A viral metagenomic survey identifies known and novel mammalian viruses in bats from Saudi Arabia
Identifieur interne : 000720 ( Main/Exploration ); précédent : 000719; suivant : 000721A viral metagenomic survey identifies known and novel mammalian viruses in bats from Saudi Arabia
Auteurs : Nischay Mishra [États-Unis] ; Shamsudeen F. Fagbo [Arabie saoudite] ; Abdulaziz N. Alagaili [Arabie saoudite] ; Adam Nitido [États-Unis] ; Simon H. Williams [États-Unis] ; James Ng [États-Unis] ; Bohyun Lee [États-Unis] ; Abdulkareem Durosinlorun [Nigeria] ; Joel A. Garcia [États-Unis] ; Komal Jain [États-Unis] ; Vishal Kapoor [États-Unis] ; Jonathan H. Epstein [États-Unis] ; Thomas Briese [États-Unis] ; Ziad A. Memish ; Kevin J. Olival [États-Unis] ; W. Ian Lipkin [États-Unis]Source :
- PLoS ONE [ 1932-6203 ] ; 2019.
Descripteurs français
- KwdFr :
- Animaux, Arabie saoudite, Caliciviridae (génétique), Caliciviridae (isolement et purification), Chiroptera (génétique), Chiroptera (virologie), Coronavirus du syndrome respiratoire du Moyen-Orient, Fèces (virologie), Humains, Mammifères (virologie), Moyen Orient, Métagénome (génétique), Métagénomique, Paramyxoviridae (génétique), Paramyxoviridae (isolement et purification), Phylogénie, Picornaviridae (génétique), Picornaviridae (isolement et purification), Rotavirus (génétique), Rotavirus (isolement et purification), Séquençage nucléotidique à haut débit, Virus à ARN (génétique), Égypte.
- MESH :
- génétique : Caliciviridae, Chiroptera, Métagénome, Paramyxoviridae, Picornaviridae, Rotavirus, Virus à ARN.
- isolement et purification : Caliciviridae, Paramyxoviridae, Picornaviridae, Rotavirus.
- virologie : Chiroptera, Fèces, Mammifères.
- Animaux, Arabie saoudite, Coronavirus du syndrome respiratoire du Moyen-Orient, Humains, Moyen Orient, Métagénomique, Phylogénie, Séquençage nucléotidique à haut débit, Égypte.
- Wicri :
- geographic : Égypte, Arabie saoudite.
English descriptors
- KwdEn :
- Animals, Caliciviridae (genetics), Caliciviridae (isolation & purification), Chiroptera (genetics), Chiroptera (virology), Egypt, Feces (virology), High-Throughput Nucleotide Sequencing, Humans, Mammals (virology), Metagenome (genetics), Metagenomics, Middle East, Middle East Respiratory Syndrome Coronavirus, Paramyxoviridae (genetics), Paramyxoviridae (isolation & purification), Phylogeny, Picornaviridae (genetics), Picornaviridae (isolation & purification), RNA Viruses (genetics), Rotavirus (genetics), Rotavirus (isolation & purification), Saudi Arabia.
- MESH :
- geographic : Egypt, Middle East, Saudi Arabia.
- genetics : Caliciviridae, Chiroptera, Metagenome, Paramyxoviridae, Picornaviridae, RNA Viruses, Rotavirus.
- isolation & purification : Caliciviridae, Paramyxoviridae, Picornaviridae, Rotavirus.
- virology : Chiroptera, Feces, Mammals.
- Animals, High-Throughput Nucleotide Sequencing, Humans, Metagenomics, Middle East Respiratory Syndrome Coronavirus, Phylogeny.
Abstract
Bats are implicated as natural reservoirs for a wide range of zoonotic viruses including SARS and MERS coronaviruses, Ebola, Marburg, Nipah, Hendra, Rabies and other lyssaviruses. Accordingly, many One Health surveillance and viral discovery programs have focused on bats. In this report we present viral metagenomic data from bats collected in the Kingdom of Saudi Arabia [KSA]. Unbiased high throughput sequencing of fecal samples from 72 bat individuals comprising four species; lesser mouse-tailed bat (
Url:
DOI: 10.1371/journal.pone.0214227
PubMed: 30969980
PubMed Central: 6457491
Affiliations:
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Fagbo</name><affiliation wicri:level="1"><nlm:aff id="aff002"><addr-line>One Health Unit, Executive Directorate for Surveillance and Response, National Center for Disease Prevention and Control, Riyadh, Saudi Arabia</addr-line></nlm:aff><country xml:lang="fr">Arabie saoudite</country><wicri:regionArea>One Health Unit, Executive Directorate for Surveillance and Response, National Center for Disease Prevention and Control, Riyadh</wicri:regionArea><wicri:noRegion>Riyadh</wicri:noRegion></affiliation></author><author><name sortKey="Alagaili, Abdulaziz N" sort="Alagaili, Abdulaziz N" uniqKey="Alagaili A" first="Abdulaziz N." last="Alagaili">Abdulaziz N. Alagaili</name><affiliation wicri:level="1"><nlm:aff id="aff003"><addr-line>KSU Mammals Research Chair, Department of Zoology, College of Science, King Saud University, Riyadh, Saudi Arabia</addr-line></nlm:aff><country xml:lang="fr">Arabie saoudite</country><wicri:regionArea>KSU Mammals Research Chair, Department of Zoology, College of Science, King Saud University, Riyadh</wicri:regionArea><wicri:noRegion>Riyadh</wicri:noRegion></affiliation></author><author><name sortKey="Nitido, Adam" sort="Nitido, Adam" uniqKey="Nitido A" first="Adam" last="Nitido">Adam Nitido</name><affiliation wicri:level="4"><nlm:aff id="aff001"><addr-line>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York</wicri:regionArea><placeName><region type="state">État de New York</region><settlement type="city">New York</settlement></placeName><orgName type="university">Université Columbia</orgName></affiliation></author><author><name sortKey="Williams, Simon H" sort="Williams, Simon H" uniqKey="Williams S" first="Simon H." last="Williams">Simon H. Williams</name><affiliation wicri:level="4"><nlm:aff id="aff001"><addr-line>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York</wicri:regionArea><placeName><region type="state">État de New York</region><settlement type="city">New York</settlement></placeName><orgName type="university">Université Columbia</orgName></affiliation></author><author><name sortKey="Ng, James" sort="Ng, James" uniqKey="Ng J" first="James" last="Ng">James Ng</name><affiliation wicri:level="4"><nlm:aff id="aff001"><addr-line>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York</wicri:regionArea><placeName><region type="state">État de New York</region><settlement type="city">New York</settlement></placeName><orgName type="university">Université Columbia</orgName></affiliation></author><author><name sortKey="Lee, Bohyun" sort="Lee, Bohyun" uniqKey="Lee B" first="Bohyun" last="Lee">Bohyun Lee</name><affiliation wicri:level="4"><nlm:aff id="aff001"><addr-line>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York</wicri:regionArea><placeName><region type="state">État de New York</region><settlement type="city">New York</settlement></placeName><orgName type="university">Université Columbia</orgName></affiliation></author><author><name sortKey="Durosinlorun, Abdulkareem" sort="Durosinlorun, Abdulkareem" uniqKey="Durosinlorun A" first="Abdulkareem" last="Durosinlorun">Abdulkareem Durosinlorun</name><affiliation wicri:level="1"><nlm:aff id="aff004"><addr-line>Federal Ministry of Agriculture and Rural Development, Kaduna, Nigeria</addr-line></nlm:aff><country xml:lang="fr">Nigeria</country><wicri:regionArea>Federal Ministry of Agriculture