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SARS-CoV-2 B.1.214.1, B.1.214.2 and B.1.620 are predominant lineages between December 2020 and July 2021 in the Republic of Congo.
Mfoutou Mapanguy, Claujens Chastel; Batchi-Bouyou, Armel Landry; Djontu, Jean Claude; Pallerla, Srinivas Reddy; Ngoma, Chamy Helga; Linh, Le Thi Kieu; Rachakonda, Sivaramakrishna; Casadei, Nicolas; Angelov, Angel; Sonnabend, Michael; Vouvoungui, Jeannhey Christevy; Ampa, Raoul; Nguimbi, Etienne; Peter, Silke; Kremsner, Peter G; Montaldo, Chiara; Velavan, Thirumalaisamy P; Ntoumi, Francine.
  • Mfoutou Mapanguy CC; Fondation Congolaise pour la Recherche Médicale (FCRM), Brazzaville, Republic of Congo.
  • Batchi-Bouyou AL; Faculty of Sciences and Technology, University Marien Ngouabi, Brazzaville, Republic of Congo.
  • Djontu JC; Fondation Congolaise pour la Recherche Médicale (FCRM), Brazzaville, Republic of Congo.
  • Pallerla SR; Faculty of Sciences and Technology, University Marien Ngouabi, Brazzaville, Republic of Congo.
  • Ngoma CH; Fondation Congolaise pour la Recherche Médicale (FCRM), Brazzaville, Republic of Congo.
  • Linh LTK; Institute of Tropical Medicine, Universitätsklinikum Tübingen, Tübingen, Germany.
  • Rachakonda S; Vietnamese-German Center for Medical Research, VG-CARE, Hanoi, Vietnam.
  • Casadei N; Fondation Congolaise pour la Recherche Médicale (FCRM), Brazzaville, Republic of Congo.
  • Angelov A; Faculty of Sciences and Technology, University Marien Ngouabi, Brazzaville, Republic of Congo.
  • Sonnabend M; Institute of Tropical Medicine, Universitätsklinikum Tübingen, Tübingen, Germany.
  • Vouvoungui JC; Vietnamese-German Center for Medical Research, VG-CARE, Hanoi, Vietnam.
  • Ampa R; Institute of Tropical Medicine, Universitätsklinikum Tübingen, Tübingen, Germany.
  • Nguimbi E; Institute for Medical Genetics and Applied Genomics, University of Tübingen, Tübingen, Germany.
  • Peter S; NGS Competence Center Tübingen (NCCT), Tübingen, Germany.
  • Kremsner PG; NGS Competence Center Tübingen (NCCT), Tübingen, Germany.
  • Montaldo C; Institut für Medizinische Mikrobiologie und Hygiene, Universitätsklinikum Tübingen, Tübingen, Germany.
  • Velavan TP; NGS Competence Center Tübingen (NCCT), Tübingen, Germany.
  • Ntoumi F; Institut für Medizinische Mikrobiologie und Hygiene, Universitätsklinikum Tübingen, Tübingen, Germany.
IJID Reg ; 3: 106-113, 2022 Jun.
Article Dans Anglais | MEDLINE | ID: covidwho-2179645
ABSTRACT

Background:

SARS-CoV-2 variants have been emerging and are shown to increase transmissibility, pathogenicity, and decreased vaccine efficacies. The objective of this study was to determine the distribution, prevalence, and dynamics of SARS-CoV-2 variants circulating in Brazzaville, the Republic of Congo (ROC).

Methods:

Between December 2020 and July 2021, a total of n=600 oropharyngeal specimens collected in the community were tested for COVID-19. Of the samples tested, 317 (53%) were SARS-CoV-2 positive. All samples that had a threshold of Ct <30 (n=182) were sequenced by next-generation sequencing (NGS), and all complete sequenced genomes were submitted to GISAID; lineages were assigned using pangolin nomenclature and a phylogenetic tree was reconstructed. In addition, the global prevalence of the predominant lineages was analysed using data from GISAID and Outbreak databases.

Results:

A total of 15 lineages circulated with B.1.214.2 (26%), B.1.214.1 (19%) and B.1.620 (18%) being predominant. The variants of concern (VOC) alpha (B.1.1.7) (6%) and for the first time in June delta (B.1.617.2) (4%) were observed. In addition, the B.1.214.1 lineage first reported from ROC was observed to be spreading locally and regionally. Phylogenetic analysis suggests that the B.1.620 variant (VUM) under observation may have originated from either Cameroon or the Central African Republic. SARS-CoV-2 lineages were heterogeneous, with the densely populated districts of Poto-Poto and Moungali likely the epicenter of spread.

Conclusion:

Longitudinal monitoring and molecular surveillance across time and space are critical to understanding viral phylodynamics, which could have important implications for transmissibility and impact infection prevention and control measures.
Mots clés

Texte intégral: Disponible Collection: Bases de données internationales Base de données: MEDLINE Type d'étude: Étude observationnelle / Étude pronostique Les sujets: Vaccins / Variantes langue: Anglais Revue: IJID Reg Année: 2022 Type de document: Article

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Texte intégral: Disponible Collection: Bases de données internationales Base de données: MEDLINE Type d'étude: Étude observationnelle / Étude pronostique Les sujets: Vaccins / Variantes langue: Anglais Revue: IJID Reg Année: 2022 Type de document: Article