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Volume 28, Number 2—February 2022
Research Letter

SARS-CoV-2 Circulation, Guinea, March 2020–July 2021

Solène Grayo1Comments to Author , Cécile Troupin12, Moussa Moïse Diagne, Houlou Sagno, Isabelle Ellis, Bakary Doukouré, Amadou Diallo, Jean-Mathieu Bart, Mohamed Lamine Kaba, Benoit Henry, Billy Sivahera Muyisa, Mamadou Saliou Sow, Ndongo Dia, Ousmane Faye, Sakoba Keita, and Noël Tordo
Author affiliations: Institut Pasteur de Guinée, Conakry, Guinea (S. Grayo, C. Troupin, H. Sagno, I. Ellis, B. Doukouré, N. Tordo); Institut Pasteur de Dakar, Dakar, Senegal (M.M. Diagne, A. Diallo, N. Dia, O. Faye); Institut de Recherche pour le Développement-Programme National de Lutte contre la Trypanosomiase Humaine Africaine, Montpellier, France (J.-M. Bart); Camp Militaire Alpha Yaya, Conakry (M.L. Kaba); Centre Médico-Social de l’Ambassade de France, Conakry (B. Henry); Centre Hospitalier de Donka (M.S. Sow); Alliance for International Medical Action, Guinea (B.S. Muyisa); Agence Nationale de Sécurité Sanitaire, Conakry (S. Keita)

Main Article

Table

Characteristics of clades and lineages identified among the Institut Pasteur de Guinée SARS-CoV-2 sequences from samples taken in Guinea during March 12, 2020–July 16, 2021*

Clade and lineage
 Worldwide
Africa
Guinea†
1st described
 Location
 No. sequences
 1st described
 Location
 No. sequences
 1st described
 No. sequences
20A
B.1 2020 Jan UK 83,632 2020 Mar RDC 2,816 2020 Mar 43
B.1.36.10 2020 Mar United States 824 2020 Apr South Africa 17 2021 Jan 1
B.1.210 2020 Mar India 403 No No 0 2020 Oct 1
B.1.243 2020 Mar United States 13,091 2020 Jun Kenya 6 2020 Jun 1
B.1.298 2020 Mar United States 397 No No 0 2020 Oct 1
B.1.540 2020 Feb India 2,186 2020 Mar Gambia, Kenya 134 2020 Jun 2
B.1.622 2021 Jan Réunion 76 No No 0 2020 Sep 1
B.1.629
 2021 Jan
 Belgium
 84
Unknown
 Guinea
 14
2021 Mar
 5
20B
B.1.1 2020 Jan UK 48,119 2020 Feb Nigeria 1,361 2020 Mar 16
B.1.1.39 2020 Mar Switzerland 1,861 No No 0 2021 Jan 1
B.1.1.142 2020 Mar Australia 51 No No 0 2021 Apr 1
B.1.1.236 2020 Feb UK 1,404 2020 Mar South Africa 36 2020 Mar 1
B.1.1.316.1‡ 2020 Jan Sierra Leone 10,444 2020 Jan Sierra Leone 35 2020 Dec 4
B.1.1.317 2020 Feb Russia 2,435 2020 Jun Zimbabwe 4 2020 Aug 1
B.1.1.318 2021 Jan UK 3,350 2021 Jan Nigeria 360 2021 Feb 6
B.1.1.372
 2020 Mar
 UK
 1,381
2020 May
 South Africa
 16
2020 Jul
 1
20C
B.1.575
 2020 Oct
 United States
 3,026
2020 Dec
 Senegal
 12
2021 Jan
 1
20D
B.1.1.1
 2020 Mar
 UK
 3,078
2020 Mar
 RDC
 169
2020 Sep
 8
20I
B.1.1.7 (Alpha)
 2020 Sep
 UK
 1,045,206
2020 Dec
 Ghana
 2,047
2021 Jan
 19
21A
B.1.617.2 (Delta)
 2020 Nov
 India
 261,339
2021 Mar
 South Africa
 1,662
2021 May
 16
21D
B.1.525 (Eta) 2020 Dec UK, Nigeria 7,752 2020 Dec Nigeria 581 2021 Jan 6

*Clades and lineages are respectively assigned according to Nextclade definition (https://github.com/nextstrain/ncov/blob/master/docs/src/reference/naming_clades.md) and PANGO lineages list (https://github.com/cov-lineages/pangolin) at the same assignment date (August 14, 2021). The Guinea sequences are distributed in 21 lineages clustered into 7 clades: 20A clade (n = 55, 40.44%) with 8 lineages (B.1, B.1.36.10, B.1.210, B.1.243, B.1.298, B.1.540, B.1.622, and B.1.629), 20B clade (n = 31, 22.80%) with 8 lineages (B.1.1, B.1.1.39, B.1.1.142, B.1.1.236, B.1.1.316.1, B.1.1.317, B.1.1.318, and B.1.1.372), 20C clade (n = 1, 0.74%) with 1 lineage (B.1.575), 20D clade (n = 8, 5.88%) with 1 lineage (B.1.1.1), 20I clade (n = 19, 13.97%) with 1 lineage (B.1.1.7 [Alpha]), 21A clade (n = 16, 11.76%) with 1 lineage (B.1.617.2 [Delta]) and 21D clade (n = 6, 4.41%) with 1 lineage (B.1.525 [Eta]). For each lineage, the first worldwide and African descriptions are provided (date and location), as well as the number of deposited sequences in GISAID (August 16, 2021). RDC, Democratic Republic of the Congo; SARS-CoV-2, severe acute respiratory syndrome coronavirus 2; UK, United Kingdom. †First description and number of sequences in this study. ‡B.1.1.316.1 lineage alias R.1.

Main Article

1These authors contributed equally to this article.

2Current affiliation: Institut Pasteur du Cambodge, Phnom Penh, Cambodia.

Page created: November 22, 2021
Page updated: January 23, 2022
Page reviewed: January 23, 2022
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