and Rural Development, Kaduna</wicri:regionArea><wicri:noRegion>Kaduna</wicri:noRegion></affiliation></author><author><name sortKey="Garcia, Joel A" sort="Garcia, Joel A" uniqKey="Garcia J" first="Joel A." last="Garcia">Joel A. Garcia</name><affiliation wicri:level="4"><nlm:aff id="aff001"><addr-line>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York</wicri:regionArea><placeName><region type="state">État de New York</region><settlement type="city">New York</settlement></placeName><orgName type="university">Université Columbia</orgName></affiliation></author><author><name sortKey="Jain, Komal" sort="Jain, Komal" uniqKey="Jain K" first="Komal" last="Jain">Komal Jain</name><affiliation wicri:level="4"><nlm:aff id="aff001"><addr-line>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York</wicri:regionArea><placeName><region type="state">État de New York</region><settlement type="city">New York</settlement></placeName><orgName type="university">Université Columbia</orgName></affiliation></author><author><name sortKey="Kapoor, Vishal" sort="Kapoor, Vishal" uniqKey="Kapoor V" first="Vishal" last="Kapoor">Vishal Kapoor</name><affiliation wicri:level="4"><nlm:aff id="aff001"><addr-line>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York</wicri:regionArea><placeName><region type="state">État de New York</region><settlement type="city">New York</settlement></placeName><orgName type="university">Université Columbia</orgName></affiliation></author><author><name sortKey="Epstein, Jonathan H" sort="Epstein, Jonathan H" uniqKey="Epstein J" first="Jonathan H." last="Epstein">Jonathan H. Epstein</name><affiliation wicri:level="2"><nlm:aff id="aff005"><addr-line>EcoHealth Alliance, New York, New York, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>EcoHealth Alliance, New York, New York</wicri:regionArea><placeName><region type="state">État de New York</region></placeName></affiliation></author><author><name sortKey="Briese, Thomas" sort="Briese, Thomas" uniqKey="Briese T" first="Thomas" last="Briese">Thomas Briese</name><affiliation wicri:level="4"><nlm:aff id="aff001"><addr-line>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York</wicri:regionArea><placeName><region type="state">État de New York</region><settlement type="city">New York</settlement></placeName><orgName type="university">Université Columbia</orgName></affiliation></author><author><name sortKey="Memish, Ziad A" sort="Memish, Ziad A" uniqKey="Memish Z" first="Ziad A." last="Memish">Ziad A. Memish</name><affiliation><nlm:aff id="aff006"><addr-line>The College of Medicine, Al faisal University & Prince Mohammed Bin Abdulaziz Hospital, Ministry of Health, Riyadh, Kingdom of Saudi Arabia</addr-line></nlm:aff><wicri:noCountry code="subfield">Kingdom of Saudi Arabia</wicri:noCountry></affiliation></author><author><name sortKey="Olival, Kevin J" sort="Olival, Kevin J" uniqKey="Olival K" first="Kevin J." last="Olival">Kevin J. Olival</name><affiliation wicri:level="2"><nlm:aff id="aff005"><addr-line>EcoHealth Alliance, New York, New York, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>EcoHealth Alliance, New York, New York</wicri:regionArea><placeName><region type="state">État de New York</region></placeName></affiliation></author><author><name sortKey="Lipkin, W Ian" sort="Lipkin, W Ian" uniqKey="Lipkin W" first="W. Ian" last="Lipkin">W. Ian Lipkin</name><affiliation wicri:level="4"><nlm:aff id="aff001"><addr-line>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, New York</wicri:regionArea><placeName><region type="state">État de New York</region><settlement type="city">New York</settlement></placeName><orgName type="university">Université Columbia</orgName></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2019">2019</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>Caliciviridae (genetics)</term><term>Caliciviridae (isolation & purification)</term><term>Chiroptera (genetics)</term><term>Chiroptera (virology)</term><term>Egypt</term><term>Feces (virology)</term><term>High-Throughput Nucleotide Sequencing</term><term>Humans</term><term>Mammals (virology)</term><term>Metagenome (genetics)</term><term>Metagenomics</term><term>Middle East</term><term>Middle East Respiratory Syndrome Coronavirus</term><term>Paramyxoviridae (genetics)</term><term>Paramyxoviridae (isolation & purification)</term><term>Phylogeny</term><term>Picornaviridae (genetics)</term><term>Picornaviridae (isolation & purification)</term><term>RNA Viruses (genetics)</term><term>Rotavirus (genetics)</term><term>Rotavirus (isolation & purification)</term><term>Saudi Arabia</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Animaux</term><term>Arabie saoudite</term><term>Caliciviridae (génétique)</term><term>Caliciviridae (isolement et purification)</term><term>Chiroptera (génétique)</term><term>Chiroptera (virologie)</term><term>Coronavirus du syndrome respiratoire du Moyen-Orient</term><term>Fèces (virologie)</term><term>Humains</term><term>Mammifères (virologie)</term><term>Moyen Orient</term><term>Métagénome (génétique)</term><term>Métagénomique</term><term>Paramyxoviridae (génétique)</term><term>Paramyxoviridae (isolement et purification)</term><term>Phylogénie</term><term>Picornaviridae (génétique)</term><term>Picornaviridae (isolement et purification)</term><term>Rotavirus (génétique)</term><term>Rotavirus (isolement et purification)</term><term>Séquençage nucléotidique à haut débit</term><term>Virus à ARN (génétique)</term><term>Égypte</term></keywords><keywords scheme="MESH" type="geographic" xml:lang="en"><term>Egypt</term><term>Middle East</term><term>Saudi Arabia</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Caliciviridae</term><term>Chiroptera</term><term>Metagenome</term><term>Paramyxoviridae</term><term>Picornaviridae</term><term>RNA Viruses</term><term>Rotavirus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Caliciviridae</term><term>Chiroptera</term><term>Métagénome</term><term>Paramyxoviridae</term><term>Picornaviridae</term><term>Rotavirus</term><term>Virus à ARN</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Caliciviridae</term><term>Paramyxoviridae</term><term>Picornaviridae</term><term>Rotavirus</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Caliciviridae</term><term>Paramyxoviridae</term><term>Picornaviridae</term><term>Rotavirus</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Chiroptera</term><term>Fèces</term><term>Mammifères</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Chiroptera</term><term>Feces</term><term>Mammals</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>High-Throughput Nucleotide Sequencing</term><term>Humans</term><term>Metagenomics</term><term>Middle East Respiratory Syndrome Coronavirus</term><term>Phylogeny</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Animaux</term><term>Arabie saoudite</term><term>Coronavirus du syndrome respiratoire du Moyen-Orient</term><term>Humains</term><term>Moyen Orient</term><term>Métagénomique</term><term>Phylogénie</term><term>Séquençage nucléotidique à haut débit</term><term>Égypte</term></keywords><keywords scheme="Wicri" type="geographic" xml:lang="fr"><term>Égypte</term><term>Arabie saoudite</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Bats are implicated as natural reservoirs for a wide range of zoonotic viruses including SARS and MERS coronaviruses, Ebola, Marburg, Nipah, Hendra, Rabies and other lyssaviruses. Accordingly, many One Health surveillance and viral discovery programs have focused on bats. In this report we present viral metagenomic data from bats collected in the Kingdom of Saudi Arabia [KSA]. Unbiased high throughput sequencing of fecal samples from 72 bat individuals comprising four species; lesser mouse-tailed bat (<italic>Rhinopoma hardwickii)</italic>, Egyptian tomb bat <italic>(Taphozous perforatus)</italic>, straw-colored fruit bat <italic>(Eidolon helvum)</italic>, <italic>and</italic> Egyptian fruit bat <italic>(Rousettus aegyptiacus</italic>) revealed