Identification of diverse alphacoronaviruses and genomic characterization of a novel severe acute respiratory syndrome-like coronavirus from bats in China.
Identifieur interne : 001633 ( Main/Exploration ); précédent : 001632; suivant : 001634Identification of diverse alphacoronaviruses and genomic characterization of a novel severe acute respiratory syndrome-like coronavirus from bats in China.
Auteurs : Biao He [République populaire de Chine] ; Yuzhen Zhang [République populaire de Chine] ; Lin Xu [République populaire de Chine] ; Weihong Yang [République populaire de Chine] ; Fanli Yang [République populaire de Chine] ; Yun Feng [République populaire de Chine] ; Lele Xia [République populaire de Chine] ; Jihua Zhou [République populaire de Chine] ; Weibin Zhen [République populaire de Chine] ; Ye Feng [République populaire de Chine] ; Huancheng Guo [République populaire de Chine] ; Hailin Zhang [Oman] ; Changchun Tu [Oman]Source :
- Journal of virology [ 1098-5514 ] ; 2014.
Descripteurs français
- KwdFr :
- Alignement de séquences, Animaux, Chine, Chiroptera (virologie), Coronaviridae (), Coronaviridae (génétique), Coronaviridae (isolement et purification), Données de séquences moléculaires, Femelle, Génome viral, Infections à Coronaviridae (médecine vétérinaire), Infections à Coronaviridae (virologie), Mâle, Phylogénie, Protéines virales (), Protéines virales (génétique), Séquence d'acides aminés.
- MESH :
- génétique : Coronaviridae, Protéines virales.
- isolement et purification : Coronaviridae.
- médecine vétérinaire : Infections à Coronaviridae.
- virologie : Chiroptera, Infections à Coronaviridae.
- Alignement de séquences, Animaux, Chine, Coronaviridae, Données de séquences moléculaires, Femelle, Génome viral, Mâle, Phylogénie, Protéines virales, Séquence d'acides aminés.
- