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Abstract

We show that the SARS-CoV-2 B.1.1.7 lineage is highly disseminated in Portugal, with the odds of B.1.1.7 proportion increasing at an estimated 89% (95% confidence interval: 83–95%) per week until week 3 2021. RT-PCR spike gene target late detection (SGTL) can constitute a useful surrogate to track B.1.1.7 spread, besides the spike gene target failure (SGTF) proxy. SGTL/SGTF samples were associated with statistically significant higher viral loads, but not with substantial shift in age distribution compared to non-SGTF/SGTL cases.

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/content/10.2807/1560-7917.ES.2021.26.10.2100130
2021-03-11
2024-04-24
http://instance.metastore.ingenta.com/content/10.2807/1560-7917.ES.2021.26.10.2100130
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References

  1. Public Health England (PHE). Investigation of novel SARS-COV-2 variant: Variant of Concern 202012/01: Technical briefing document on novel SARS-CoV-2 variant. London: PHE; 2020. Available from: https://www.gov.uk/government/publications/investigation-of-novel-sars-cov-2-variant-variant-of-concern-20201201
  2. European Centre for Disease Prevention and Control (ECDC). Risk related to spread of new SARS-CoV-2 variants of concern in the EU/EEA – 29 December 2020. ECDC: Stockholm; 2020. Available from: https://www.ecdc.europa.eu/sites/default/files/documents/COVID-19-risk-related-to-spread-of-new-SARS-CoV-2-variants-EU-EEA.pdf
  3. Volz E, Mishra S, Chand M, Barrett JC, Johnson R, Geidelberg L, et al. Transmission of SARS-CoV-2 Lineage B. 1.1. 7 in England: Insights from linking epidemiological and genetic data; medRxiv 2021. https://doi.org/10.1101/2020.12.30.20249034
  4. Galloway SE, Paul P, MacCannell DR, Johansson MA, Brooks JT, MacNeil A, et al. Emergence of SARS-CoV-2 B.1.1.7 Lineage - United States, December 29, 2020-January 12, 2021. MMWR Morb Mortal Wkly Rep. 2021;70(3):95-9.  https://doi.org/10.15585/mmwr.mm7003e2  PMID: 33476315 
  5. Rambaut A, Loman N, Pybus O, Barclay W, Barrett J, Carabelli A, et al. Preliminary genomic characterisation of an emergent SARS-CoV-2 lineage in the UK defined by a novel set of spike mutations. Virological.org; 2020. Available from: https://virological.org/t/preliminary-genomic-characterisation-of-an-emergent-sars-cov-2-lineage-in-the-uk-defined-by-a-novel-set-of-spike-mutations/563
  6. Kemp SA, Datir RP, Collier DA, Ferreira IATM, Carabelli A, Harvey W, et al. Recurrent emergence and transmission of a SARS-CoV-2 Spike deletion ΔH69/V70. bioRxiv. 2020;. https://doi.org/10.1101/2020.12.14.422555
  7. Kidd M, Richter A, Best A, Mirza J, Percival B, Mayhew M, et al. S-variant SARS-CoV-2 is associated with significantly higher viral loads in samples tested by ThermoFisher TaqPath RT-QPCR; medRxiv 2020. https://doi.org/10.1101/2020.11.10.20228528
  8. Gravagnuolo AM, Faqih L, Cronshaw C, Wynn J, Burglin, Klapper P, Wigglesworth M. Epidemiological Investigation of New SARS-CoV-2 Variant of Concern 202012/01 in England; medRxiv 2021. https://doi.org/10.1101/2021.01.14.21249386
  9. Public Health England (PHE). Investigation of novel SARS-COV-2 variant. Variant of Concern 202012/01: Technical briefing 2. London: PHE; 2020. Available from: https://assets.publishing.service.gov.uk/government/uploads/system/uploads/attachment_data/file/949639/Technical_Briefing_VOC202012-2_Briefing_2_FINAL.pdf
  10. Bal A, Destras G, Gaymard A, Regue H, Semanas Q, d’Aubarede C, et al. Two-step strategy for the identification of SARS-CoV-2 variants co-occurring with spike deletion H69-V70, Lyon, France, August to December 2020; medRxiv 2020. https://doi.org//10.1101/2020.11.10.20228528
  11. O’Toole Á, Hill V, Pybus OG, Watts A, Bogoch II, Khan K, et al. Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2. Virological.org; 2021. Available from: https://virological.org/t/tracking-the-international-spread-of-sars-cov-2-lineages-b-1-1-7-and-b-1-351-501y-v2/592/1
  12. National Institute of Health (INSA) Dr. Ricardo Jorge. Genetic diversity of the novel coronavirus SARS-CoV-2 (COVID-19) in Portugal. Lisbon: INSA; 2021. [Accessed 5 Feb 2021]. Available from: https://insaflu.insa.pt/covid19
  13. Public Health England (PHE). Investigation of novel SARS-COV-2 variant. Variant of Concern 202012/01: Technical briefing 5. London: PHE; 2021. Available from: https://assets.publishing.service.gov.uk/government/uploads/system/uploads/attachment_data/file/957504/Variant_of_Concern_VOC_202012_01_Technical_Briefing_5_England.pdf
  14. Staten Serum Institut (SSI). Status for udvikling af SARS-CoV-2 Variants of Concern (VOC) i Danmark. [Status of development of SARS-CoV-2 Variants of Concern (VOC) in Denmark]. Copenhagen: SSI; 2020. Danish. Available from: https://files.ssi.dk/covid19/virusvarianter/status/status-virusvarianter-10022021-2q3w
Tracking SARS-CoV-2 lineage B.1.1.7 dissemination: insights from nationwide spike gene target failure (SGTF) and spike gene late detection (SGTL) data, Portugal, week 49 2020 to week 3 2021
<p class="citation"> <span>Citation style for this article:</span> <span class="meta-value authors"> <a href="/search?value1=V%C3%ADtor+Borges&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Borges Vítor</a>, <a href="/search?value1=Carlos+Sousa&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Sousa Carlos</a>, <a href="/search?value1=Lu%C3%ADs+Menezes&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Menezes Luís</a>, <a href="/search?value1=Ant%C3%B3nio+Maia+Gon%C3%A7alves&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Gonçalves António Maia</a>, <a href="/search?value1=Miguel+Pic%C3%A3o&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Picão Miguel</a>, <a href="/search?value1=Jos%C3%A9+Pedro+Almeida&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Almeida José Pedro</a>, <a href="/search?value1=Margarida+Vieita&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Vieita Margarida</a>, <a href="/search?value1=Rafael+Santos&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Santos Rafael</a>, <a href="/search?value1=Ana+Rita+Silva&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Silva Ana Rita</a>, <a href="/search?value1=Mariana+Costa&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Costa Mariana</a>, <a href="/search?value1=Lu%C3%ADs+Carneiro&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Carneiro Luís</a>, <a href="/search?value1=Pedro+Casaca&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Casaca Pedro</a>, <a href="/search?value1=Pedro+Pinto-Leite&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Pinto-Leite Pedro</a>, <a href="/search?value1=Andr%C3%A9+Peralta-Santos&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Peralta-Santos André</a>, <a href="/search?value1=Joana+Isidro&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Isidro Joana</a>, <a href="/search?value1=S%C3%ADlvia+Duarte&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Duarte Sílvia</a>, <a href="/search?value1=Lu%C3%ADs+Vieira&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Vieira Luís</a>, <a href="/search?value1=Raquel+Guiomar&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Guiomar Raquel</a>, <a href="/search?value1=Susana+Silva&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Silva Susana</a>, <a href="/search?value1=Baltazar+Nunes&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Nunes Baltazar</a>, <a href="/search?value1=Jo%C3%A3o+P+Gomes&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Gomes João P</a></span>. Tracking SARS-CoV-2 lineage B.1.1.7 dissemination: insights from nationwide spike gene target failure (SGTF) and spike gene late detection (SGTL) data, Portugal, week 49 2020 to week 3 2021. <a href="/content/ecdc">Euro Surveill.</a> 2021;26(10):pii=2100131. <a href="https://doi.org/10.2807/1560-7917.ES.2021.26.10.2100130" title="doi link" target="_blank">https://doi.org/10.2807/1560-7917.ES.2021.26.10.2100130</a> <span class="ES_Article_citation"> <span class="generated">Received</span>: 05 Feb 2021;&nbsp;&nbsp; <span class="generated">Accepted</span>: 11 Mar 2021 </span> </p>
/content/10.2807/1560-7917.ES.2021.26.10.2100130
/content/10.2807/1560-7917.ES.2021.26.10.2100130
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