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https://hdl.handle.net/1822/75604
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Campo DC | Valor | Idioma |
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dc.contributor.author | Carvalho-Correia, Eduarda | por |
dc.contributor.author | Calçada, Carla Sofia Martins | por |
dc.contributor.author | Branca, Fernando | por |
dc.contributor.author | Estévez-Gómez, Nuria | por |
dc.contributor.author | De Chiara, Loretta | por |
dc.contributor.author | Varela, Nair | por |
dc.contributor.author | Gallego-García, Pilar | por |
dc.contributor.author | Posada, David | por |
dc.contributor.author | Sousa, Hugo | por |
dc.contributor.author | Sousa, João Carlos | por |
dc.contributor.author | Veiga, Maria Isabel | por |
dc.contributor.author | Osório, Nuno S. | por |
dc.date.accessioned | 2022-01-20T11:28:34Z | - |
dc.date.available | 2022-01-20T11:28:34Z | - |
dc.date.issued | 2021-09-26 | - |
dc.identifier.citation | Carvalho-Correia, E.; Calçada, C.; Branca, F.; Estévez-Gómez, N.; De Chiara, L.; Varela, N.; Gallego-García, P.; Posada, D.; Sousa, H.; Sousa, J.; Veiga, M.I.; Osório, N.S. OmniSARS2: A Highly Sensitive and Specific RT-qPCR-Based COVID-19 Diagnostic Method Designed to Withstand SARS-CoV-2 Lineage Evolution. Biomedicines 2021, 9, 1314. https://doi.org/10.3390/biomedicines9101314 | por |
dc.identifier.uri | https://hdl.handle.net/1822/75604 | - |
dc.description.abstract | Extensive transmission of SARS-CoV-2 during the COVID-19 pandemic allowed the generation of thousands of mutations within its genome. While several of these become rare, others largely increase in prevalence, potentially jeopardizing the sensitivity of PCR-based diagnostics. Taking advantage of SARS-CoV-2 genomic knowledge, we designed a one-step probe-based multiplex RT-qPCR (OmniSARS2) to simultaneously detect short fragments of the SARS-CoV-2 genome in ORF1ab, E gene and S gene. Comparative genomics of the most common SARS-CoV-2 lineages, other human betacoronavirus and alphacoronavirus, was the basis for this design, targeting both highly conserved regions across SARS-CoV-2 lineages and variable or absent in other <i>Coronaviridae</i> viruses. The highest analytical sensitivity of this method for SARS-CoV-2 detection was 94.2 copies/mL at 95% detection probability (~1 copy per total reaction volume) for the S gene assay, matching the most sensitive available methods. In vitro specificity tests, performed using reference strains, showed no cross-reactivity with other human coronavirus or common pathogens. The method was compared with commercially available methods and detected the virus in clinical samples encompassing different SARS-CoV-2 lineages, including B.1, B.1.1, B.1.177 or B.1.1.7 and rarer lineages. OmniSARS2 revealed a sensitive and specific viral detection method that is less likely to be affected by lineage evolution oligonucleotide–sample mismatch, of relevance to ensure the accuracy of COVID-19 molecular diagnostic methods. | por |
dc.description.sponsorship | This work has been funded by Portuguese National funds, through the Foundation for Science and Technology (FCT) (project UIDB/50026/2020, UIDP/50026/2020 and RESEARCH 4 COVID-19 1st edtion_208; fellowships: PD/BD/127826/2016 to C. C. and contract funding 2020.03113.CEECIND to M.I.V.); by the projects NORTE-01-0145-FEDER-072555 and NORTE-01-0145- FEDER-000039, supported by Norte Portugal Regional Operational Programme (NORTE 2020), under the PORTUGAL 2020 Partnership Agreement, through the European Regional Development Fund (ERDF). Lineage assignments were provided by the EPICOVIGAL consortium, funded by FONDO SUPERA COVID-19 CRUE/CSIC/Banco Santander and Programa TRASLACIONA COVID-19 (Ref CT850A-2) from Xunta de Galicia. | por |
dc.language.iso | eng | por |
dc.publisher | Multidisciplinary Digital Publishing Institute (MDPI) | por |
dc.relation | UIDB/50026/2020 | por |
dc.relation | UIDP/50026/2020 | por |
dc.relation | PD/BD/127826/2016 | por |
dc.rights | openAccess | por |
dc.rights.uri | http://creativecommons.org/licenses/by/4.0/ | por |
dc.subject | SARS-CoV-2 | por |
dc.subject | COVID-19 | por |
dc.subject | RT-qPCR | por |
dc.subject | B.1.1.7 | por |
dc.title | OmniSARS2: a highly sensitive and specific RT-qPCR-based COVID-19 diagnostic method designed to withstand SARS-CoV-2 lineage evolution | por |
dc.type | article | por |
dc.peerreviewed | yes | por |
dc.relation.publisherversion | https://www.mdpi.com/2227-9059/9/10/1314 | por |
oaire.citationStartPage | 1 | por |
oaire.citationEndPage | 12 | por |
oaire.citationIssue | 10 | por |
oaire.citationVolume | 9 | por |
dc.date.updated | 2021-10-22T13:55:25Z | - |
dc.identifier.eissn | 2227-9059 | - |
dc.identifier.doi | 10.3390/biomedicines9101314 | por |
dc.subject.wos | Science & Technology | por |
sdum.journal | Biomedicines | por |
oaire.version | VoR | por |
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biomedicines-09-01314-v2.pdf | 1,94 MB | Adobe PDF | Ver/Abrir |
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