Genetic diversity of coronaviruses in bats in Lao PDR and Cambodia.
Identifieur interne : 000B17 ( PubMed/Checkpoint ); précédent : 000B16; suivant : 000B18Genetic diversity of coronaviruses in bats in Lao PDR and Cambodia.
Auteurs : Audrey Lacroix [Cambodge] ; Veasna Duong [Cambodge] ; Vibol Hul [Cambodge] ; Sorn San [Cambodge] ; Hull Davun [Cambodge] ; Keo Omaliss [Cambodge] ; Sokha Chea [Cambodge] ; Alexandre Hassanin [France] ; Watthana Theppangna ; Soubanh Silithammavong ; Kongsy Khammavong ; Sinpakone Singhalath ; Zoe Greatorex ; Amanda E. Fine [Viêt Nam] ; Tracey Goldstein [États-Unis] ; Sarah Olson [États-Unis] ; Damien O. Joly [Canada] ; Lucy Keatts [Cambodge] ; Philippe Dussart [Cambodge] ; Aneta Afelt [Pologne] ; Roger Frutos [France] ; Philippe Buchy [Singapour]Source :
- Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases [ 1567-7257 ] ; 2017.
Descripteurs français
- KwdFr :
- Analyse de séquence d'ADN, Animaux, Cambodge, Chiroptera (virologie), Coronavirus (génétique), Gènes viraux, Laos, Phylogénie, Phylogéographie, Protéines virales (génétique), RNA replicase (génétique), Réservoirs d'agents pathogènes, Séquence nucléotidique, Variation génétique, Évolution moléculaire.
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : RNA Replicase, Viral Proteins.
- genetics : Coronavirus.
- virology : Chiroptera.
- Animals, Base Sequence, Cambodia, Disease Reservoirs, Evolution, Molecular, Genes, Viral, Genetic Variation, Laos, Phylogeny, Phylogeography, Sequence Analysis, DNA.
Abstract
South-East Asia is a hot spot for emerging zoonotic diseases, and bats have been recognized as hosts for a large number of zoonotic viruses such as Severe Acute Respiratory Syndrome (SARS), responsible for acute respiratory syndrome outbreaks. Thus, it is important to expand our knowledge of the presence of viruses in bats which could represent a risk to humans. Coronaviruses (CoVs) have been reported in bat species from Thailand, China, Indonesia, Taiwan and the Philippines. However no such work was conducted in Cambodia or Lao PDR. Between 2010 and 2013, 1965 bats were therefore sampled at interfaces with human populations in these two countries. They were tested for the presence of coronavirus by consensus reverse transcription-PCR assay. A total of 93 samples (4.7%) from 17 genera of bats tested positive. Sequence analysis revealed the presence of potentially 37 and 56 coronavirus belonging to alpha-coronavirus (αCoV) and beta-CoV (βCoV), respectively. The βCoVs group is known to include some coronaviruses highly pathogenic to human, such as SARS-CoV and MERS-CoV. All coronavirus sequences generated from frugivorous bats (family Pteropodidae) (n=55) clustered with other bat βCoVs of lineage D, whereas one coronavirus from Pipistrellus coromandra fell in the lineage C of βCoVs which also includes the MERS-CoV. αCoVs were all detected in various genera of insectivorous bats and clustered with diverse bat αCoV sequences previously published. A closely related strain of PEDV, responsible for severe diarrhea in pigs (PEDV-CoV), was detected in 2 Myotis bats. We highlighted the presence and the high diversity of coronaviruses circulating in bats from Cambodia and Lao PDR. Three new bat genera and species were newly identified as host of coronaviruses, namely Macroglossus sp., Megaerops niphanae and Myotis horsfieldii.
DOI: 10.1016/j.meegid.2016.11.029
PubMed: 27932284
Affiliations:
- Cambodge, Canada, France, Pologne, Singapour, Viêt Nam, États-Unis
- Languedoc-Roussillon, Occitanie (région administrative), État de New York
- Montpellier
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pubmed:27932284Le document en format XML
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<author><name sortKey="Hassanin, Alexandre" sort="Hassanin, Alexandre" uniqKey="Hassanin A" first="Alexandre" last="Hassanin">Alexandre Hassanin</name>
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<author><name sortKey="Silithammavong, Soubanh" sort="Silithammavong, Soubanh" uniqKey="Silithammavong S" first="Soubanh" last="Silithammavong">Soubanh Silithammavong</name>
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<author><name sortKey="Greatorex, Zoe" sort="Greatorex, Zoe" uniqKey="Greatorex Z" first="Zoe" last="Greatorex">Zoe Greatorex</name>
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<sourceDesc><biblStruct><analytic><title xml:lang="en">Genetic diversity of coronaviruses in bats in Lao PDR and Cambodia.</title>
<author><name sortKey="Lacroix, Audrey" sort="Lacroix, Audrey" uniqKey="Lacroix A" first="Audrey" last="Lacroix">Audrey Lacroix</name>
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<author><name sortKey="Duong, Veasna" sort="Duong, Veasna" uniqKey="Duong V" first="Veasna" last="Duong">Veasna Duong</name>
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<author><name sortKey="Hul, Vibol" sort="Hul, Vibol" uniqKey="Hul V" first="Vibol" last="Hul">Vibol Hul</name>
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<author><name sortKey="San, Sorn" sort="San, Sorn" uniqKey="San S" first="Sorn" last="San">Sorn San</name>
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<author><name sortKey="Davun, Hull" sort="Davun, Hull" uniqKey="Davun H" first="Hull" last="Davun">Hull Davun</name>
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<author><name sortKey="Omaliss, Keo" sort="Omaliss, Keo" uniqKey="Omaliss K" first="Keo" last="Omaliss">Keo Omaliss</name>
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<author><name sortKey="Chea, Sokha" sort="Chea, Sokha" uniqKey="Chea S" first="Sokha" last="Chea">Sokha Chea</name>
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<author><name sortKey="Hassanin, Alexandre" sort="Hassanin, Alexandre" uniqKey="Hassanin A" first="Alexandre" last="Hassanin">Alexandre Hassanin</name>
<affiliation wicri:level="1"><nlm:affiliation>Muséum national d'Histoire naturelle, Institut de Systématique, Evolution, Biodiversité (ISYEB), UMR 7205 MNHN CNRS UPMC, France.</nlm:affiliation>
<country xml:lang="fr">France</country>
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<author><name sortKey="Theppangna, Watthana" sort="Theppangna, Watthana" uniqKey="Theppangna W" first="Watthana" last="Theppangna">Watthana Theppangna</name>
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</affiliation>
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<author><name sortKey="Silithammavong, Soubanh" sort="Silithammavong, Soubanh" uniqKey="Silithammavong S" first="Soubanh" last="Silithammavong">Soubanh Silithammavong</name>
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</affiliation>
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<author><name sortKey="Khammavong, Kongsy" sort="Khammavong, Kongsy" uniqKey="Khammavong K" first="Kongsy" last="Khammavong">Kongsy Khammavong</name>
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</author>
<author><name sortKey="Singhalath, Sinpakone" sort="Singhalath, Sinpakone" uniqKey="Singhalath S" first="Sinpakone" last="Singhalath">Sinpakone Singhalath</name>
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<author><name sortKey="Greatorex, Zoe" sort="Greatorex, Zoe" uniqKey="Greatorex Z" first="Zoe" last="Greatorex">Zoe Greatorex</name>
<affiliation><nlm:affiliation>Wildlife Conservation Society, Lao Democratic People's Republic.</nlm:affiliation>
<wicri:noCountry code="subField">Lao Democratic People's Republic</wicri:noCountry>
</affiliation>
</author>
<author><name sortKey="Fine, Amanda E" sort="Fine, Amanda E" uniqKey="Fine A" first="Amanda E" last="Fine">Amanda E. Fine</name>
<affiliation wicri:level="1"><nlm:affiliation>Wildlife Conservation Society, Vietnam Program, Hanoi, Vietnam.</nlm:affiliation>
<country xml:lang="fr">Viêt Nam</country>
<wicri:regionArea>Wildlife Conservation Society, Vietnam Program, Hanoi</wicri:regionArea>
<wicri:noRegion>Hanoi</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Goldstein, Tracey" sort="Goldstein, Tracey" uniqKey="Goldstein T" first="Tracey" last="Goldstein">Tracey Goldstein</name>
