Genetic characterization of Betacoronavirus lineage C viruses in bats reveals marked sequence divergence in the spike protein of pipistrellus bat coronavirus HKU5 in Japanese pipistrelle: implications for the origin of the novel Middle East respiratory syndrome coronavirus.
Identifieur interne : 001F85 ( Main/Exploration ); précédent : 001F84; suivant : 001F86Genetic characterization of Betacoronavirus lineage C viruses in bats reveals marked sequence divergence in the spike protein of pipistrellus bat coronavirus HKU5 in Japanese pipistrelle: implications for the origin of the novel Middle East respiratory syndrome coronavirus.
Auteurs : Susanna K P. Lau [République populaire de Chine] ; Kenneth S M. Li ; Alan K L. Tsang ; Carol S F. Lam ; Shakeel Ahmed ; Honglin Chen ; Kwok-Hung Chan ; Patrick C Y. Woo ; Kwok-Yung YuenSource :
- Journal of virology [ 1098-5514 ] ; 2013.
Descripteurs français
- KwdFr :
- Analyse de regroupements, Analyse de séquence d'ADN, Animaux, Chiroptera (virologie), Coronaviridae (), Coronaviridae (génétique), Coronaviridae (isolement et purification), Données de séquences moléculaires, Glycoprotéine de spicule des coronavirus, Glycoprotéines membranaires (génétique), Infections à coronavirus (médecine vétérinaire), Infections à coronavirus (virologie), Phylogénie, Protéines de l'enveloppe virale (génétique), Protéines nucléocapside (génétique), RNA replicase (génétique), Similitude de séquences d'acides aminés, Épidémiologie moléculaire, Évolution moléculaire.
- MESH :
- génétique : Coronaviridae, Glycoprotéines membranaires, Protéines de l'enveloppe virale, Protéines nucléocapside, RNA replicase.
- isolement et purification : Coronaviridae.
- médecine vétérinaire : Infections à coronavirus.
- virologie : Chiroptera, Infections à coronavirus.
- Analyse de regroupements, Analyse de séquence d'ADN, Animaux, Coronaviridae, Données de séquences moléculaires, Glycoprotéine de spicule des coronavirus, Phylogénie, Similitude de séquences d'acides aminés, Épidémiologie moléculaire, Évolution moléculaire.
English descriptors
- KwdEn :
- Animals, Chiroptera (virology), Cluster Analysis, Coronaviridae (classification), Coronaviridae (genetics), Coronaviridae (isolation & purification), Coronavirus Infections (veterinary), Coronavirus Infections (virology), Evolution, Molecular, Membrane Glycoproteins (genetics), Molecular Epidemiology, Molecular Sequence Data, Nucleocapsid Proteins (genetics), Phylogeny, RNA Replicase (genetics), Sequence Analysis, DNA, Sequence Homology, Amino Acid, Spike Glycoprotein, Coronavirus, Viral Envelope Proteins (genetics).
- MESH :
- chemical , genetics : Membrane Glycoproteins, Nucleocapsid Proteins, RNA Replicase, Viral Envelope Proteins.
- classification : Coronaviridae.
- genetics : Coronaviridae.
- isolation & purification : Coronaviridae.
- veterinary : Coronavirus Infections.
- virology : Chiroptera, Coronavirus Infections.
- Animals, Cluster Analysis, Evolution, Molecular, Molecular Epidemiology, Molecular Sequence Data, Phylogeny, Sequence Analysis, DNA, Sequence Homology, Amino Acid, Spike Glycoprotein, Coronavirus.
