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Two-step strategy for the identification of SARS-CoV-2 variant of concern 202012/01 and other variants with spike deletion H69–V70, France, August to December 2020
- Source :
- Eurosurveillance, Eurosurveillance, 2021, 26 (3), pp.2100008. ⟨10.2807/1560-7917.es.2021.26.3.2100008⟩, Eurosurveillance, European Centre for Disease Prevention and Control, 2021, 26 (3), pp.2100008. ⟨10.2807/1560-7917.es.2021.26.3.2100008⟩
- Publication Year :
- 2021
- Publisher :
- HAL CCSD, 2021.
-
Abstract
- International audience; We report the strategy leading to the first detection of variant of concern 202012/01 (VOC) in France (21 December 2020). First, the spike (S) deletion H69-V70 (ΔH69/ΔV70), identified in certain SARS-CoV-2 variants including VOC, is screened for. This deletion is associated with a S-gene target failure (SGTF) in the three-target RT-PCR assay (TaqPath kit). Subsequently, SGTF samples are whole genome sequenced. This approach revealed mutations co-occurring with ΔH69/ΔV70 including S:N501Y in the VOC.
- Subjects :
- 0301 basic medicine
2019-20 coronavirus outbreak
Coronavirus disease 2019 (COVID-19)
Epidemiology
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
030106 microbiology
Two step
spike protein, variants, deletion
Genome, Viral
Biology
spike protein
Genome
03 medical and health sciences
COVID-19, whole genome sequencing
[SDV.MHEP.MI]Life Sciences [q-bio]/Human health and pathology/Infectious diseases
Virology
Humans
Spike (database)
Base sequence
Sequence Deletion
whole genome sequencing
variants
Base Sequence
deletion
SARS-CoV-2
Public Health, Environmental and Occupational Health
COVID-19
030104 developmental biology
Spike Glycoprotein, Coronavirus
[SDV.MHEP.MI] Life Sciences [q-bio]/Human health and pathology/Infectious diseases
Identification (biology)
France
Rapid Communication
Subjects
Details
- Language :
- English
- ISSN :
- 15607917 and 1025496X
- Database :
- OpenAIRE
- Journal :
- Eurosurveillance, Eurosurveillance, 2021, 26 (3), pp.2100008. ⟨10.2807/1560-7917.es.2021.26.3.2100008⟩, Eurosurveillance, European Centre for Disease Prevention and Control, 2021, 26 (3), pp.2100008. ⟨10.2807/1560-7917.es.2021.26.3.2100008⟩
- Accession number :
- edsair.doi.dedup.....f3294ce6831f39e89a9837023cd6c8bf