Polyphyletic origin of MERS coronaviruses and isolation of a novel clade A strain from dromedary camels in the United Arab Emirates
Identifieur interne : 001069 ( Main/Exploration ); précédent : 001068; suivant : 001070Polyphyletic origin of MERS coronaviruses and isolation of a novel clade A strain from dromedary camels in the United Arab Emirates
Auteurs : Susanna K P. Lau [République populaire de Chine] ; Renate Wernery ; Emily Y M. Wong [République populaire de Chine] ; Sunitha Joseph ; Alan K L. Tsang [République populaire de Chine] ; Nissy Annie Georgy Patteril ; Shyna K. Elizabeth ; Kwok-Hung Chan [République populaire de Chine] ; Rubeena Muhammed ; Jöerg Kinne ; Kwok-Yung Yuen [République populaire de Chine] ; Ulrich Wernery ; Patrick C Y. Woo [République populaire de Chine]Source :
- Emerging Microbes & Infections [ 2222-1751 ] ; 2016.
Descripteurs français
- KwdFr :
- Analyse de regroupements, Analyse de séquence d'ADN, Animaux, Chameaux (virologie), Coronavirus du syndrome respiratoire du Moyen-Orient (), Coronavirus du syndrome respiratoire du Moyen-Orient (génétique), Coronavirus du syndrome respiratoire du Moyen-Orient (isolement et purification), Génome viral, Infections à coronavirus (médecine vétérinaire), Infections à coronavirus (virologie), Infections à coronavirus (épidémiologie), Phylogénie, Recombinaison génétique, Similitude de séquences, Variation génétique, Émirats arabes unis (épidémiologie), Épidémiologie moléculaire, Évolution moléculaire.
- MESH :
- génétique : Coronavirus du syndrome respiratoire du Moyen-Orient.
- isolement et purification : Coronavirus du syndrome respiratoire du Moyen-Orient.
- médecine vétérinaire : Infections à coronavirus.
- virologie : Chameaux, Infections à coronavirus.
- épidémiologie : Infections à coronavirus, Émirats arabes unis.
- Analyse de regroupements, Analyse de séquence d'ADN, Animaux, Coronavirus du syndrome respiratoire du Moyen-Orient, Génome viral, Phylogénie, Recombinaison génétique, Similitude de séquences, Variation génétique, Épidémiologie moléculaire, Évolution moléculaire.
English descriptors
- KwdEn :
- Animals, Camelus (virology), Cluster Analysis, Coronavirus Infections (epidemiology), Coronavirus Infections (veterinary), Coronavirus Infections (virology), Evolution, Molecular, Genetic Variation, Genome, Viral, Middle East Respiratory Syndrome Coronavirus (classification), Middle East Respiratory Syndrome Coronavirus (genetics), Middle East Respiratory Syndrome Coronavirus (isolation & purification), Molecular Epidemiology, Phylogeny, Recombination, Genetic, Sequence Analysis, DNA, Sequence Homology, United Arab Emirates (epidemiology).
- MESH :
- classification : Middle East Respiratory Syndrome Coronavirus.
- epidemiology : Coronavirus Infections, United Arab Emirates.
- genetics : Middle East Respiratory Syndrome Coronavirus.
- isolation & purification : Middle East Respiratory Syndrome Coronavirus.
- veterinary : Coronavirus Infections.
- virology : Camelus, Coronavirus Infections.
- Animals, Cluster Analysis, Evolution, Molecular, Genetic Variation, Genome, Viral, Molecular Epidemiology, Phylogeny, Recombination, Genetic, Sequence Analysis, DNA, Sequence Homology.
Abstract
Little is known regarding the molecular epidemiology of Middle East respiratory syndrome coronavirus (MERS-CoV) circulating in dromedaries outside Saudi Arabia. To address this knowledge gap, we sequenced 10 complete genomes of MERS-CoVs isolated from 2 live and 8 dead dromedaries from different regions in the United Arab Emirates (UAE). Phylogenetic analysis revealed one novel clade A strain, the first detected in the UAE, and nine clade B strains. Strain D998/15 had a distinct phylogenetic position within clade A, being more closely related to the dromedary isolate NRCE-HKU205 from Egypt than to the human isolates EMC/2012 and Jordan-N3/2012. A comparison of predicted protein sequences also demonstrated the existence of two clade A lineages with unique amino acid substitutions, A1 (EMC/2012 and Jordan-N3/2012) and A2 (D998/15 and NRCE-HKU205), circulating in humans and camels, respectively. The nine clade B isolates belong to three distinct lineages: B1, B3 and B5. Two B3 strains, D1271/15 and D1189.1/15, showed evidence of recombination between lineages B4 and B5 in ORF1ab. Molecular clock analysis dated the time of the most recent common ancestor (tMRCA) of clade A to March 2011 and that of clade B to November 2011. Our data support a polyphyletic origin of MERS-CoV in dromedaries and the co-circulation of diverse MERS-CoVs including recombinant strains in the UAE.