Abstract
While the novel Middle East respiratory syndrome coronavirus (MERS-CoV) is closely related to Tylonycteris bat CoV HKU4 (Ty-BatCoV HKU4) and Pipistrellus bat CoV HKU5 (Pi-BatCoV HKU5) in bats from Hong Kong, and other potential lineage C betacoronaviruses in bats from Africa, Europe, and America, its animal origin remains obscure. To better understand the role of bats in its origin, we examined the molecular epidemiology and evolution of lineage C betacoronaviruses among bats. Ty-BatCoV HKU4 and Pi-BatCoV HKU5 were detected in 29% and 25% of alimentary samples from lesser bamboo bat (Tylonycteris pachypus) and Japanese pipistrelle (Pipistrellus abramus), respectively. Sequencing of their RNA polymerase (RdRp), spike (S), and nucleocapsid (N) genes revealed that MERS-CoV is more closely related to Pi-BatCoV HKU5 in RdRp (92.1% to 92.3% amino acid [aa] identity) but is more closely related to Ty-BatCoV HKU4 in S (66.8% to 67.4% aa identity) and N (71.9% to 72.3% aa identity). Although both viruses were under purifying selection, the S of Pi-BatCoV HKU5 displayed marked sequence polymorphisms and more positively selected sites than that of Ty-BatCoV HKU4, suggesting that Pi-BatCoV HKU5 may generate variants to occupy new ecological niches along with its host in diverse habitats. Molecular clock analysis showed that they diverged from a common ancestor with MERS-CoV at least several centuries ago. Although MERS-CoV may have diverged from potential lineage C betacoronaviruses in European bats more recently, these bat viruses were unlikely to be the direct ancestor of MERS-CoV. Intensive surveillance for lineage C betaCoVs in Pipistrellus and related bats with diverse habitats and other animals in the Middle East may fill the evolutionary gap.
DOI: 10.1128/JVI.01055-13
PubMed: 23720729
Affiliations:
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Lau</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, Hong Kong</wicri:regionArea><wicri:noRegion>Hong Kong</wicri:noRegion></affiliation></author><author><name sortKey="Li, Kenneth S M" sort="Li, Kenneth S M" uniqKey="Li K" first="Kenneth S M" last="Li">Kenneth S M. Li</name></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></author><author><name sortKey="Lam, Carol S F" sort="Lam, Carol S F" uniqKey="Lam C" first="Carol S F" last="Lam">Carol S F. Lam</name></author><author><name sortKey="Ahmed, Shakeel" sort="Ahmed, Shakeel" uniqKey="Ahmed S" first="Shakeel" last="Ahmed">Shakeel Ahmed</name></author><author><name sortKey="Chen, Honglin" sort="Chen, Honglin" uniqKey="Chen H" first="Honglin" last="Chen">Honglin Chen</name></author><author><name sortKey="Chan, Kwok Hung" sort="Chan, Kwok Hung" uniqKey="Chan K" first="Kwok-Hung" last="Chan">Kwok-Hung Chan</name></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></author><author><name sortKey="Yuen, Kwok Yung" sort="Yuen, Kwok Yung" uniqKey="Yuen K" first="Kwok-Yung" last="Yuen">Kwok-Yung Yuen</name></author></analytic><series><title level="j">Journal of virology</title><idno type="eISSN">1098-5514</idno><imprint><date when="2013" type="published">2013</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>Chiroptera (virology)</term><term>Cluster Analysis</term><term>Coronaviridae (classification)</term><term>Coronaviridae (genetics)</term><term>Coronaviridae (isolation & purification)</term><term>Coronavirus Infections (veterinary)</term><term>Coronavirus Infections (virology)</term><term>Evolution, Molecular</term><term>Membrane Glycoproteins (genetics)</term><term>Molecular Epidemiology</term><term>Molecular Sequence Data</term><term>Nucleocapsid Proteins (genetics)</term><term>Phylogeny</term><term>RNA Replicase (genetics)</term><term>Sequence Analysis, DNA</term><term>Sequence Homology, Amino Acid</term><term>Spike Glycoprotein, Coronavirus</term><term>Viral Envelope Proteins (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Analyse de regroupements</term><term>Analyse de séquence d'ADN</term><term>Animaux</term><term>Chiroptera (virologie)</term><term>Coronaviridae ()</term><term>Coronaviridae (génétique)</term><term>Coronaviridae (isolement et purification)</term><term>Données de séquences moléculaires</term><term>Glycoprotéine de spicule des coronavirus</term><term>Glycoprotéines membranaires (génétique)</term><term>Infections à coronavirus (médecine vétérinaire)</term><term>Infections à coronavirus (virologie)</term><term>Phylogénie</term><term>Protéines de l'enveloppe virale (génétique)</term><term>Protéines nucléocapside (génétique)</term><term>RNA replicase (génétique)</term><term>Similitude de séquences d'acides aminés</term><term>Épidémiologie