Genetic diversity and molecular epidemiology of Middle East Respiratory Syndrome Coronavirus in dromedaries in Ethiopia, 2017-2020
Middle East respiratory syndrome coronavirus (MERS-CoV) is enzootic in dromedary camels and causes zoonotic infection and disease in humans. Although over 80% of the global population of infected dromedary camels are found in Africa, zoonotic disease had only been reported in the Arabia Peninsula and travel-associated disease has been reported elsewhere. In this study, genetic diversity and molecular epidemiology of MERS-CoV in dromedary camels in Ethiopia were investigated during 2017–2020. Of 1766 nasal swab samples collected, 61 (3.5%) were detected positive for MERS-CoV RNA. Of 484 turbinate swab samples collected, 10 (2.1%) were detected positive for MERS-CoV RNA. Twenty-five whole genome sequences were obtained from these MERS-CoV positive samples. Phylogenetically, these Ethiopian camel-originated MERS-CoV belonged to clade C2, clustering with other East African camel strains. Virus sequences from camel herds clustered geographically while in an abattoir, two distinct phylogenetic clusters of MERS-CoVs were observed in two sequential sampling collections, which indicates the greater genetic diversity of MERS-CoV in abattoirs. In contrast to clade A and B viruses from the Arabian Peninsula, clade C camel-originated MERS-CoV from Ethiopia had various nucleotide insertions and deletions in non-structural gene nsp3, accessory genes ORF3 and ORF5 and structural gene N. This study demonstrates the genetic instability of MERS-CoV in dromedaries in East Africa, which indicates that the virus is still actively adapting to its camel host. The impact of the observed nucleotide insertions and deletions on virus evolution, viral fitness, and zoonotic potential deserves further study.
Main Authors: | , , , , , , , , , , , , , , , , , , |
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Format: | article biblioteca |
Language: | eng |
Subjects: | L73 - Maladies des animaux, dromadaire, épidémiologie, surveillance épidémiologique, zoonose, phylogénie, variation génétique, transmission des maladies, impact sur l'environnement, Orthocoronavirinae, http://aims.fao.org/aos/agrovoc/c_10467, http://aims.fao.org/aos/agrovoc/c_2615, http://aims.fao.org/aos/agrovoc/c_16411, http://aims.fao.org/aos/agrovoc/c_8530, http://aims.fao.org/aos/agrovoc/c_13325, http://aims.fao.org/aos/agrovoc/c_15975, http://aims.fao.org/aos/agrovoc/c_2329, http://aims.fao.org/aos/agrovoc/c_24420, http://aims.fao.org/aos/agrovoc/c_37003, http://aims.fao.org/aos/agrovoc/c_2676, |
Online Access: | http://agritrop.cirad.fr/608522/ http://agritrop.cirad.fr/608522/1/ID608522.pdf |
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L73 - Maladies des animaux dromadaire épidémiologie surveillance épidémiologique zoonose phylogénie variation génétique transmission des maladies impact sur l'environnement Orthocoronavirinae http://aims.fao.org/aos/agrovoc/c_10467 http://aims.fao.org/aos/agrovoc/c_2615 http://aims.fao.org/aos/agrovoc/c_16411 http://aims.fao.org/aos/agrovoc/c_8530 http://aims.fao.org/aos/agrovoc/c_13325 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_2329 http://aims.fao.org/aos/agrovoc/c_24420 http://aims.fao.org/aos/agrovoc/c_37003 http://aims.fao.org/aos/agrovoc/c_2676 L73 - Maladies des animaux dromadaire épidémiologie surveillance épidémiologique zoonose phylogénie variation génétique transmission des maladies impact sur l'environnement Orthocoronavirinae http://aims.fao.org/aos/agrovoc/c_10467 http://aims.fao.org/aos/agrovoc/c_2615 http://aims.fao.org/aos/agrovoc/c_16411 http://aims.fao.org/aos/agrovoc/c_8530 http://aims.fao.org/aos/agrovoc/c_13325 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_2329 http://aims.fao.org/aos/agrovoc/c_24420 http://aims.fao.org/aos/agrovoc/c_37003 http://aims.fao.org/aos/agrovoc/c_2676 |
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L73 - Maladies des animaux dromadaire épidémiologie surveillance épidémiologique zoonose phylogénie variation génétique transmission des maladies impact sur l'environnement Orthocoronavirinae http://aims.fao.org/aos/agrovoc/c_10467 http://aims.fao.org/aos/agrovoc/c_2615 http://aims.fao.org/aos/agrovoc/c_16411 http://aims.fao.org/aos/agrovoc/c_8530 http://aims.fao.org/aos/agrovoc/c_13325 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_2329 http://aims.fao.org/aos/agrovoc/c_24420 http://aims.fao.org/aos/agrovoc/c_37003 http://aims.fao.org/aos/agrovoc/c_2676 L73 - Maladies des animaux dromadaire épidémiologie surveillance épidémiologique zoonose phylogénie variation génétique transmission des maladies impact sur l'environnement Orthocoronavirinae http://aims.fao.org/aos/agrovoc/c_10467 http://aims.fao.org/aos/agrovoc/c_2615 http://aims.fao.org/aos/agrovoc/c_16411 http://aims.fao.org/aos/agrovoc/c_8530 http://aims.fao.org/aos/agrovoc/c_13325 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_2329 http://aims.fao.org/aos/agrovoc/c_24420 http://aims.fao.org/aos/agrovoc/c_37003 http://aims.fao.org/aos/agrovoc/c_2676 Zhou, Ziqi Ali, Abraham Walelign, Elias Demissie, Getnet Fekadu El Masry, Ihab Abayneh, Takele Getachew, Belayneh Krishnan, Pavithra Ng, Daisy Y.M. Gardner, Emma Makonnen, Yilma Miguel, Eve Chevalier, Véronique Chu, Daniel K.W. So, Ray T.Y. Von Dobschuetz, Sophie Mamo, Gezahegne Poon, Leo L.M. Peiris, Malik Genetic diversity and molecular epidemiology of Middle East Respiratory Syndrome Coronavirus in dromedaries in Ethiopia, 2017-2020 |
description |
Middle East respiratory syndrome coronavirus (MERS-CoV) is enzootic in dromedary camels and causes zoonotic infection and disease in humans. Although over 80% of the global population of infected dromedary camels are found in Africa, zoonotic disease had only been reported in the Arabia Peninsula and travel-associated disease has been reported elsewhere. In this study, genetic diversity and molecular epidemiology of MERS-CoV in dromedary camels in Ethiopia were investigated during 2017–2020. Of 1766 nasal swab samples collected, 61 (3.5%) were detected positive for MERS-CoV RNA. Of 484 turbinate swab samples collected, 10 (2.1%) were detected positive for MERS-CoV RNA. Twenty-five whole genome sequences were obtained from these MERS-CoV positive samples. Phylogenetically, these Ethiopian camel-originated MERS-CoV belonged to clade C2, clustering with other East African camel strains. Virus sequences from camel herds clustered geographically while in an abattoir, two distinct phylogenetic clusters of MERS-CoVs were observed in two sequential sampling collections, which indicates the greater genetic diversity of MERS-CoV in abattoirs. In contrast to clade A and B viruses from the Arabian Peninsula, clade C camel-originated MERS-CoV from Ethiopia had various nucleotide insertions and deletions in non-structural gene nsp3, accessory genes ORF3 and ORF5 and structural gene N. This study demonstrates the genetic instability of MERS-CoV in dromedaries in East Africa, which indicates that the virus is still actively adapting to its camel host. The impact of the observed nucleotide insertions and deletions on virus evolution, viral fitness, and zoonotic potential deserves further study. |
format |
article |
topic_facet |
L73 - Maladies des animaux dromadaire épidémiologie surveillance épidémiologique zoonose phylogénie variation génétique transmission des maladies impact sur l'environnement Orthocoronavirinae http://aims.fao.org/aos/agrovoc/c_10467 http://aims.fao.org/aos/agrovoc/c_2615 http://aims.fao.org/aos/agrovoc/c_16411 http://aims.fao.org/aos/agrovoc/c_8530 http://aims.fao.org/aos/agrovoc/c_13325 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_2329 http://aims.fao.org/aos/agrovoc/c_24420 http://aims.fao.org/aos/agrovoc/c_37003 http://aims.fao.org/aos/agrovoc/c_2676 |
author |
Zhou, Ziqi Ali, Abraham Walelign, Elias Demissie, Getnet Fekadu El Masry, Ihab Abayneh, Takele Getachew, Belayneh Krishnan, Pavithra Ng, Daisy Y.M. Gardner, Emma Makonnen, Yilma Miguel, Eve Chevalier, Véronique Chu, Daniel K.W. So, Ray T.Y. Von Dobschuetz, Sophie Mamo, Gezahegne Poon, Leo L.M. Peiris, Malik |
author_facet |
Zhou, Ziqi Ali, Abraham Walelign, Elias Demissie, Getnet Fekadu El Masry, Ihab Abayneh, Takele Getachew, Belayneh Krishnan, Pavithra Ng, Daisy Y.M. Gardner, Emma Makonnen, Yilma Miguel, Eve Chevalier, Véronique Chu, Daniel K.W. So, Ray T.Y. Von Dobschuetz, Sophie Mamo, Gezahegne Poon, Leo L.M. Peiris, Malik |
author_sort |
Zhou, Ziqi |
title |
Genetic diversity and molecular epidemiology of Middle East Respiratory Syndrome Coronavirus in dromedaries in Ethiopia, 2017-2020 |
title_short |
Genetic diversity and molecular epidemiology of Middle East Respiratory Syndrome Coronavirus in dromedaries in Ethiopia, 2017-2020 |
title_full |
Genetic diversity and molecular epidemiology of Middle East Respiratory Syndrome Coronavirus in dromedaries in Ethiopia, 2017-2020 |
title_fullStr |
Genetic diversity and molecular epidemiology of Middle East Respiratory Syndrome Coronavirus in dromedaries in Ethiopia, 2017-2020 |
title_full_unstemmed |