Url:
DOI: 10.1038/emi.2016.129
PubMed: 27999424
PubMed Central: 5180373
Affiliations:
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Le document en format XML
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Lau</name><affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Microbiology, The University of Hong Kong</institution>, Hong Kong,<country>China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><institution>State Key Laboratory of Emerging Infectious Diseases, Research Centre of Infection and Immunology, Carol Yu Centre for Infection, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, The University of Hong Kong</institution>, Hong Kong,<country>China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author><author><name sortKey="Wernery, Renate" sort="Wernery, Renate" uniqKey="Wernery R" first="Renate" last="Wernery">Renate Wernery</name><affiliation><nlm:aff id="aff3"><institution>Central Veterinary Research Laboratory</institution>, PO Box 597, Dubai,<country>UAE</country></nlm:aff><wicri:noCountry code="nlm country">UAE</wicri:noCountry></affiliation></author><author><name sortKey="Wong, Emily Y M" sort="Wong, Emily Y M" uniqKey="Wong E" first="Emily Y M" last="Wong">Emily Y M. Wong</name><affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Microbiology, The University of Hong Kong</institution>, Hong Kong,<country>China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author><author><name sortKey="Joseph, Sunitha" sort="Joseph, Sunitha" uniqKey="Joseph S" first="Sunitha" last="Joseph">Sunitha Joseph</name><affiliation><nlm:aff id="aff3"><institution>Central Veterinary Research Laboratory</institution>, PO Box 597, Dubai,<country>UAE</country></nlm:aff><wicri:noCountry code="nlm country">UAE</wicri:noCountry></affiliation></author><author><name sortKey="Tsang, Alan K L" sort="Tsang, Alan K L" uniqKey="Tsang A" first="Alan K L" last="Tsang">Alan K L. Tsang</name><affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Microbiology, The University of Hong Kong</institution>, Hong Kong,<country>China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author><author><name sortKey="Patteril, Nissy Annie Georgy" sort="Patteril, Nissy Annie Georgy" uniqKey="Patteril N" first="Nissy Annie Georgy" last="Patteril">Nissy Annie Georgy Patteril</name><affiliation><nlm:aff id="aff3"><institution>Central Veterinary Research Laboratory</institution>, PO Box 597, Dubai,<country>UAE</country></nlm:aff><wicri:noCountry code="nlm country">UAE</wicri:noCountry></affiliation></author><author><name sortKey="Elizabeth, Shyna K" sort="Elizabeth, Shyna K" uniqKey="Elizabeth S" first="Shyna K" last="Elizabeth">Shyna K. Elizabeth</name><affiliation><nlm:aff id="aff3"><institution>Central Veterinary Research Laboratory</institution>, PO Box 597, Dubai,<country>UAE</country></nlm:aff><wicri:noCountry code="nlm country">UAE</wicri:noCountry></affiliation></author><author><name sortKey="Chan, Kwok Hung" sort="Chan, Kwok Hung" uniqKey="Chan K" first="Kwok-Hung" last="Chan">Kwok-Hung Chan</name><affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Microbiology, The University of Hong Kong</institution>, Hong Kong,<country>China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author><author><name sortKey="Muhammed, Rubeena" sort="Muhammed, Rubeena" uniqKey="Muhammed R" first="Rubeena" last="Muhammed">Rubeena Muhammed</name><affiliation><nlm:aff id="aff3"><institution>Central Veterinary Research Laboratory</institution>, PO Box 597, Dubai,<country>UAE</country></nlm:aff><wicri:noCountry code="nlm country">UAE</wicri:noCountry></affiliation></author><author><name sortKey="Kinne, Joerg" sort="Kinne, Joerg" uniqKey="Kinne J" first="Jöerg" last="Kinne">Jöerg Kinne</name><affiliation><nlm:aff id="aff3"><institution>Central Veterinary Research Laboratory</institution>, PO Box 597, Dubai,<country>UAE</country></nlm:aff><wicri:noCountry code="nlm country">UAE</wicri:noCountry></affiliation></author><author><name sortKey="Yuen, Kwok Yung" sort="Yuen, Kwok Yung" uniqKey="Yuen K" first="Kwok-Yung" last="Yuen">Kwok-Yung Yuen</name><affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Microbiology, The University of Hong Kong</institution>, Hong Kong,<country>China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><institution>State Key Laboratory of Emerging Infectious Diseases, Research Centre of Infection and Immunology, Carol Yu Centre for Infection, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, The University of Hong Kong</institution>, Hong Kong,<country>China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author><author><name sortKey="Wernery, Ulrich" sort="Wernery, Ulrich" uniqKey="Wernery U" first="Ulrich" last="Wernery">Ulrich Wernery</name><affiliation><nlm:aff id="aff3"><institution>Central Veterinary