Heterogeneity of the Omicron variant in Senegal

Diédhiou, Cyrille K.; Padane, Abdou; Gueye, Khadim; Ndiour, Samba; Mboup, Aminata; Mbow, Moustapha; Lo, Cheikh Ibrahima; Leye, Nafissatou; Ndoye, Aissatou Sow; Ndiaye, Anna Julienne Selbé; Diagne, Ndéye Diabou; Ndiaye, Seyni; Dia, Yacine Amet; Lô, Gora; Wade, Djibril; Diaw, Papa Alassane; Sarr, Mare; Beye, Mamadou; Cissé, Badara; Sokhna, Cheikh; Camara, Makhtar; Ahouidi, Ambroise D.; Kâne, Ndèye Coumba Touré; Mboup, Souleymane

doi:10.1016/j.nmni.2022.100990

Cited by 2 publications

(1 citation statement)

References 2 publications

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“…At IRESSEF (Institut de Recherche en Santé, de Surveillance Epidémiologique et de Formation), we have successfully implemented a genomic laboratory facility that has performed in real time. This enabled us to identify for the first time the circulation of the Alpha and Omicron variants in Senegal 12,13 . The outcomes of this genomic surveillance contributed to the detection of variants of concern in each pandemic wave as well as other sub-lineages and viral recombinant forms 14 .…”

Section: Introductionmentioning

confidence: 99%

Specific Mutations Identified in Patients Vaccinated and Infected with COVID-19 in Senegal

Padane,

Wade,

Diedhiou

et al. 2024

MRAJ

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Background: Vaccination against SARS-CoV-2 is currently the best preventive measure to control the COVID-19 pandemic. However, in some cases, it appeared that despite the vaccination, some people were reinfected. Aim: The objective of this study is to monitor preliminary data of COVID-19 reinfection cases in vaccinated individuals in Senegal. Methods: In this study, we used the Oxford Nanopore MinION portable sequencer as detailed in the ARTIC network to test SARS-CoV-2 positive samples from reinfected patients. A total of 71 subjects were monitored with 37 vaccinated patients and 34 non-vaccinated and samples were sequenced in genomic platform at IRESSEF. Results: We noted the presence of three major lineages B.1.617.2, AY4 and AY34 in vaccinated people. In addition, the mutation W152R and two other mutations never described (T1136S and V1137L) were found in tested genomic sequences. Conclusion: These results will contribute to monitor future epidemics and to control the effectiveness of the vaccination against COVID-19 especially the Variant of Concern and allow us to improve surveillance for COVID-19 pandemic.

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Section: Introductionmentioning

confidence: 99%

Specific Mutations Identified in Patients Vaccinated and Infected with COVID-19 in Senegal

Padane,

Wade,

Diedhiou

et al. 2024

MRAJ

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Emergence of BA.4/BA.5 Omicron Sub-lineages and Increased SARSCoV- 2 Incidence in Senegal

Diagne

Diallo

Sankhe

et al. 2022

COVID

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Background: The Omicron variant B.1.1.529 has led to a new dynamic in the COVID-19 pandemic, with an increase in cases worldwide. Its rapid propagation favors the emergence of novel sub-lineages, including BA.4 and BA.5. The latter has shown increased transmissibility compared to other Omicron sub-lineages. In Senegal, the emergence of the Omicron variant in December 2021 characterized the triggering of a short and dense epidemiological wave that peaked at the end of February. This wave was followed by a period with a significant drop in the number of COVID-19 cases, but an upsurge in SARS-CoV-2 infection has been noted since mid-June. Objective: The purpose of this brief report is to give an update regarding the genomic situation of SARS-CoV-2 in Dakar during this phase of recrudescence of cases. Methods: We performed amplicon-based SARS-CoV-2 sequencing on nasopharyngeal swab samples from declared COVID-19 patients and outbound travelers that tested positive. Results: Ongoing genomic surveillance activities showed that more than half of recent COVID-19 cases were due to the BA.4 and BA.5 sub-lineages that share two critical mutations associated with increased transmissibility and immune response escape. The circulation of recombinants between Omicron sub-lineages was also noted. Conclusion: Despite the lack of proven severity of BA.4 and BA.5 sub-lineages, their increased transmissibility causes a rapid spread of the virus, hence a surge in the number of cases. This rapid spread constitutes a greater risk of exposure for vulnerable patients. To tackle this issue, any increase in the number of cases must be monitored to support public health stakeholders. Therefore, genomic surveillance is an ever-essential element in managing this pandemic.

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Heterogeneity of the Omicron variant in Senegal

Cited by 2 publications

References 2 publications

Specific Mutations Identified in Patients Vaccinated and Infected with COVID-19 in Senegal

Specific Mutations Identified in Patients Vaccinated and Infected with COVID-19 in Senegal

Emergence of BA.4/BA.5 Omicron Sub-lineages and Increased SARSCoV- 2 Incidence in Senegal

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