Evolutionary insights into the ecology of coronaviruses
Identifieur interne : 003B71 ( Main/Exploration ); précédent : 003B70; suivant : 003B72Evolutionary insights into the ecology of coronaviruses
Auteurs : D. Vijaykrishna [Hong Kong] ; G. J. D. Smith [Hong Kong] ; J. X. Zhang [Hong Kong] ; J. S. M. Peiris [Hong Kong] ; H. Chen [Hong Kong] ; Y. Guan [Hong Kong]Source :
- Journal of virology [ 0022-538X ] ; 2007.
Descripteurs français
- KwdFr :
- ARN viral (génétique), Analyse de séquence d'ADN, Animaux, Biodiversité, Bovins, Chats, Chiroptera (virologie), Coronaviridae (), Coronaviridae (génétique), Coronaviridae (isolement et purification), Coronaviridae (physiologie), Données de séquences moléculaires, Humains, Infections à Coronaviridae (médecine vétérinaire), Infections à Coronaviridae (transmission), Infections à Coronaviridae (virologie), Oiseaux (virologie), Phylogénie, Rectum (virologie), Réservoirs d'agents pathogènes (virologie), Similitude de séquences, Séquence nucléotidique, Viverridae (virologie), Écosystème, Évolution moléculaire.
- MESH :
- génétique : ARN viral, Coronaviridae.
- isolement et purification : Coronaviridae.
- médecine vétérinaire : Infections à Coronaviridae.
- physiologie : Coronaviridae.
- virologie : Chiroptera, Infections à Coronaviridae, Oiseaux, Rectum, Réservoirs d'agents pathogènes, Viverridae.
- Pascal (Inist)
English descriptors
- KwdEn :
- Animals, Base Sequence, Biodiversity, Birds (virology), Cats, Cattle, Chiroptera (virology), Coronaviridae (classification), Coronaviridae (genetics), Coronaviridae (isolation & purification), Coronaviridae (physiology), Coronaviridae Infections (transmission), Coronaviridae Infections (veterinary), Coronaviridae Infections (virology), Disease Reservoirs (virology), Ecosystem, Evolution, Molecular, Humans, Molecular Sequence Data, Phylogeny, RNA, Viral (genetics), Rectum (virology), Sequence Analysis, DNA, Sequence Homology, Virology, Viverridae (virology).
- MESH :
- chemical , genetics : RNA, Viral.
- classification : Coronaviridae.
- genetics : Coronaviridae.
- isolation & purification : Coronaviridae.
- physiology : Coronaviridae.
- transmission : Coronaviridae Infections.
- veterinary : Coronaviridae Infections.
- virology : Birds, Chiroptera, Coronaviridae Infections, Disease Reservoirs, Rectum, Viverridae.
- Animals, Base Sequence, Biodiversity, Cats, Cattle, Ecosystem, Evolution, Molecular, Humans, Molecular Sequence Data, Phylogeny, Sequence Analysis, DNA, Sequence Homology.
Abstract
Although many novel members of the Coronaviridae have recently been recognized in different species, the ecology of coronaviruses has not been established. Our study indicates that bats harbor a much wider diversity of coronaviruses than any other animal species. Dating of different coronavirus lineages suggests that bat coronaviruses are older than those recognized in other animals and that the human severe acute respiratory syndrome (SARS) coronavirus was directly derived from viruses from wild animals in wet markets of southern China. Furthermore, the most closely related bat and SARS coronaviruses diverged in 1986, an estimated divergence time of 17 years prior to the outbreak, suggesting that there may have been transmission via an unknown intermediate host. Analysis of lineage-specific selection pressure also indicated that only SARS coronaviruses in civets and humans were under significant positive selection, also demonstrating a recent interspecies transmission. Analysis of population dynamics revealed that coronavirus populations in bats have constant population growth, while viruses from all other hosts show epidemic-like increases in population. These results indicate that diverse coronaviruses are endemic in different bat species, with repeated introductions to other animals and occasional establishment in other species. Our findings suggest that bats are likely the natural hosts for all presently known coronavirus lineages and that all coronaviruses recognized in other species were derived from viruses residing in bats. Further surveillance of bat and other animal populations is needed to fully describe the ecology and evolution of this virus family.
