dc.contributor.author | Carvalho Correia, Eduarda | |
dc.contributor.author | Calçada, Carla | |
dc.contributor.author | Branca, Fernando | |
dc.contributor.author | Estevez Gomez, Nuria | |
dc.contributor.author | De Chiara Prada, Loretta | |
dc.contributor.author | Varela Rouco, Nair | |
dc.contributor.author | Gallego Garcia, Maria Del Pilar | |
dc.contributor.author | Posada González, David | |
dc.contributor.author | Sousa, Hugo | |
dc.contributor.author | Sousa, João | |
dc.contributor.author | Veiga, Maria Isabel | |
dc.contributor.author | Osório, Nuno S. | |
dc.date.accessioned | 2022-01-10T12:32:04Z | |
dc.date.available | 2022-01-10T12:32:04Z | |
dc.date.issued | 2021-09-26 | |
dc.identifier.citation | Biomedicines, 9(10): 1314 (2021) | en |
dc.identifier.issn | 22279059 | |
dc.identifier.uri | http://hdl.handle.net/11093/2951 | |
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 Coronaviridae 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. | en |
dc.description.sponsorship | Fundação para a Ciência e a Tecnologia | Ref. UIDB / 50026/2020 | spa |
dc.description.sponsorship | Fundação para a Ciência e a Tecnologia | Ref. UIDP / 50026/2020 | spa |
dc.description.sponsorship | Fundação para a Ciência e a Tecnologia | Ref. 2020.03113.CEECIND | spa |
dc.description.sponsorship | Xunta de Galicia | Ref. CT850A-2 | spa |
dc.description.sponsorship | European Commission | Ref. NORTE-01-0145-FEDER-072555 | spa |
dc.description.sponsorship | European Commission | Ref. NORTE-01-0145- FEDER-000039 | spa |
dc.language.iso | eng | spa |
dc.publisher | Biomedicines | spa |
dc.rights | Attribution 4.0 International | |
dc.rights.uri | https://creativecommons.org/licenses/by/4.0/ | |
dc.title | OmniSARS2: a highly sensitive and specific RT-qPCR-based COVID-19 diagnostic method designed to withstand SARS-CoV-2 lineage evolution | en |
dc.type | article | spa |
dc.rights.accessRights | openAccess | en |
dc.identifier.doi | 10.3390/biomedicines9101314 | |
dc.identifier.editor | https://www.mdpi.com/2227-9059/9/10/1314 | spa |
dc.publisher.departamento | Bioquímica, xenética e inmunoloxía | spa |
dc.publisher.grupoinvestigacion | Xenómica e Biomedicina | spa |
dc.subject.unesco | 2420.08 Virus Respiratorios | spa |
dc.subject.unesco | 3202 Epidemiología | spa |
dc.subject.unesco | 2412 Inmunología | spa |
dc.date.updated | 2022-01-10T12:23:37Z | |
dc.computerCitation | pub_title=Biomedicines|volume=9|journal_number=10|start_pag=1314|end_pag= | spa |
dc.references | The following reagent was obtained through BEI Resources, NIAID, NIH:
Human Coronavirus, 229E, NR-52726; Human Coronavirus, OC43, NR-52725; Genomic RNA from
Human Coronavirus (HCoV), NL63, NR-44105. | en |