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. 2020 Aug;25(32):2001410.
doi: 10.2807/1560-7917.ES.2020.25.32.2001410.

Geographical and temporal distribution of SARS-CoV-2 clades in the WHO European Region, January to June 2020

Erik Alm  1 , Eeva K Broberg  1 , Thomas Connor  2   3 , Emma B Hodcroft  4 , Andrey B Komissarov  5 , Sebastian Maurer-Stroh  6   7   8   9 , Angeliki Melidou  1 , Richard A Neher  4 , Áine O'Toole  10 , Dmitriy Pereyaslov  11 ; WHO European Region sequencing laboratories and GISAID EpiCoV group  12 ; WHO European Region sequencing laboratories and GISAID EpiCoV group*
Collaborators, Affiliations

Geographical and temporal distribution of SARS-CoV-2 clades in the WHO European Region, January to June 2020

Erik Alm et al. Euro Surveill. 2020 Aug.

Erratum in

  • Authors' correction for Euro Surveill. 2020;25(32).
    Eurosurveillance editorial team. Eurosurveillance editorial team. Euro Surveill. 2020 Aug;25(33):200820c. doi: 10.2807/1560-7917.ES.2020.25.33.200820c. Euro Surveill. 2020. PMID: 32820717 Free PMC article. No abstract available.

Abstract

We show the distribution of severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) genetic clades over time and between countries and outline potential genomic surveillance objectives. We applied three genomic nomenclature systems to all sequence data from the World Health Organization European Region available until 10 July 2020. We highlight the importance of real-time sequencing and data dissemination in a pandemic situation, compare the nomenclatures and lay a foundation for future European genomic surveillance of SARS-CoV-2.

Keywords: COVID-19; Europe; NGS; SARS-CoV-2; WGS; nomenclature; sequencing.

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Conflict of interest statement

Conflict of interest: None declared.

Figures

Figure 1
Figure 1
Schematic comparison of the GISAID, Nextstrain and cov-lineages.org nomenclatures for SARS-CoV-2 sequences of world-wide origin, February–July 2020
Figure 2
Figure 2
Frequency trajectories of SARS-CoV-2 clades and lineages by collection date, WHO European Region, February–July 2020 (n = 37,187, subsampled to 3,324)
Figure 3
Figure 3
Distribution of GISAID and Nextstrain clades of SARS-CoV-2 across countries in the WHO European Region, based on all high-quality genomes in GISAID, February– July 2020 (n = 37,187)
See this image and copyright information in PMC

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References

    1. Wu F, Zhao S, Yu B, Chen Y-M, Wang W, Song Z-G, et al. A new coronavirus associated with human respiratory disease in China. Nature. 2020;579(7798):265-9. 10.1038/s41586-020-2008-3 - DOI - PMC - PubMed
    1. Zhu N, Zhang D, Wang W, Li X, Yang B, Song J, et al. A novel coronavirus from patients with pneumonia in China, 2019. N Engl J Med. 2020;382(8):727-33. 10.1056/NEJMoa2001017 - DOI - PMC - PubMed
    1. Ren L-L, Wang Y-M, Wu Z-Q, Xiang Z-C, Guo L, Xu T, et al. Identification of a novel coronavirus causing severe pneumonia in human: a descriptive study. Chin Med J (Engl). 2020;133(9):1015-24. 10.1097/CM9.0000000000000722 - DOI - PMC - PubMed
    1. Zhou P, Yang X-L, Wang X-G, Hu B, Zhang L, Zhang W, et al. A pneumonia outbreak associated with a new coronavirus of probable bat origin. Nature. 2020;579(7798):270-3. 10.1038/s41586-020-2012-7 - DOI - PMC - PubMed
    1. Shu Y, McCauley J. GISAID: Global initiative on sharing all influenza data - from vision to reality. Euro Surveill. 2017;22(13):30494. 10.2807/1560-7917.ES.2017.22.13.30494 - DOI - PMC - PubMed

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