<affiliation wicri:level="1"><nlm:affiliation>One Health Institute, School of Veterinary Medicine, University of California, Davis, USA.</nlm:affiliation>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>One Health Institute, School of Veterinary Medicine, University of California, Davis</wicri:regionArea>
<wicri:noRegion>Davis</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Olson, Sarah" sort="Olson, Sarah" uniqKey="Olson S" first="Sarah" last="Olson">Sarah Olson</name>
<affiliation wicri:level="2"><nlm:affiliation>Wildlife Conservation Society, Wildlife Health Program, Bronx, New York, USA.</nlm:affiliation>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>Wildlife Conservation Society, Wildlife Health Program, Bronx, New York</wicri:regionArea>
<placeName><region type="state">État de New York</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Joly, Damien O" sort="Joly, Damien O" uniqKey="Joly D" first="Damien O" last="Joly">Damien O. Joly</name>
<affiliation wicri:level="1"><nlm:affiliation>Wildlife Conservation Society, Wildlife Health Program, Bronx, New York, USA; Metabiota Inc., Nanaimo, British Columbia, Canada.</nlm:affiliation>
<country xml:lang="fr">Canada</country>
<wicri:regionArea>Wildlife Conservation Society, Wildlife Health Program, Bronx, New York, USA; Metabiota Inc., Nanaimo, British Columbia</wicri:regionArea>
<wicri:noRegion>British Columbia</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Keatts, Lucy" sort="Keatts, Lucy" uniqKey="Keatts L" first="Lucy" last="Keatts">Lucy Keatts</name>
<affiliation wicri:level="1"><nlm:affiliation>Wildlife Conservation Society, Cambodia.</nlm:affiliation>
<country xml:lang="fr">Cambodge</country>
<wicri:regionArea>Wildlife Conservation Society</wicri:regionArea>
</affiliation>
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<series><title level="j">Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases</title>
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<term>Coronavirus (genetics)</term>
<term>Disease Reservoirs</term>
<term>Evolution, Molecular</term>
<term>Genes, Viral</term>
<term>Genetic Variation</term>
<term>Laos</term>
<term>Phylogeny</term>
<term>Phylogeography</term>
<term>RNA Replicase (genetics)</term>
<term>Sequence Analysis, DNA</term>
<term>Viral Proteins (genetics)</term>
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<term>Coronavirus (génétique)</term>
<term>Gènes viraux</term>
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<term>Phylogéographie</term>
<term>Protéines virales (génétique)</term>
<term>RNA replicase (génétique)</term>
<term>Réservoirs d'agents pathogènes</term>
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<front><div type="abstract" xml:lang="en">South-East Asia is a hot spot for emerging zoonotic diseases, and bats have been recognized as hosts for a large number of zoonotic viruses such as Severe Acute Respiratory Syndrome (SARS), responsible for acute respiratory syndrome outbreaks. Thus, it is important to expand our knowledge of the presence of viruses in bats which could represent a risk to humans. Coronaviruses (CoVs) have been reported in bat species from Thailand, China, Indonesia, Taiwan and the Philippines. However no such work was conducted in Cambodia or Lao PDR. Between 2010 and 2013, 1965 bats were therefore sampled at interfaces with human populations in these two countries. They were tested for the presence of coronavirus by consensus reverse transcription-PCR assay. A total of 93 samples (4.7%) from 17 genera of bats tested positive. Sequence analysis revealed the presence of potentially 37 and 56 coronavirus belonging to alpha-coronavirus (αCoV) and beta-CoV (βCoV), respectively. The βCoVs group is known to include some coronaviruses highly pathogenic to human, such as SARS-CoV and MERS-CoV. All coronavirus sequences generated from frugivorous bats (family Pteropodidae) (n=55) clustered with other bat βCoVs of lineage D, whereas one coronavirus from Pipistrellus coromandra fell in the lineage C of βCoVs which also includes the MERS-CoV. αCoVs were all detected in various genera of insectivorous bats and clustered with diverse bat αCoV sequences previously published. A closely related strain of PEDV, responsible for severe diarrhea in pigs (PEDV-CoV), was detected in 2 Myotis bats. We highlighted the presence and the high diversity of coronaviruses circulating in bats from Cambodia and Lao PDR. Three new bat genera and species were newly identified as host of coronaviruses, namely Macroglossus sp., Megaerops niphanae and Myotis horsfieldii.</div>
</front>
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<DateCompleted><Year>2017</Year>
<Month>11</Month>
<Day>03</Day>
</DateCompleted>
<DateRevised><Year>2020</Year>
