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Volume 26, Number 11—November 2020
Research Letter

COVID-19 Outbreak, Senegal, 2020

Ndongo Dia1Comments to Author , Ndeye Aïssatou Lakh1, Moussa Moise Diagne, Khardiata Diallo Mbaye, Fabien Taieb, Ndeye Maguette Fall, Mamadou Alioune Barry, Daye Ka, Amary Fall, Viviane Marie Pierre Cisse Diallo, Oumar Faye, Mamadou Malado Jallow, Idrissa Dieng, Mamadou Ndiaye, Mamadou Diop, Abdoulaye Bousso, Cheikh loucoubar, Marie Khemesse Ngom Ndiaye, Christophe Peyreffite, Louise Fortes, Amadou Alpha Sall, Ousmane Faye1, and Moussa Seydi1
Author affiliations: Institut Pasteur, Dakar, Senegal (N. Dia, M.M. Diagne, F. Taieb, M.A. Barry, A. Fall, Oumar Faye, M.M. Jallow, I. Dieng, M. Diop, C. Ioucoubar, C. Peyreffite, A.A. Sall, Ousmane Faye, M. Seydi); Service des Maladies infectieuses de l'hôpital Fann, Dakar (N.A. Lakh, K.D. Mbaye, N.M. Fall, D. Ka, V.M.P.C. Diallo, L. Fortes); Ministère de la Santé et de l’Action Sociale (MSAS), Dakar (M. Ndiaye, A. Bousso, M.K.N. Ndiaye)

Main Article

Figure

Phylogeny of 4 severe acute respiratory syndrome coronavirus 2 strains isolated from Senegal (green dots). Whole-genome nucleotide sequences were compared with 56 other genome sequences from the coronavirus disease pandemic retrieved from GenBank and GISAID (https://www.gisaid.org) databases. Sequences were aligned with MAFFT (https://mafft.cbrc.jp/alignment/server). We generated the phylogenetic tree by the maximum-likelihood method under the HKY85-gamma nucleotide substitution model using IQ-TREE (http://www.cibiv.at/software/iqtree). We assessed robustness of tree topology with 1,000 replicates; bootstrap values >75% are shown on the branches of the consensus trees. Phylogenetic analyses revealed that strains from Senegal clustered with strains from diverse origins (Europe, Asia, Latin America, and Africa). CoV, coronavirus; hCoV, human coronavirus.

Figure. Phylogeny of 4 severe acute respiratory syndrome coronavirus 2 strains isolated from Senegal (green dots). Whole-genome nucleotide sequences were compared with 56 other genome sequences from the coronavirus disease pandemic retrieved from GenBank and GISAID (https://www.gisaid.org) databases. Sequences were aligned with MAFFT (https://mafft.cbrc.jp/alignment/server). We generated the phylogenetic tree by the maximum-likelihood method under the HKY85-gamma nucleotide substitution model using IQ-TREE (http://www.cibiv.at/software/iqtree). We assessed robustness of tree topology with 1,000 replicates; bootstrap values >75% are shown on the branches of the consensus trees. Phylogenetic analyses revealed that strains from Senegal clustered with strains from diverse origins (Europe, Asia, Latin America, and Africa). CoV, coronavirus; hCoV, human coronavirus.

Main Article

1These authors contributed equally to this article.

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