Discovery of Bat Coronaviruses through Surveillance and Probe Capture-Based Next-Generation Sequencing
Identifieur interne : 000721 ( 2020/Analysis ); précédent : 000720; suivant : 000722Discovery of Bat Coronaviruses through Surveillance and Probe Capture-Based Next-Generation Sequencing
Auteurs : Bei Li [République populaire de Chine] ; Hao-Rui Si [République populaire de Chine] ; Yan Zhu [République populaire de Chine] ; Xing-Lou Yang [République populaire de Chine] ; Danielle E. Anderson [Singapour] ; Zheng-Li Shi [République populaire de Chine] ; Lin-Fa Wang [Singapour] ; Peng Zhou [République populaire de Chine]Source :
- mSphere [ 2379-5042 ] ; 2020.
Descripteurs français
- KwdFr :
- MESH :
- isolement et purification : Coronavirus.
- virologie : Chiroptera.
- Animaux, Coronavirus, Génome viral, Séquençage nucléotidique à haut débit, Variation génétique.
English descriptors
- KwdEn :
- MESH :
- classification : Coronavirus.
- isolation & purification : Coronavirus.
- methods : High-Throughput Nucleotide Sequencing.
- virology : Chiroptera.
- Animals, Genetic Variation, Genome, Viral.
Abstract
Active surveillance is both urgent and essential to predict and mitigate the emergence of bat-origin CoV in humans and livestock. However, great genetic diversity increases the chance of homologous recombination among CoVs. Performing targeted PCR, a common practice for many surveillance studies, would not reflect this diversity. NGS, on the other hand, is an expensive methodology and is prone to missing low-abundance CoV sequences. Here, we employ a capture-based NGS approach using baits targeting all CoVs. Our work demonstrates that targeted, cost-effective, large-scale, genome-level surveillance of bat CoVs is now highly feasible.
Url:
DOI: 10.1128/mSphere.00807-19
PubMed: 31996413
PubMed Central: 6992374
Affiliations:
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PMC:6992374Le document en format XML
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Anderson</name><affiliation wicri:level="1"><nlm:aff id="aff3"><addr-line>Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore, Singapore</addr-line></nlm:aff><country xml:lang="fr">Singapour</country><wicri:regionArea>Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore</wicri:regionArea><wicri:noRegion>Singapore</wicri:noRegion></affiliation></author><author><name sortKey="Shi, Zheng Li" sort="Shi, Zheng Li" uniqKey="Shi Z" first="Zheng-Li" last="Shi">Zheng-Li Shi</name><affiliation wicri:level="3"><nlm:aff id="aff1"><addr-line>CAS Key Laboratory of Special Pathogens, Wuhan Institute of Virology, Center for Biosafety Mega-Science, Chinese Academy of Sciences, Wuhan, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>CAS Key Laboratory of Special Pathogens, Wuhan Institute of Virology, Center for Biosafety Mega-Science, Chinese Academy of Sciences, Wuhan</wicri:regionArea><placeName><settlement type="city">Wuhan</settlement><region type="région">Hubei</region></placeName></affiliation></author><author><name sortKey="Wang, Lin Fa" sort="Wang, Lin Fa" uniqKey="Wang L" first="Lin-Fa" last="Wang">Lin-Fa Wang</name><affiliation wicri:level="1"><nlm:aff id="aff3"><addr-line>Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore, Singapore</addr-line></nlm:aff><country xml:lang="fr">Singapour</country><wicri:regionArea>Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore</wicri:regionArea><wicri:noRegion>Singapore</wicri:noRegion></affiliation></author><author><name sortKey="Zhou, Peng" sort="Zhou, Peng" uniqKey="Zhou P" first="Peng" last="Zhou">Peng Zhou</name><affiliation wicri:level="3"><nlm:aff id="aff1"><addr-line>CAS Key Laboratory of Special Pathogens, Wuhan Institute of Virology, Center for Biosafety Mega-Science, Chinese Academy of Sciences, Wuhan, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>CAS Key Laboratory of Special Pathogens, Wuhan Institute of Virology, Center for Biosafety Mega-Science, Chinese Academy of Sciences, Wuhan</wicri:regionArea><placeName><settlement type="city">Wuhan</settlement><region type="région">Hubei</region></placeName></affiliation></author></analytic><series><title level="j">mSphere</title><idno type="eISSN">2379-5042</idno><imprint><date when="2020">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>Chiroptera (virology)</term><term>Coronavirus (classification)</term><term>Coronavirus (isolation & purification)</term><term>Genetic Variation</term><term>Genome, Viral</term><term>High-Throughput Nucleotide Sequencing (methods)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Animaux</term><term>Chiroptera (virologie)</term><term>Coronavirus ()</term><term>Coronavirus (isolement et purification)</term><term>Génome viral</term><term>Séquençage nucléotidique à haut débit ()</term><term>Variation génétique</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Coronavirus</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Coronavirus</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Coronavirus</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>High-Throughput Nucleotide Sequencing</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Chiroptera</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Chiroptera</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Genetic Variation</term><term>Genome, Viral</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Animaux</term><term>Coronavirus</term><term>Génome viral</term><term>Séquençage nucléotidique à haut débit</term><term>Variation génétique</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Active surveillance is both urgent and essential to predict and mitigate the emergence of bat-origin CoV in humans and livestock. However, great genetic diversity increases the chance of homologous recombination among CoVs. Performing targeted PCR, a common practice for many surveillance studies, would not reflect this diversity. NGS, on the other hand, is an expensive methodology and is prone to missing low-abundance CoV sequences. Here, we employ a capture-based NGS approach using baits targeting all CoVs. Our work demonstrates that targeted, cost-effective, large-scale, genome-level surveillance of bat CoVs is now highly feasible.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Forni, D" uniqKey="Forni D">D Forni</name></author><author><name sortKey="Cagliani, R" uniqKey="Cagliani R">R Cagliani</name></author><author><name sortKey="Clerici, M" uniqKey="Clerici M">M Clerici</name></author><author><name sortKey="Sironi, M" uniqKey="Sironi M">M Sironi</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Woo, Pc" uniqKey="Woo P">PC Woo</name></author><author><name sortKey="Lau, Sk" uniqKey="Lau S">SK Lau</name></author><author><name sortKey="Huang, Y" uniqKey="Huang Y">Y Huang</name></author><author><name sortKey="Yuen, Ky" uniqKey="Yuen K">KY Yuen</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Lau, Sk" uniqKey="Lau S">SK Lau</name></author><author><name sortKey="Woo, 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first="Hao-Rui" last="Si">Hao-Rui Si</name><name sortKey="Yang, Xing Lou" sort="Yang, Xing Lou" uniqKey="Yang X" first="Xing-Lou" last="Yang">Xing-Lou Yang</name><name sortKey="Zhou, Peng" sort="Zhou, Peng" uniqKey="Zhou P" first="Peng" last="Zhou">Peng Zhou</name><name sortKey="Zhu, Yan" sort="Zhu, Yan" uniqKey="Zhu Y" first="Yan" last="Zhu">Yan Zhu</name></country><country name="Singapour"><noRegion><name sortKey="Anderson, Danielle E" sort="Anderson, Danielle E" uniqKey="Anderson D" first="Danielle E." last="Anderson">Danielle E. Anderson</name></noRegion><name sortKey="Wang, Lin Fa" sort="Wang, Lin Fa" uniqKey="Wang L" first="Lin-Fa" last="Wang">Lin-Fa Wang</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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