SARS-COV-2 DASHBOARD

Results Updated – 30 December 2021

(Figures updated from Wilkinson et al. Science 2021).

*The last few weeks of data for this plot are skewed by recent submissions from South Africa and Botswana. It is not representative of the continent nor does it mean Omicron is dominant in Africa as a whole. Please refer to the Dot plot below for a better picture of sequences in Africa. Additionally, data is not filtered by sampling strategy (travelers and local samples are all included)

SARS-CoV-2 variants in lineages in African countries

Variant Alternative names Lineage/sub-lineages Total confirmed (Sequences in GISAID) Sequences submitted in past 30 days Sequences sampled in past 30 days Date of first sequence Date of last sequence No. Days since last sampling
Alpha VOC-2020-12-01 B.1.1.7 2872 121 0 2020-08-02 2021-10-07 84
Beta VOC-2020-12-02 B.1.351, B1.351.1, B 1.351.2 11188 381 2 2020-05-27 2021-12-02 28
Delta VOC-2021-03-02 B.1.617.2, AY.1 AY.3, AY.4, AY.5, AY.6, AY.7.1, AY.10 AY.11, AY.12, AY.13, AY.14, AY.15, AY.16, AY.17, AY.18, AY.19, AY.20, AY.21, AY.23, AY.24, AY.25 26063 3905 359 2020-06-26 2021-12-25 5
Omicron VOC-2021-11-26 B.1.1.529 3504 3348 2217 2021-11-09 2021-12-24 6
A.23.1 NA A.23.1 405 1 0 2020-10-21 2021-08-22 130
B.1.1.318 VUM-2021-06-04 B.1.1.318 1039 275 0 2021-01-06 2021-11-03 57
C.1 NA C.1 427 13 0 2020-04-12 2021-09-17 104
C.1.2 VUM-2021-09-01 C.1.2 281 30 5 2021-05-11 2021-12-03 27
C.36.3 VUM-2021-06-16 C.36.3 80 0 0 2020-04-26 2021-06-16 197
Eta VUM-2021-02-03 B.1.525 1301 313 0 2020-03-28 2021-09-17 104
For more information on each variant, click the variant name in the table. (Table updated 30 December)

This is the work of 100s of authors from 122 African organizations, see the author list and please credit their work! See: Wilkinson et al. Science 2021

We also want to acknowledge and apologize to the Angola Ministry of Health (Dr. Silvia Lutucuta and Dr. Joana Moraes) and the Malawi Minister of Health (Dr. Benson Chilima, Dr. Bernard Mvula, and Moses Chitenje) who due to a mistake were not listed among the 309 authors of the Science paper.

Key resources and publications describing the genomics activities in Africa: