Implementation of an open-source robotic platform for SARS-CoV-2 testing by real-time RT-PCR.

Autor: Villanueva-Cañas JL; Molecular Biology CORE (CDB), Hospital Clínic de Barcelona, Barcelona, Spain., Gonzalez-Roca E; Molecular Biology CORE (CDB), Hospital Clínic de Barcelona, Barcelona, Spain.; Immunology Department (CDB), Hospital Clínic de Barcelona, Barcelona, Spain., Gastaminza Unanue A; Independent engineer, Barcelona, Spain., Titos E; Molecular Biology CORE (CDB), Hospital Clínic de Barcelona, Barcelona, Spain.; Department of Biochemistry and Molecular Genetics (CDB), Hospital Clínic de Barcelona, Barcelona, Spain.; Department of Biomedical Sciences, University of Barcelona, Barcelona, Spain., Martínez Yoldi MJ; Molecular Biology CORE (CDB), Hospital Clínic de Barcelona, Barcelona, Spain.; Department of Microbiology (CDB), Hospital Clínic de Barcelona, Barcelona, Spain., Vergara Gómez A; Molecular Biology CORE (CDB), Hospital Clínic de Barcelona, Barcelona, Spain.; Department of Microbiology (CDB), Hospital Clínic de Barcelona, Barcelona, Spain., Puig-Butillé JA; Molecular Biology CORE (CDB), Hospital Clínic de Barcelona, Barcelona, Spain.
Jazyk: angličtina
Zdroj: PloS one [PLoS One] 2021 Jul 14; Vol. 16 (7), pp. e0252509. Date of Electronic Publication: 2021 Jul 14 (Print Publication: 2021).
DOI: 10.1371/journal.pone.0252509
Abstrakt: The current global pandemic due to the SARS-CoV-2 has pushed the limits of global health systems across all aspects of clinical care, including laboratory diagnostics. Supply chain disruptions and rapidly-shifting markets have resulted in flash-scarcity of commercial laboratory reagents; this has motivated health care providers to search for alternative workflows to cope with the international increase in demand for SARS-CoV-2 testing. The aim of this study is to present a reproducible workflow for real time RT-PCR SARS-CoV-2 testing using OT-2 open-source liquid-handling robots (Opentrons, NY). We have developed a framework that includes a code template which is helpful for building different stand-alone robotic stations, capable of performing specific protocols. Such stations can be combined together to create a complex multi-stage workflow, from sample setup to real time RT-PCR. Using our open-source code, it is easy to create new stations or workflows from scratch, adapt existing templates to update the experimental protocols, or to fine-tune the code to fit specific needs. Using this framework, we developed the code for two different workflows and evaluated them using external quality assessment (EQA) samples from the European Molecular Genetics Quality Network (EMQN). The affordability of this platform makes automated SARS-CoV-2 PCR testing accessible for most laboratories and hospitals with qualified bioinformatics personnel. This platform also allows for flexibility, as it is not dependent on any specific commercial kit, and thus it can be quickly adapted to protocol changes, reagent, consumable shortages, or any other temporary material constraints.
Competing Interests: The authors have declared that no competing interests exist.
Databáze: MEDLINE
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