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Implementation of an open-source robotic platform for SARS-CoV-2 testing by real-time RT-PCR
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 mo...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8279358/ https://www.ncbi.nlm.nih.gov/pubmed/34260637 http://dx.doi.org/10.1371/journal.pone.0252509 |
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author | Villanueva-Cañas, José Luis Gonzalez-Roca, Eva Gastaminza Unanue, Aitor Titos, Esther Martínez Yoldi, Miguel Julián Vergara Gómez, Andrea Puig-Butillé, Joan Anton |
author_facet | Villanueva-Cañas, José Luis Gonzalez-Roca, Eva Gastaminza Unanue, Aitor Titos, Esther Martínez Yoldi, Miguel Julián Vergara Gómez, Andrea Puig-Butillé, Joan Anton |
author_sort | Villanueva-Cañas, José Luis |
collection | PubMed |
description | 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. |
format | Online Article Text |
id | pubmed-8279358 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-82793582021-07-31 Implementation of an open-source robotic platform for SARS-CoV-2 testing by real-time RT-PCR Villanueva-Cañas, José Luis Gonzalez-Roca, Eva Gastaminza Unanue, Aitor Titos, Esther Martínez Yoldi, Miguel Julián Vergara Gómez, Andrea Puig-Butillé, Joan Anton PLoS One Research Article 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. Public Library of Science 2021-07-14 /pmc/articles/PMC8279358/ /pubmed/34260637 http://dx.doi.org/10.1371/journal.pone.0252509 Text en © 2021 Villanueva-Cañas et al https://creativecommons.org/licenses/by/4.0/This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
spellingShingle | Research Article Villanueva-Cañas, José Luis Gonzalez-Roca, Eva Gastaminza Unanue, Aitor Titos, Esther Martínez Yoldi, Miguel Julián Vergara Gómez, Andrea Puig-Butillé, Joan Anton Implementation of an open-source robotic platform for SARS-CoV-2 testing by real-time RT-PCR |
title | Implementation of an open-source robotic platform for SARS-CoV-2 testing by real-time RT-PCR |
title_full | Implementation of an open-source robotic platform for SARS-CoV-2 testing by real-time RT-PCR |
title_fullStr | Implementation of an open-source robotic platform for SARS-CoV-2 testing by real-time RT-PCR |
title_full_unstemmed | Implementation of an open-source robotic platform for SARS-CoV-2 testing by real-time RT-PCR |
title_short | Implementation of an open-source robotic platform for SARS-CoV-2 testing by real-time RT-PCR |
title_sort | implementation of an open-source robotic platform for sars-cov-2 testing by real-time rt-pcr |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8279358/ https://www.ncbi.nlm.nih.gov/pubmed/34260637 http://dx.doi.org/10.1371/journal.pone.0252509 |
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