Genetic diversity and molecular epidemiology of Middle East Respiratory Syndrome Coronavirus in dromedaries in Ethiopia, 2017-2020 |
title_sort |
genetic diversity and molecular epidemiology of middle east respiratory syndrome coronavirus in dromedaries in ethiopia, 2017-2020 |
url |
http://agritrop.cirad.fr/608522/ http://agritrop.cirad.fr/608522/1/ID608522.pdf |
work_keys_str_mv |
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dig-cirad-fr-6085222024-03-04T21:34:50Z http://agritrop.cirad.fr/608522/ http://agritrop.cirad.fr/608522/ Genetic diversity and molecular epidemiology of Middle East Respiratory Syndrome Coronavirus in dromedaries in Ethiopia, 2017-2020. Zhou Ziqi, Ali Abraham, Walelign Elias, Demissie Getnet Fekadu, El Masry Ihab, Abayneh Takele, Getachew Belayneh, Krishnan Pavithra, Ng Daisy Y.M., Gardner Emma, Makonnen Yilma, Miguel Eve, Chevalier Véronique, Chu Daniel K.W., So Ray T.Y., Von Dobschuetz Sophie, Mamo Gezahegne, Poon Leo L.M., Peiris Malik. 2023. Emerging Microbes and Infections, 12 (1):e2164218, 9 p.https://doi.org/10.1080/22221751.2022.2164218 <https://doi.org/10.1080/22221751.2022.2164218> Genetic diversity and molecular epidemiology of Middle East Respiratory Syndrome Coronavirus in dromedaries in Ethiopia, 2017-2020 Zhou, Ziqi Ali, Abraham Walelign, Elias Demissie, Getnet Fekadu El Masry, Ihab Abayneh, Takele Getachew, Belayneh Krishnan, Pavithra Ng, Daisy Y.M. Gardner, Emma Makonnen, Yilma Miguel, Eve Chevalier, Véronique Chu, Daniel K.W. So, Ray T.Y. Von Dobschuetz, Sophie Mamo, Gezahegne Poon, Leo L.M. Peiris, Malik eng 2023 Emerging Microbes and Infections L73 - Maladies des animaux dromadaire épidémiologie surveillance épidémiologique zoonose phylogénie variation génétique transmission des maladies impact sur l'environnement Orthocoronavirinae http://aims.fao.org/aos/agrovoc/c_10467 http://aims.fao.org/aos/agrovoc/c_2615 http://aims.fao.org/aos/agrovoc/c_16411 http://aims.fao.org/aos/agrovoc/c_8530 http://aims.fao.org/aos/agrovoc/c_13325 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_2329 http://aims.fao.org/aos/agrovoc/c_24420 http://aims.fao.org/aos/agrovoc/c_37003 Éthiopie http://aims.fao.org/aos/agrovoc/c_2676 Middle East respiratory syndrome coronavirus (MERS-CoV) is enzootic in dromedary camels and causes zoonotic infection and disease in humans. Although over 80% of the global population of infected dromedary camels are found in Africa, zoonotic disease had only been reported in the Arabia Peninsula and travel-associated disease has been reported elsewhere. In this study, genetic diversity and molecular epidemiology of MERS-CoV in dromedary camels in Ethiopia were investigated during 2017–2020. Of 1766 nasal swab samples collected, 61 (3.5%) were detected positive for MERS-CoV RNA. Of 484 turbinate swab samples collected, 10 (2.1%) were detected positive for MERS-CoV RNA. Twenty-five whole genome sequences were obtained from these MERS-CoV positive samples. Phylogenetically, these Ethiopian camel-originated MERS-CoV belonged to clade C2, clustering with other East African camel strains. Virus sequences from camel herds clustered geographically while in an abattoir, two distinct phylogenetic clusters of MERS-CoVs were observed in two sequential sampling collections, which indicates the greater genetic diversity of MERS-CoV in abattoirs. In contrast to clade A and B viruses from the Arabian Peninsula, clade C camel-originated MERS-CoV from Ethiopia had various nucleotide insertions and deletions in non-structural gene nsp3, accessory genes ORF3 and ORF5 and structural gene N. This study demonstrates the genetic instability of MERS-CoV in dromedaries in East Africa, which indicates that the virus is still actively adapting to its camel host. The impact of the observed nucleotide insertions and deletions on virus evolution, viral fitness, and zoonotic potential deserves further study. article info:eu-repo/semantics/article Journal Article info:eu-repo/semantics/publishedVersion http://agritrop.cirad.fr/608522/1/ID608522.pdf text cc_by info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by/4.0/ https://doi.org/10.1080/22221751.2022.2164218 10.1080/22221751.2022.2164218 info:eu-repo/semantics/altIdentifier/doi/10.1080/22221751.2022.2164218 info:eu-repo/semantics/altIdentifier/purl/https://doi.org/10.1080/22221751.2022.2164218 info:eu-repo/semantics/dataset/purl/https://figshare.com/articles/journal_contribution/Genetic_diversity_and_molecular_epidemiology_of_Middle_East_Respiratory_Syndrome_Coronavirus_in_dromedaries_in_Ethiopia_2017_to_2020_/21840482 info:eu-repo/grantAgreement/////(USA) CID-HKU2/ |