AB  - Throughout the SARS-CoV-2 pandemic, limited diagnostic capacities prevented sentinel testing, demonstrating the need for novel testing infrastructures. Here, we describe the setup of a cost-effective platform that can be employed in a high-throughput manner, which allows surveillance testing as an acute pandemic control and preparedness tool, exemplified by SARS-CoV-2 diagnostics in an academic environment. The strategy involves self-sampling based on gargling saline, pseudonymized sample handling, automated RNA extraction, and viral RNA detection using a semiquantitative multiplexed colorimetric reverse transcription loop-mediated isothermal amplification (RT-LAMP) assay with an analytical sensitivity comparable with RT-qPCR. We provide standard operating procedures and an integrated software solution for all workflows, including sample logistics, analysis by colorimetry or sequencing, and communication of results. We evaluated factors affecting the viral load and the stability of gargling samples as well as the diagnostic sensitivity of the RT-LAMP assay. In parallel, we estimated the economic costs of setting up and running the test station. We performed > 35,000 tests, with an average turnover time of < 6 h from sample arrival to result announcement. Altogether, our work provides a blueprint for fast, sensitive, scalable, cost- and labor-efficient RT-LAMP diagnostics, which is independent of potentially limiting clinical diagnostics supply chains.
KW  - COVID-19 tests (Other)
KW  - RT-LAMP (Other)
KW  - corona tests (Other)
KW  - pandemic preparedness (Other)
KW  - surveillance testing (Other)
LB  - PUB:(DE-HGF)16
C6  - pmid:36951170
DO  - DOI:10.15252/embr.202357162
UR  - https://inrepo02.dkfz.de/record/274431
ER  -