tetano
Editor, Senior Moderator
Int J Infect Dis
. 2021 Mar 15;S1201-9712(21)00254-X.
doi: 10.1016/j.ijid.2021.03.036. Online ahead of print.
Genomic surveillance of SARS-CoV-2 in the Republic of Congo
Francine Ntoumi[SUP] 1 [/SUP], Claujens Chastel Mfoutou Mapanguy[SUP] 2 [/SUP], Alexandru Tomazatos[SUP] 3 [/SUP], Srinivas Reddy Pallerla[SUP] 3 [/SUP], Le Thi Kieu Linh[SUP] 4 [/SUP], Nicolas Casadei[SUP] 5 [/SUP], Angel Angelov[SUP] 6 [/SUP], Michael Sonnabend[SUP] 6 [/SUP], Silke Peter[SUP] 6 [/SUP], Peter G Kremsner[SUP] 7 [/SUP], Thirumalaisamy P Velavan[SUP] 8 [/SUP]
Affiliations
Abstract
Objective: We performed whole-genome sequencing (WGS) of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) from Congolese individuals sampled between April and July 2020.
Methods: We screened 96 samples 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 D614 G and were classified as part of the GH clade. The Congolese SARS-CoV-2 sequences belong to lineage B1 and nextclade 20A and 20C, which split 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.
Keywords: D614G; Republic of Congo; SARS-CoV-2; SARS-CoV-2 variants; lineage B1; whole genome sequencing.
. 2021 Mar 15;S1201-9712(21)00254-X.
doi: 10.1016/j.ijid.2021.03.036. Online ahead of print.
Genomic surveillance of SARS-CoV-2 in the Republic of Congo
Francine Ntoumi[SUP] 1 [/SUP], Claujens Chastel Mfoutou Mapanguy[SUP] 2 [/SUP], Alexandru Tomazatos[SUP] 3 [/SUP], Srinivas Reddy Pallerla[SUP] 3 [/SUP], Le Thi Kieu Linh[SUP] 4 [/SUP], Nicolas Casadei[SUP] 5 [/SUP], Angel Angelov[SUP] 6 [/SUP], Michael Sonnabend[SUP] 6 [/SUP], Silke Peter[SUP] 6 [/SUP], Peter G Kremsner[SUP] 7 [/SUP], Thirumalaisamy P Velavan[SUP] 8 [/SUP]
Affiliations
- PMID: 33737129
- DOI: 10.1016/j.ijid.2021.03.036
Abstract
Objective: We performed whole-genome sequencing (WGS) of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) from Congolese individuals sampled between April and July 2020.
Methods: We screened 96 samples 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 D614 G and were classified as part of the GH clade. The Congolese SARS-CoV-2 sequences belong to lineage B1 and nextclade 20A and 20C, which split 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.
Keywords: D614G; Republic of Congo; SARS-CoV-2; SARS-CoV-2 variants; lineage B1; whole genome sequencing.