<Month>04</Month>
<Day>02</Day>
</DateRevised>
<Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1567-7257</ISSN>
<JournalIssue CitedMedium="Internet"><Volume>48</Volume>
<PubDate><Year>2017</Year>
<Month>03</Month>
</PubDate>
</JournalIssue>
<Title>Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases</Title>
<ISOAbbreviation>Infect. Genet. Evol.</ISOAbbreviation>
</Journal>
<ArticleTitle>Genetic diversity of coronaviruses in bats in Lao PDR and Cambodia.</ArticleTitle>
<Pagination><MedlinePgn>10-18</MedlinePgn>
</Pagination>
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<ELocationID EIdType="doi" ValidYN="Y">10.1016/j.meegid.2016.11.029</ELocationID>
<Abstract><AbstractText>South-East Asia is a hot spot for emerging zoonotic diseases, and bats have been recognized as hosts for a large number of zoonotic viruses such as Severe Acute Respiratory Syndrome (SARS), responsible for acute respiratory syndrome outbreaks. Thus, it is important to expand our knowledge of the presence of viruses in bats which could represent a risk to humans. Coronaviruses (CoVs) have been reported in bat species from Thailand, China, Indonesia, Taiwan and the Philippines. However no such work was conducted in Cambodia or Lao PDR. Between 2010 and 2013, 1965 bats were therefore sampled at interfaces with human populations in these two countries. They were tested for the presence of coronavirus by consensus reverse transcription-PCR assay. A total of 93 samples (4.7%) from 17 genera of bats tested positive. Sequence analysis revealed the presence of potentially 37 and 56 coronavirus belonging to alpha-coronavirus (αCoV) and beta-CoV (βCoV), respectively. The βCoVs group is known to include some coronaviruses highly pathogenic to human, such as SARS-CoV and MERS-CoV. All coronavirus sequences generated from frugivorous bats (family Pteropodidae) (n=55) clustered with other bat βCoVs of lineage D, whereas one coronavirus from Pipistrellus coromandra fell in the lineage C of βCoVs which also includes the MERS-CoV. αCoVs were all detected in various genera of insectivorous bats and clustered with diverse bat αCoV sequences previously published. A closely related strain of PEDV, responsible for severe diarrhea in pigs (PEDV-CoV), was detected in 2 Myotis bats. We highlighted the presence and the high diversity of coronaviruses circulating in bats from Cambodia and Lao PDR. Three new bat genera and species were newly identified as host of coronaviruses, namely Macroglossus sp., Megaerops niphanae and Myotis horsfieldii.</AbstractText>
<CopyrightInformation>Copyright © 2016 Elsevier B.V. All rights reserved.</CopyrightInformation>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Lacroix</LastName>
<ForeName>Audrey</ForeName>
<Initials>A</Initials>
<AffiliationInfo><Affiliation>Institut Pasteur du Cambodge, Virology Unit, Phnom Penh, Cambodia.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Duong</LastName>
<ForeName>Veasna</ForeName>
<Initials>V</Initials>
<AffiliationInfo><Affiliation>Institut Pasteur du Cambodge, Virology Unit, Phnom Penh, Cambodia.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Hul</LastName>
<ForeName>Vibol</ForeName>
<Initials>V</Initials>
<AffiliationInfo><Affiliation>Institut Pasteur du Cambodge, Virology Unit, Phnom Penh, Cambodia.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>San</LastName>
<ForeName>Sorn</ForeName>
<Initials>S</Initials>
<AffiliationInfo><Affiliation>National Veterinary Research Institute, Ministry of Agriculture Forestry and Fisheries, Cambodia.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Davun</LastName>
<ForeName>Hull</ForeName>
<Initials>H</Initials>
<AffiliationInfo><Affiliation>National Veterinary Research Institute, Ministry of Agriculture Forestry and Fisheries, Cambodia.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Omaliss</LastName>
<ForeName>Keo</ForeName>
<Initials>K</Initials>
<AffiliationInfo><Affiliation>Forest Administration, Ministry of Agriculture Forestry and Fisheries, Cambodia.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Chea</LastName>
<ForeName>Sokha</ForeName>
<Initials>S</Initials>
<AffiliationInfo><Affiliation>Wildlife Conservation Society, Cambodia.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Hassanin</LastName>
<ForeName>Alexandre</ForeName>
<Initials>A</Initials>
<AffiliationInfo><Affiliation>Muséum national d'Histoire naturelle, Institut de Systématique, Evolution, Biodiversité (ISYEB), UMR 7205 MNHN CNRS UPMC, France.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Theppangna</LastName>
<ForeName>Watthana</ForeName>
<Initials>W</Initials>
