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Genomic surveillance of SARS-CoV-2 in the Republic of Congo.
Ntoumi, Francine; Mfoutou Mapanguy, Claujens Chastel; Tomazatos, Alexandru; Pallerla, Srinivas Reddy; Linh, Le Thi Kieu; Casadei, Nicolas; Angelov, Angel; Sonnabend, Michael; Peter, Silke; Kremsner, Peter G; Velavan, Thirumalaisamy P.
  • Ntoumi F; Institute of Tropical Medicine, Universitätsklinikum Tübingen, Tübingen, Germany; Fondation Congolaise pour la Recherche Médicale (FCRM), Brazzaville, Republic of Congo; Faculty of Sciences and Technology, University Marien Ngouabi, Brazzaville, Republic of Congo.
  • Mfoutou Mapanguy CC; Fondation Congolaise pour la Recherche Médicale (FCRM), Brazzaville, Republic of Congo; Faculty of Sciences and Technology, University Marien Ngouabi, Brazzaville, Republic of Congo.
  • Tomazatos A; Institute of Tropical Medicine, Universitätsklinikum Tübingen, Tübingen, Germany.
  • Pallerla SR; Institute of Tropical Medicine, Universitätsklinikum Tübingen, Tübingen, Germany.
  • Linh LTK; Institute of Tropical Medicine, Universitätsklinikum Tübingen, Tübingen, Germany; Vietnamese-German Center for Medical Research, VG-CARE, Hanoi, Vietnam.
  • Casadei N; NGS Competence Center Tübingen (NCCT), Tübingen, Germany; Institute of Medical Genetics and Applied Genomics, University of Tübingen, Tübingen, Germany.
  • Angelov A; NGS Competence Center Tübingen (NCCT), Tübingen, Germany; Institut für Medizinische Mikrobiologie und Hygiene, Universitätsklinikum Tübingen, Tübingen, Germany.
  • Sonnabend M; NGS Competence Center Tübingen (NCCT), Tübingen, Germany; Institut für Medizinische Mikrobiologie und Hygiene, Universitätsklinikum Tübingen, Tübingen, Germany.
  • Peter S; NGS Competence Center Tübingen (NCCT), Tübingen, Germany; Institut für Medizinische Mikrobiologie und Hygiene, Universitätsklinikum Tübingen, Tübingen, Germany.
  • Kremsner PG; Institute of Tropical Medicine, Universitätsklinikum Tübingen, Tübingen, Germany; Centre de Recherches Médicales de Lambaréné (CERMEL), Gabon.
  • Velavan TP; Institute of Tropical Medicine, Universitätsklinikum Tübingen, Tübingen, Germany; Vietnamese-German Center for Medical Research, VG-CARE, Hanoi, Vietnam. Electronic address: velavan@medizin.uni-tuebingen.de.
Int J Infect Dis ; 105: 735-738, 2021 Apr.
Article in English | MEDLINE | ID: covidwho-1141903
ABSTRACT

OBJECTIVE:

The aim of this study was to carry out whole-genome sequencing (WGS) of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), using samples collected from Congolese individuals between April and July 2020.

METHODS:

Ninety-six samples were screened for SARS-CoV-2 using RT-PCR, and 19 samples with Ct values <30 were sequenced using Illumina Next-Generation Sequencing (NGS). The genomes were annotated and screened for mutations using the web tool 'coronapp'. Subsequently, different SARS-CoV-2 lineages were assigned using PANGOLIN and Nextclade.

RESULTS:

Eleven SARS-CoV-2 genomes were successfully sequenced and submitted to the GSAID database. All genomes carried the spike mutation D614G and were classified as part of the GH clade. The Congolese SARS-CoV-2 sequences were shown to belong to lineage B1 and Nextclade 20A and 20C, which split them into distinct clusters, indicating two separate introductions of the virus into the Republic of Congo.

CONCLUSION:

This first study provides valuable information on SARS CoV-2 transmission in the central African region, contributing to SARS CoV-2 surveillance on a temporal and spatial scale.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: Genome, Viral / SARS-CoV-2 / COVID-19 Limits: Humans Country/Region as subject: Africa Language: English Journal: Int J Infect Dis Journal subject: Communicable Diseases Year: 2021 Document Type: Article

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Full text: Available Collection: International databases Database: MEDLINE Main subject: Genome, Viral / SARS-CoV-2 / COVID-19 Limits: Humans Country/Region as subject: Africa Language: English Journal: Int J Infect Dis Journal subject: Communicable Diseases Year: 2021 Document Type: Article