Epidemiology of Non-SARS-CoV2 Human Coronaviruses (HCoVs) in People Presenting with Influenza-like Illness (ILI) or Severe Acute Respiratory Infections (SARI) in Senegal from 2012 to 2020
In addition to emerging coronaviruses (SARS-CoV, MERS, SARS-CoV-2), there are seasonal human coronaviruses (HCoVs): HCoV-OC43, HCoV-229E, HCoV-NL63 and HCoV-HKU1. With a wide distribution around the world, HCoVs are usually associated with mild respiratory disease. In the elderly, young children and...
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| Format: | Article |
| Language: | English |
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MDPI AG
2022-12-01
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| Series: | Viruses |
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| Online Access: | https://www.mdpi.com/1999-4915/15/1/20 |
| _version_ | 1797436509952933888 |
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| author | Modeste Name Faye Mamadou Aliou Barry Mamadou Malado Jallow Serigne Fallou Wade Marie Pedapa Mendy Sara Sy Amary Fall Davy Evrard Kiori Ndiende Koba Ndiaye Deborah Goudiaby Arfang Diamanka Mbayame Ndiaye Niang Ndongo Dia |
| author_facet | Modeste Name Faye Mamadou Aliou Barry Mamadou Malado Jallow Serigne Fallou Wade Marie Pedapa Mendy Sara Sy Amary Fall Davy Evrard Kiori Ndiende Koba Ndiaye Deborah Goudiaby Arfang Diamanka Mbayame Ndiaye Niang Ndongo Dia |
| author_sort | Modeste Name Faye |
| collection | DOAJ |
| description | In addition to emerging coronaviruses (SARS-CoV, MERS, SARS-CoV-2), there are seasonal human coronaviruses (HCoVs): HCoV-OC43, HCoV-229E, HCoV-NL63 and HCoV-HKU1. With a wide distribution around the world, HCoVs are usually associated with mild respiratory disease. In the elderly, young children and immunocompromised patients, more severe or even fatal respiratory infections may be observed. In Africa, data on seasonal HCoV are scarce. This retrospective study investigated the epidemiology and genetic diversity of seasonal HCoVs during nine consecutive years of influenza-like illness surveillance in Senegal. Nasopharyngeal swabs were collected from ILI outpatients or from SARI hospitalized patients. HCoVs were diagnosed by qRT-PCR and the positive samples were selected for molecular characterization. Among 9337 samples tested for HCoV, 406 (4.3%) were positive: 235 (57.9%) OC43, 102 (25.1%) NL63, 58 (14.3%) 229E and 17 (4.2%) HKU1. The four types circulated during the study period and a peak was noted between November and January. Children under five were the most affected. Co-infections were observed between HCoV types (1.2%) or with other viruses (76.1%). Genetically, HCoVs types showed diversity. The results highlighted that the impact of HCoVs must be taken into account in public health; monitoring them is therefore particularly necessary both in the most sensitive populations and in animals. |
| first_indexed | 2024-03-09T11:03:40Z |
| format | Article |
| id | doaj.art-e2edc293b46e46059359ebc6149ae6f6 |
| institution | Directory Open Access Journal |
| issn | 1999-4915 |
| language | English |
| last_indexed | 2024-03-09T11:03:40Z |
| publishDate | 2022-12-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Viruses |
| spelling | doaj.art-e2edc293b46e46059359ebc6149ae6f62023-12-01T01:06:20ZengMDPI AGViruses1999-49152022-12-011512010.3390/v15010020Epidemiology of Non-SARS-CoV2 Human Coronaviruses (HCoVs) in People Presenting with Influenza-like Illness (ILI) or Severe Acute Respiratory Infections (SARI) in Senegal from 2012 to 2020Modeste Name Faye0Mamadou Aliou Barry1Mamadou Malado Jallow2Serigne Fallou Wade3Marie Pedapa Mendy4Sara Sy5Amary Fall6Davy Evrard Kiori7Ndiende Koba Ndiaye8Deborah Goudiaby9Arfang Diamanka10Mbayame Ndiaye Niang11Ndongo Dia12Département de Virologie, Institut Pasteur de Dakar, Dakar 12900, SenegalEpidemiology, Clinical Research and Data Science Department, Institut Pasteur de Dakar, Dakar 12900, SenegalDépartement de Virologie, Institut Pasteur de Dakar, Dakar 12900, SenegalEcole Supérieure des Sciences Agricoles et de l’Alimentation (ES2A), Université Amadou Makhtar MBOW de Dakar (UAM), Dakar 12900, SenegalDépartement de Virologie, Institut