molecular evidence of a diverse set of viral families: <italic>Picornaviridae</italic> (hepatovirus, teschovirus, parechovirus), <italic>Reoviridae</italic> (rotavirus), <italic>Polyomaviridae</italic> (polyomavirus), <italic>Papillomaviridae</italic> (papillomavirus), <italic>Astroviridae</italic> (astrovirus), <italic>Caliciviridae</italic> (sapovirus), <italic>Coronaviridae</italic> (coronavirus), <italic>Adenoviridae</italic> (adenovirus), <italic>Paramyxoviridae</italic> (paramyxovirus), and unassigned mononegavirales (chuvirus). Additionally, we discovered a bastro-like virus (Middle East Hepe-Astrovirus), with a genomic organization similar to <italic>Hepeviridae</italic>. However, since it shared homology with <italic>Hepeviridae</italic> and <italic>Astroviridae</italic> at ORF1 and in ORF2, respectively, the newly discovered Hepe-Astrovirus may represent a phylogenetic bridge between <italic>Hepeviridae</italic> and <italic>Astroviridae</italic>.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Hoffmaster, E" uniqKey="Hoffmaster E">E Hoffmaster</name></author><author><name sortKey="Vonk, J" uniqKey="Vonk J">J Vonk</name></author><author><name sortKey="Mies, R" uniqKey="Mies R">R Mies</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Vora, Nm" uniqKey="Vora N">NM Vora</name></author><author><name sortKey="Osinubi, M" uniqKey="Osinubi M">M Osinubi</name></author><author><name sortKey="Wallace, Rm" uniqKey="Wallace R">RM Wallace</name></author><author><name sortKey="Aman Oloniyo, A" uniqKey="Aman Oloniyo A">A 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York</li></settlement><orgName><li>Université Columbia</li></orgName></list><tree><noCountry><name sortKey="Memish, Ziad A" sort="Memish, Ziad A" uniqKey="Memish Z" first="Ziad A." last="Memish">Ziad A. Memish</name></noCountry><country name="États-Unis"><region name="État de New York"><name sortKey="Mishra, Nischay" sort="Mishra, Nischay" uniqKey="Mishra N" first="Nischay" last="Mishra">Nischay Mishra</name></region><name sortKey="Briese, Thomas" sort="Briese, Thomas" uniqKey="Briese T" first="Thomas" last="Briese">Thomas Briese</name><name sortKey="Epstein, Jonathan H" sort="Epstein, Jonathan H" uniqKey="Epstein J" first="Jonathan H." last="Epstein">Jonathan H. Epstein</name><name sortKey="Garcia, Joel A" sort="Garcia, Joel A" uniqKey="Garcia J" first="Joel A." last="Garcia">Joel A. Garcia</name><name sortKey="Jain, Komal" sort="Jain, Komal" uniqKey="Jain K" first="Komal" last="Jain">Komal Jain</name><name sortKey="Kapoor, Vishal" sort="Kapoor, Vishal" uniqKey="Kapoor V" first="Vishal" last="Kapoor">Vishal Kapoor</name><name sortKey="Lee, Bohyun" sort="Lee, Bohyun" uniqKey="Lee B" first="Bohyun" last="Lee">Bohyun Lee</name><name sortKey="Lipkin, W Ian" sort="Lipkin, W Ian" uniqKey="Lipkin W" first="W. Ian" last="Lipkin">W. Ian Lipkin</name><name sortKey="Ng, James" sort="Ng, James" uniqKey="Ng J" first="James" last="Ng">James Ng</name><name sortKey="Nitido, Adam" sort="Nitido, Adam" uniqKey="Nitido A" first="Adam" last="Nitido">Adam Nitido</name><name sortKey="Olival, Kevin J" sort="Olival, Kevin J" uniqKey="Olival K" first="Kevin J." last="Olival">Kevin J. Olival</name><name sortKey="Williams, Simon H" sort="Williams, Simon H" uniqKey="Williams S" first="Simon H." last="Williams">Simon H. Williams</name></country><country name="Arabie saoudite"><noRegion><name sortKey="Fagbo, Shamsudeen F" sort="Fagbo, Shamsudeen F" uniqKey="Fagbo S" first="Shamsudeen F." last="Fagbo">Shamsudeen F. Fagbo</name></noRegion><name sortKey="Alagaili, Abdulaziz N" sort="Alagaili, Abdulaziz N" uniqKey="Alagaili A" first="Abdulaziz N." last="Alagaili">Abdulaziz N. Alagaili</name></country><country name="Nigeria"><noRegion><name sortKey="Durosinlorun, Abdulkareem" sort="Durosinlorun, Abdulkareem" uniqKey="Durosinlorun A" first="Abdulkareem" last="Durosinlorun">Abdulkareem Durosinlorun</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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