<AffiliationInfo><Affiliation>National Animal Health Laboratory, Ministry of Agriculture Forestry and Fisheries, Lao Democratic People's Republic.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Silithammavong</LastName>
<ForeName>Soubanh</ForeName>
<Initials>S</Initials>
<AffiliationInfo><Affiliation>Wildlife Conservation Society, Lao Democratic People's Republic; Metabiota Inc., Vientiane, Lao Democratic People's Republic.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Khammavong</LastName>
<ForeName>Kongsy</ForeName>
<Initials>K</Initials>
<AffiliationInfo><Affiliation>Wildlife Conservation Society, Lao Democratic People's Republic.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Singhalath</LastName>
<ForeName>Sinpakone</ForeName>
<Initials>S</Initials>
<AffiliationInfo><Affiliation>Wildlife Conservation Society, Lao Democratic People's Republic.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Greatorex</LastName>
<ForeName>Zoe</ForeName>
<Initials>Z</Initials>
<AffiliationInfo><Affiliation>Wildlife Conservation Society, Lao Democratic People's Republic.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Fine</LastName>
<ForeName>Amanda E</ForeName>
<Initials>AE</Initials>
<AffiliationInfo><Affiliation>Wildlife Conservation Society, Vietnam Program, Hanoi, Vietnam.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Goldstein</LastName>
<ForeName>Tracey</ForeName>
<Initials>T</Initials>
<AffiliationInfo><Affiliation>One Health Institute, School of Veterinary Medicine, University of California, Davis, USA.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Olson</LastName>
<ForeName>Sarah</ForeName>
<Initials>S</Initials>
<AffiliationInfo><Affiliation>Wildlife Conservation Society, Wildlife Health Program, Bronx, New York, USA.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Joly</LastName>
<ForeName>Damien O</ForeName>
<Initials>DO</Initials>
<AffiliationInfo><Affiliation>Wildlife Conservation Society, Wildlife Health Program, Bronx, New York, USA; Metabiota Inc., Nanaimo, British Columbia, Canada.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Keatts</LastName>
<ForeName>Lucy</ForeName>
<Initials>L</Initials>
<AffiliationInfo><Affiliation>Wildlife Conservation Society, Cambodia.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Dussart</LastName>
<ForeName>Philippe</ForeName>
<Initials>P</Initials>
<AffiliationInfo><Affiliation>Institut Pasteur du Cambodge, Virology Unit, Phnom Penh, Cambodia.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Afelt</LastName>
<ForeName>Aneta</ForeName>
<Initials>A</Initials>
<AffiliationInfo><Affiliation>Institute of Physical Geography, Faculty of Geography and Regional Studies, University of Warsaw, Warsaw, Poland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Frutos</LastName>
<ForeName>Roger</ForeName>
<Initials>R</Initials>
<AffiliationInfo><Affiliation>Cirad, UMR 17, Cirad-Ird, TA-A17/G, Montpellier, France; Université de Montpellier, IES, UMR 5214, CNRS-UM, Montpellier, France. Electronic address: roger.frutos@ies.univ-montp2.fr.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Buchy</LastName>
<ForeName>Philippe</ForeName>
<Initials>P</Initials>
<AffiliationInfo><Affiliation>Institut Pasteur du Cambodge, Virology Unit, Phnom Penh, Cambodia; GSK Vaccines R&D, 150 Beach road, # 22-00, 189720, Singapore. Electronic address: buchyphilippe@hotmail.com.</Affiliation>
</AffiliationInfo>
</Author>
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<Language>eng</Language>
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<PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType>
</PublicationTypeList>
<ArticleDate DateType="Electronic"><Year>2016</Year>
<Month>12</Month>
<Day>06</Day>
</ArticleDate>
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<MedlineJournalInfo><Country>Netherlands</Country>
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<QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName>
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<MeshHeading><DescriptorName UI="D004197" MajorTopicYN="N">Disease Reservoirs</DescriptorName>
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<MeshHeading><DescriptorName UI="D005814" MajorTopicYN="N">Genes, Viral</DescriptorName>
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<MeshHeading><DescriptorName UI="D007812" MajorTopicYN="N">Laos</DescriptorName>
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<MeshHeading><DescriptorName UI="D010802" MajorTopicYN="N">Phylogeny</DescriptorName>
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<MeshHeading><DescriptorName UI="D058974" MajorTopicYN="N">Phylogeography</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D012324" MajorTopicYN="N">RNA Replicase</DescriptorName>
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