Pasteur de Dakar, Dakar 12900, SenegalDépartement de Virologie, Institut Pasteur de Dakar, Dakar 12900, SenegalDépartement de Virologie, Institut Pasteur de Dakar, Dakar 12900, SenegalDépartement de Virologie, Institut Pasteur de Dakar, Dakar 12900, SenegalDépartement de Virologie, Institut Pasteur de Dakar, Dakar 12900, SenegalDépartement de Virologie, Institut Pasteur de Dakar, Dakar 12900, SenegalDépartement de Biologie Animale, Faculté des Sciences et Techniques, Université Cheikh Anta DIOP de Dakar, Dakar 12900, SenegalDépartement de Virologie, Institut Pasteur de Dakar, Dakar 12900, SenegalDépartement de Virologie, Institut Pasteur de Dakar, Dakar 12900, SenegalIn addition to emerging coronaviruses (SARS-CoV, MERS, SARS-CoV-2), there are seasonal human coronaviruses (HCoVs): HCoV-OC43, HCoV-229E, HCoV-NL63 and HCoV-HKU1. With a wide distribution around the world, HCoVs are usually associated with mild respiratory disease. In the elderly, young children and immunocompromised patients, more severe or even fatal respiratory infections may be observed. In Africa, data on seasonal HCoV are scarce. This retrospective study investigated the epidemiology and genetic diversity of seasonal HCoVs during nine consecutive years of influenza-like illness surveillance in Senegal. Nasopharyngeal swabs were collected from ILI outpatients or from SARI hospitalized patients. HCoVs were diagnosed by qRT-PCR and the positive samples were selected for molecular characterization. Among 9337 samples tested for HCoV, 406 (4.3%) were positive: 235 (57.9%) OC43, 102 (25.1%) NL63, 58 (14.3%) 229E and 17 (4.2%) HKU1. The four types circulated during the study period and a peak was noted between November and January. Children under five were the most affected. Co-infections were observed between HCoV types (1.2%) or with other viruses (76.1%). Genetically, HCoVs types showed diversity. The results highlighted that the impact of HCoVs must be taken into account in public health; monitoring them is therefore particularly necessary both in the most sensitive populations and in animals.https://www.mdpi.com/1999-4915/15/1/20respiratory infectionshuman coronavirusesepidemiologyILISARIcoronavirus characterization |
| spellingShingle | Modeste Name Faye Mamadou Aliou Barry Mamadou Malado Jallow Serigne Fallou Wade Marie Pedapa Mendy Sara Sy Amary Fall Davy Evrard Kiori Ndiende Koba Ndiaye Deborah Goudiaby Arfang Diamanka Mbayame Ndiaye Niang Ndongo Dia Epidemiology of Non-SARS-CoV2 Human Coronaviruses (HCoVs) in People Presenting with Influenza-like Illness (ILI) or Severe Acute Respiratory Infections (SARI) in Senegal from 2012 to 2020 Viruses respiratory infections human coronaviruses epidemiology ILI SARI coronavirus characterization |
| title | Epidemiology of Non-SARS-CoV2 Human Coronaviruses (HCoVs) in People Presenting with Influenza-like Illness (ILI) or Severe Acute Respiratory Infections (SARI) in Senegal from 2012 to 2020 |
| title_full | Epidemiology of Non-SARS-CoV2 Human Coronaviruses (HCoVs) in People Presenting with Influenza-like Illness (ILI) or Severe Acute Respiratory Infections (SARI) in Senegal from 2012 to 2020 |
| title_fullStr | Epidemiology of Non-SARS-CoV2 Human Coronaviruses (HCoVs) in People Presenting with Influenza-like Illness (ILI) or Severe Acute Respiratory Infections (SARI) in Senegal from 2012 to 2020 |
| title_full_unstemmed | Epidemiology of Non-SARS-CoV2 Human Coronaviruses (HCoVs) in People Presenting with Influenza-like Illness (ILI) or Severe Acute Respiratory Infections (SARI) in Senegal from 2012 to 2020 |
| title_short | Epidemiology of Non-SARS-CoV2 Human Coronaviruses (HCoVs) in People Presenting with Influenza-like Illness (ILI) or Severe Acute Respiratory Infections (SARI) in Senegal from 2012 to 2020 |
| title_sort | epidemiology of non sars cov2 human coronaviruses hcovs in people presenting with influenza like illness ili or severe acute respiratory infections sari in senegal from 2012 to 2020 |
| topic | respiratory infections human coronaviruses epidemiology ILI SARI coronavirus characterization |
| url | https://www.mdpi.com/1999-4915/15/1/20 |
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