Genomic surveillance of SARS-CoV-2 reveals highest severity and mortality of delta over other variants: evidence from Cameroon.
Journal
Scientific reports
ISSN: 2045-2322
Titre abrégé: Sci Rep
Pays: England
ID NLM: 101563288
Informations de publication
Date de publication:
08 Dec 2023
08 Dec 2023
Historique:
received:
22
12
2022
accepted:
30
11
2023
medline:
9
12
2023
pubmed:
9
12
2023
entrez:
8
12
2023
Statut:
epublish
Résumé
While the SARS-CoV-2 dynamic has been described globally, there is a lack of data from Sub-Saharan Africa. We herein report the dynamics of SARS-CoV-2 lineages from March 2020 to March 2022 in Cameroon. Of the 760 whole-genome sequences successfully generated by the national genomic surveillance network, 74% were viral sub-lineages of origin and non-variants of concern, 15% Delta, 6% Omicron, 3% Alpha and 2% Beta variants. The pandemic was driven by SARS-CoV-2 lineages of origin in wave 1 (16 weeks, 2.3% CFR), the Alpha and Beta variants in wave 2 (21 weeks, 1.6% CFR), Delta variants in wave 3 (11 weeks, 2.0% CFR), and omicron variants in wave 4 (8 weeks, 0.73% CFR), with a declining trend over time (p = 0.01208). Even though SARS-CoV-2 heterogeneity did not seemingly contribute to the breadth of transmission, the viral lineages of origin and especially the Delta variants appeared as drivers of COVID-19 severity in Cameroon.
Identifiants
pubmed: 38066020
doi: 10.1038/s41598-023-48773-3
pii: 10.1038/s41598-023-48773-3
pmc: PMC10709425
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
21654Subventions
Organisme : European and Developing Countries Clinical Trials Partnership
ID : RIA2020 EF3000
Organisme : Bill and Melinda Gates Foundation
ID : INV_036532
Organisme : Deutsche Gesellschaft für Internationale Zusammenarbeit
ID : 81279054
Investigateurs
Serge Alain Sadeuh Mba
(SAS)
Paul-Alain Tagnoukam Ngoupou
(PT)
Moumbeket Yifomnjou Henri
(MY)
Bertrand Eyoum
(B)
Grace Beloumou
(G)
Guy Pascal Ngaba
(GP)
Christiane Medi
(C)
Lydie Nyatte
(L)
Melissa Sanders
(M)
Marie Amougou
(M)
Loko Bille
(L)
Kizito Atehambe Buyohnwenda
(KA)
Claudine Ngomtcho
(C)
Abas Mouliom
(A)
Fai Karl Gwei Njuwa
(FKG)
Gisele Nke Ateba
(GN)
Alex Nka
(A)
Laura Dimite
(L)
Adama N Dir
(AN)
Carole Eboumbou
(C)
Informations de copyright
© 2023. The Author(s).
Références
Nat Genet. 2022 Apr;54(4):499-507
pubmed: 35347305
Vaccines (Basel). 2022 Mar 24;10(4):
pubmed: 35455246
Front Public Health. 2021 Nov 30;9:775224
pubmed: 34917580
Lancet Microbe. 2021 Apr;2(4):e139
pubmed: 33817677
Nat Commun. 2020 Dec 9;11(1):6317
pubmed: 33298944
Lancet Microbe. 2020 Oct;1(6):e227-e228
pubmed: 32838350
EBioMedicine. 2021 Jun;68:103403
pubmed: 34049240
Elife. 2022 Aug 09;11:
pubmed: 35943138
Heliyon. 2021 Jan 09;7(1):e05951
pubmed: 33490695
Environ Res. 2022 Jun;209:112816
pubmed: 35093310
BMJ Glob Health. 2021 Dec;6(12):
pubmed: 34853031
Sex Transm Dis. 1981 Oct-Dec;8(4 suppl):336-43
pubmed: 6895799
Nat Commun. 2022 Nov 16;13(1):7003
pubmed: 36385137
Nature. 2022 Mar;603(7899):22-24
pubmed: 35210605
BMC Health Serv Res. 2021 Aug 21;21(1):855
pubmed: 34419034
Lancet Microbe. 2021 Sep;2(9):e481-e484
pubmed: 34337584
Pan Afr Med J. 2021 Mar 08;38:246
pubmed: 34104294
Int J Biol Sci. 2022 Feb 14;18(5):1844-1851
pubmed: 35342345
Front Public Health. 2020 Jul 28;8:418
pubmed: 32850607
CMAJ. 2021 Jul 12;193(27):E1059-E1060
pubmed: 34253551
Vaccines (Basel). 2022 Jun 09;10(6):
pubmed: 35746526
Lancet. 2022 Jan 29;399(10323):437-446
pubmed: 35065011
J Family Med Prim Care. 2021 Mar;10(3):1443-1452
pubmed: 34041192
BMC Public Health. 2022 Mar 7;22(1):456
pubmed: 35255849
N Engl J Med. 2021 Jul 29;385(5):389-391
pubmed: 34107199
Front Med (Lausanne). 2022 Jan 10;8:784632
pubmed: 35083244
Women Birth. 2022 Jul;35(4):403-412
pubmed: 34493479
Front Public Health. 2021 Jan 12;8:577018
pubmed: 33585379
Sci Rep. 2022 Mar 18;12(1):4704
pubmed: 35304553
PLoS One. 2021 May 12;16(5):e0251504
pubmed: 33979402
PLoS One. 2022 Mar 3;17(3):e0252526
pubmed: 35239677
Nat Rev Mol Cell Biol. 2022 Jan;23(1):3-20
pubmed: 34611326
BMC Med. 2022 May 2;20(1):167
pubmed: 35501853
Life (Basel). 2022 Jan 25;12(2):
pubmed: 35207458
Microbiol Resour Announc. 2021 Mar 11;10(10):
pubmed: 33707325
Nat Commun. 2022 Feb 15;13(1):871
pubmed: 35169135