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Affiliations:
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Zhang</name><affiliation wicri:level="1"><inist:fA14 i1="01"><s1>State Key Laboratory of Emerging Infectious Diseases, Department of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, 21 Sassoon Road</s1><s2>Pokfulam</s2><s3>HKG</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>3 aut.</sZ><sZ>4 aut.</sZ><sZ>5 aut.</sZ><sZ>6 aut.</sZ></inist:fA14><country>Hong Kong</country><wicri:noRegion>Pokfulam</wicri:noRegion></affiliation></author><author><name sortKey="Peiris, J S M" sort="Peiris, J S M" uniqKey="Peiris J" first="J. S. M." last="Peiris">J. S. M. Peiris</name><affiliation wicri:level="1"><inist:fA14 i1="01"><s1>State Key Laboratory of Emerging Infectious Diseases, Department of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, 21 Sassoon Road</s1><s2>Pokfulam</s2><s3>HKG</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>3 aut.</sZ><sZ>4 aut.</sZ><sZ>5 aut.</sZ><sZ>6 aut.</sZ></inist:fA14><country>Hong Kong</country><wicri:noRegion>Pokfulam</wicri:noRegion></affiliation></author><author><name sortKey="Chen, H" sort="Chen, H" uniqKey="Chen H" first="H." last="Chen">H. Chen</name><affiliation wicri:level="1"><inist:fA14 i1="01"><s1>State Key Laboratory of Emerging Infectious Diseases, Department of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, 21 Sassoon Road</s1><s2>Pokfulam</s2><s3>HKG</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>3 aut.</sZ><sZ>4 aut.</sZ><sZ>5 aut.</sZ><sZ>6 aut.</sZ></inist:fA14><country>Hong Kong</country><wicri:noRegion>Pokfulam</wicri:noRegion></affiliation></author><author><name sortKey="Guan, Y" sort="Guan, Y" uniqKey="Guan Y" first="Y." last="Guan">Y. Guan</name><affiliation wicri:level="1"><inist:fA14 i1="01"><s1>State Key Laboratory of Emerging Infectious Diseases, Department of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, 21 Sassoon Road</s1><s2>Pokfulam</s2><s3>HKG</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>3 aut.</sZ><sZ>4 aut.</sZ><sZ>5 aut.</sZ><sZ>6 aut.</sZ></inist:fA14><country>Hong Kong</country><wicri:noRegion>Pokfulam</wicri:noRegion></affiliation></author></analytic><series><title level="j" type="main">Journal of virology</title><title level="j" type="abbreviated">J. virol.</title><idno type="ISSN">0022-538X</idno><imprint><date when="2007">2007</date></imprint></series></biblStruct></sourceDesc><seriesStmt><title level="j" type="main">Journal of virology</title><title level="j" type="abbreviated">J. virol.</title><idno type="ISSN">0022-538X</idno></seriesStmt></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>Base Sequence</term><term>Biodiversity</term><term>Birds (virology)</term><term>Cats</term><term>Cattle</term><term>Chiroptera (virology)</term><term>Coronaviridae (classification)</term><term>Coronaviridae (genetics)</term><term>Coronaviridae (isolation & purification)</term><term>Coronaviridae (physiology)</term><term>Coronaviridae Infections (transmission)</term><term>Coronaviridae Infections (veterinary)</term><term>Coronaviridae Infections (virology)</term><term>Disease Reservoirs (virology)</term><term>Ecosystem</term><term>Evolution, Molecular</term><term>Humans</term><term>Molecular Sequence Data</term><term>Phylogeny</term><term>RNA, Viral (genetics)</term><term>Rectum (virology)</term><term>Sequence Analysis, DNA</term><term>Sequence Homology</term><term>Virology</term><term>Viverridae (virology)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN viral (génétique)</term><term>Analyse de séquence d'ADN</term><term>Animaux</term><term>Biodiversité</term><term>Bovins</term><term>Chats</term><term>Chiroptera (virologie)</term><term>Coronaviridae ()</term><term>Coronaviridae (génétique)</term><term>Coronaviridae (isolement et purification)</term><term>Coronaviridae (physiologie)</term><term>Données de séquences moléculaires</term><term>Humains</term><term>Infections à Coronaviridae (médecine vétérinaire)</term><term>Infections à Coronaviridae (transmission)</term><term>Infections à Coronaviridae (virologie)</term><term>Oiseaux (virologie)</term><term>Phylogénie</term><term>Rectum (virologie)</term><term>Réservoirs d'agents pathogènes (virologie)</term><term>Similitude de séquences</term><term>Séquence nucléotidique</term><term>Viverridae (virologie)</term><term>Écosystème</term><term>Évolution