Research Laboratory</institution>, PO Box 597, Dubai,<country>UAE</country></nlm:aff><wicri:noCountry code="nlm country">UAE</wicri:noCountry></affiliation></author><author><name sortKey="Woo, Patrick C Y" sort="Woo, Patrick C Y" uniqKey="Woo P" first="Patrick C Y" last="Woo">Patrick C Y. Woo</name><affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Microbiology, The University of Hong Kong</institution>, Hong Kong,<country>China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><institution>State Key Laboratory of Emerging Infectious Diseases, Research Centre of Infection and Immunology, Carol Yu Centre for Infection, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, The University of Hong Kong</institution>, Hong Kong,<country>China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author></analytic><series><title level="j">Emerging Microbes & Infections</title><idno type="eISSN">2222-1751</idno><imprint><date 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moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Little is known regarding the molecular epidemiology of Middle East respiratory syndrome coronavirus (MERS-CoV) circulating in dromedaries outside Saudi Arabia. To address this knowledge gap, we sequenced 10 complete genomes of MERS-CoVs isolated from 2 live and 8 dead dromedaries from different regions in the United Arab Emirates (UAE). Phylogenetic analysis revealed one novel clade A strain, the first detected in the UAE, and nine clade B strains. Strain D998/15 had a distinct phylogenetic position within clade A, being more closely related to the dromedary isolate NRCE-HKU205 from Egypt than to the human isolates EMC/2012 and Jordan-N3/2012. A comparison of predicted protein sequences also demonstrated the existence of two clade A lineages with unique amino acid substitutions, A1 (EMC/2012 and Jordan-N3/2012) and A2 (D998/15 and NRCE-HKU205), circulating in humans and camels, respectively. The nine clade B isolates belong to three distinct lineages: B1, B3 and B5. Two B3 strains, D1271/15 and D1189.1/15, showed evidence of recombination between lineages B4 and B5 in ORF1ab. Molecular clock analysis dated the time of the most recent common ancestor (tMRCA) of clade A to March 2011 and that of clade B to November 2011. Our data support a polyphyletic origin of MERS-CoV in dromedaries and the co-circulation of diverse MERS-CoVs including recombinant strains in the UAE.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>République populaire de Chine</li></country></list><tree><noCountry><name sortKey="Elizabeth, Shyna K" sort="Elizabeth, Shyna K" uniqKey="Elizabeth S" first="Shyna K" last="Elizabeth">Shyna K. Elizabeth</name><name sortKey="Joseph, Sunitha" sort="Joseph, Sunitha" uniqKey="Joseph S" first="Sunitha" last="Joseph">Sunitha Joseph</name><name sortKey="Kinne, Joerg" sort="Kinne, Joerg" uniqKey="Kinne J" first="Jöerg" last="Kinne">Jöerg Kinne</name><name sortKey="Muhammed, Rubeena" sort="Muhammed, Rubeena" uniqKey="Muhammed R" first="Rubeena" last="Muhammed">Rubeena Muhammed</name><name sortKey="Patteril, Nissy Annie Georgy" sort="Patteril, Nissy Annie Georgy" uniqKey="Patteril N" first="Nissy Annie Georgy" last="Patteril">Nissy Annie Georgy Patteril</name><name sortKey="Wernery, Renate" sort="Wernery, Renate" uniqKey="Wernery R" first="Renate" last="Wernery">Renate Wernery</name><name sortKey="Wernery, Ulrich" sort="Wernery, Ulrich" uniqKey="Wernery U" first="Ulrich" last="Wernery">Ulrich Wernery</name></noCountry><country name="République populaire de Chine"><noRegion><name sortKey="Lau, Susanna K P" sort="Lau, Susanna K P" uniqKey="Lau S" first="Susanna K P" last="Lau">Susanna K P. Lau</name></noRegion><name sortKey="Chan, Kwok Hung" sort="Chan, Kwok Hung" uniqKey="Chan K" first="Kwok-Hung" last="Chan">Kwok-Hung Chan</name><name sortKey="Lau, Susanna K P" sort="Lau, Susanna K P" uniqKey="Lau S" first="Susanna K P" last="Lau">Susanna K P. Lau</name><name sortKey="Tsang, Alan K L" sort="Tsang, Alan K L" uniqKey="Tsang A" first="Alan K L" last="Tsang">Alan K L. Tsang</name><name sortKey="Wong, Emily Y M" sort="Wong, Emily Y M" uniqKey="Wong E" first="Emily Y M" last="Wong">Emily Y M. Wong</name><name sortKey="Woo, Patrick C Y" sort="Woo, Patrick C Y" uniqKey="Woo P" first="Patrick C Y" last="Woo">Patrick C Y. Woo</name><name sortKey="Woo, Patrick C Y" sort="Woo, Patrick C Y" uniqKey="Woo P" first="Patrick C Y" last="Woo">Patrick C Y. Woo</name><name sortKey="Yuen, Kwok Yung" sort="Yuen, Kwok Yung" uniqKey="Yuen K" first="Kwok-Yung" last="Yuen">Kwok-Yung Yuen</name><name sortKey="Yuen, Kwok Yung" sort="Yuen, Kwok Yung" uniqKey="Yuen K" first="Kwok-Yung" last="Yuen">Kwok-Yung Yuen</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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