moléculaire</term><term>Évolution moléculaire</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Membrane Glycoproteins</term><term>Nucleocapsid Proteins</term><term>RNA Replicase</term><term>Viral Envelope Proteins</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Coronaviridae</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Coronaviridae</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Coronaviridae</term><term>Glycoprotéines membranaires</term><term>Protéines de l'enveloppe virale</term><term>Protéines nucléocapside</term><term>RNA replicase</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Coronaviridae</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Coronaviridae</term></keywords><keywords scheme="MESH" qualifier="médecine vétérinaire" xml:lang="fr"><term>Infections à coronavirus</term></keywords><keywords scheme="MESH" qualifier="veterinary" xml:lang="en"><term>Coronavirus Infections</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Chiroptera</term><term>Infections à coronavirus</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Chiroptera</term><term>Coronavirus Infections</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Cluster Analysis</term><term>Evolution, Molecular</term><term>Molecular Epidemiology</term><term>Molecular Sequence Data</term><term>Phylogeny</term><term>Sequence Analysis, DNA</term><term>Sequence Homology, Amino Acid</term><term>Spike Glycoprotein, Coronavirus</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de regroupements</term><term>Analyse de séquence d'ADN</term><term>Animaux</term><term>Coronaviridae</term><term>Données de séquences moléculaires</term><term>Glycoprotéine de spicule des coronavirus</term><term>Phylogénie</term><term>Similitude de séquences d'acides aminés</term><term>Épidémiologie moléculaire</term><term>Évolution moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">While the novel Middle East respiratory syndrome coronavirus (MERS-CoV) is closely related to Tylonycteris bat CoV HKU4 (Ty-BatCoV HKU4) and Pipistrellus bat CoV HKU5 (Pi-BatCoV HKU5) in bats from Hong Kong, and other potential lineage C betacoronaviruses in bats from Africa, Europe, and America, its animal origin remains obscure. To better understand the role of bats in its origin, we examined the molecular epidemiology and evolution of lineage C betacoronaviruses among bats. Ty-BatCoV HKU4 and Pi-BatCoV HKU5 were detected in 29% and 25% of alimentary samples from lesser bamboo bat (Tylonycteris pachypus) and Japanese pipistrelle (Pipistrellus abramus), respectively. Sequencing of their RNA polymerase (RdRp), spike (S), and nucleocapsid (N) genes revealed that MERS-CoV is more closely related to Pi-BatCoV HKU5 in RdRp (92.1% to 92.3% amino acid [aa] identity) but is more closely related to Ty-BatCoV HKU4 in S (66.8% to 67.4% aa identity) and N (71.9% to 72.3% aa identity). Although both viruses were under purifying selection, the S of Pi-BatCoV HKU5 displayed marked sequence polymorphisms and more positively selected sites than that of Ty-BatCoV HKU4, suggesting that Pi-BatCoV HKU5 may generate variants to occupy new ecological niches along with its host in diverse habitats. Molecular clock analysis showed that they diverged from a common ancestor with MERS-CoV at least several centuries ago. Although MERS-CoV may have diverged from potential lineage C betacoronaviruses in European bats more recently, these bat viruses were unlikely to be the direct ancestor of MERS-CoV. Intensive surveillance for lineage C betaCoVs in Pipistrellus and related bats with diverse habitats and other animals in the Middle East may fill the evolutionary gap. </div></front></TEI><affiliations><list><country><li>République populaire de Chine</li></country></list><tree><noCountry><name sortKey="Ahmed, Shakeel" sort="Ahmed, Shakeel" uniqKey="Ahmed S" first="Shakeel" last="Ahmed">Shakeel Ahmed</name><name sortKey="Chan, Kwok Hung" sort="Chan, Kwok Hung" uniqKey="Chan K" first="Kwok-Hung" last="Chan">Kwok-Hung Chan</name><name sortKey="Chen, Honglin" sort="Chen, Honglin" uniqKey="Chen H" first="Honglin" last="Chen">Honglin Chen</name><name sortKey="Lam, Carol S F" sort="Lam, Carol S F" uniqKey="Lam C" first="Carol S F" last="Lam">Carol S F. Lam</name><name sortKey="Li, Kenneth S M" sort="Li, Kenneth S M" uniqKey="Li K" first="Kenneth S M" last="Li">Kenneth S M. Li</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="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></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></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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