moléculaire</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA, Viral</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>ARN viral</term><term>Coronaviridae</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 Coronaviridae</term></keywords><keywords scheme="MESH" qualifier="physiologie" xml:lang="fr"><term>Coronaviridae</term></keywords><keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>Coronaviridae</term></keywords><keywords scheme="MESH" qualifier="transmission" xml:lang="en"><term>Coronaviridae Infections</term></keywords><keywords scheme="MESH" qualifier="veterinary" xml:lang="en"><term>Coronaviridae Infections</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Chiroptera</term><term>Infections à Coronaviridae</term><term>Oiseaux</term><term>Rectum</term><term>Réservoirs d'agents pathogènes</term><term>Viverridae</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Birds</term><term>Chiroptera</term><term>Coronaviridae Infections</term><term>Disease Reservoirs</term><term>Rectum</term><term>Viverridae</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Base Sequence</term><term>Biodiversity</term><term>Cats</term><term>Cattle</term><term>Ecosystem</term><term>Evolution, Molecular</term><term>Humans</term><term>Molecular Sequence Data</term><term>Phylogeny</term><term>Sequence Analysis, DNA</term><term>Sequence Homology</term></keywords><keywords scheme="Pascal" xml:lang="fr"><term>Analyse de séquence d'ADN</term><term>Animaux</term><term>Biodiversité</term><term>Bovins</term><term>Chats</term><term>Coronaviridae</term><term>Données de séquences moléculaires</term><term>Humains</term><term>Infections à Coronaviridae</term><term>Phylogénie</term><term>Similitude de séquences</term><term>Séquence nucléotidique</term><term>Virologie</term><term>Écosystème</term><term>Évolution moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Although many novel members of the Coronaviridae have recently been recognized in different species, the ecology of coronaviruses has not been established. Our study indicates that bats harbor a much wider diversity of coronaviruses than any other animal species. Dating of different coronavirus lineages suggests that bat coronaviruses are older than those recognized in other animals and that the human severe acute respiratory syndrome (SARS) coronavirus was directly derived from viruses from wild animals in wet markets of southern China. Furthermore, the most closely related bat and SARS coronaviruses diverged in 1986, an estimated divergence time of 17 years prior to the outbreak, suggesting that there may have been transmission via an unknown intermediate host. Analysis of lineage-specific selection pressure also indicated that only SARS coronaviruses in civets and humans were under significant positive selection, also demonstrating a recent interspecies transmission. Analysis of population dynamics revealed that coronavirus populations in bats have constant population growth, while viruses from all other hosts show epidemic-like increases in population. These results indicate that diverse coronaviruses are endemic in different bat species, with repeated introductions to other animals and occasional establishment in other species. Our findings suggest that bats are likely the natural hosts for all presently known coronavirus lineages and that all coronaviruses recognized in other species were derived from viruses residing in bats. Further surveillance of bat and other animal populations is needed to fully describe the ecology and evolution of this virus family.</div></front></TEI><affiliations><list><country><li>Hong Kong</li></country></list><tree><country name="Hong Kong"><noRegion><name sortKey="Vijaykrishna, D" sort="Vijaykrishna, D" uniqKey="Vijaykrishna D" first="D." last="Vijaykrishna">D. Vijaykrishna</name></noRegion><name sortKey="Chen, H" sort="Chen, H" uniqKey="Chen H" first="H." last="Chen">H. Chen</name><name sortKey="Guan, Y" sort="Guan, Y" uniqKey="Guan Y" first="Y." last="Guan">Y. Guan</name><name sortKey="Peiris, J S M" sort="Peiris, J S M" uniqKey="Peiris J" first="J. S. M." last="Peiris">J. S. M. Peiris</name><name sortKey="Smith, G J D" sort="Smith, G J D" uniqKey="Smith G" first="G. J. D." last="Smith">G. J. D. Smith</name><name sortKey="Zhang, J X" sort="Zhang, J X" uniqKey="Zhang J" first="J. X." last="Zhang">J. X. Zhang</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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