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Genomic Profile of SARS-COV-2 Associated with COVID-19 Outbreaks in N’Djamena, Chad

Advances in Bioscience and Biotechnology 2024年第7期15卷 432-442页

作者： mathieu hota Henry Yandai Fissou Dezoumbe Koutaya Djallaye Djimtoïbaye Mahamat Moussa Ali cole Doctorale Sciences Techniques et Environnement Universit de NDjamena NDjamena Tchad Institut de Recherche en Elevage pour le Dveloppement NDjamena Tchad Laboratoire des Grandes pidmies Tropicales du CHU le Bon Samaritain NDjamena Tchad Facult des Sciences de la Sant Humaine (FSSH) Universit de NDjamena NDjamena Tchad

Background: SARS-CoV-2 has circulated worldwide with dramatic consequences. In Chad, we have no data reported of variants. The aim of this study was to identify the SARS-CoV-2 variants that circulated during the epidemic from 2020 to 2021. Methods: This is a cross-sectional, descriptive study carried out between 2020 and 2021. Samples from patients with suspected COVID-19 were tested in five laboratories in N’Djamena. One hundred quality samples of the positives were sequenced in Kinshasa using Oxford nanopore technologies minion and the Protocol Midnight SARS-CoV2. Data were processed using Excel version 16 software. Results: Of the 100 samples sequenced, 77 (77%) produced sequences, 23 (23%) did not. The genomic profiles were wild-type Wuhan and minor mutations (19A, 19B (A), 20A (B.1, B.2), 20B (AV.1), 20D (B.1.1.1 /C.36), 20C), variant of concern Alpha (20I), variant of concern Delta (21A/J), variant of interest Eta (21D), variant of concern Omicron (21K) and unclassified variant under surveillance (B.1.640). Of these variants, the maximums were detected in patients aged 26 - 35 with 30.26% and 25.26% in 36 - 45. However, 24.67% were in travelers and 75.32% in residents, 35.06% in those vaccinated against COVID-19 and 62.33% in non-vaccinates. The estimated case-fatality rate was 2.44% (107/4374). Conclusion: This work has provided preliminary data on COVID-19 and SARS-CoV-2 variants circulating during the 2020-2021 epidemics in Chad.

关键词： COVID-19 SARS-CoV-2 Genomic Profile Variant Chad

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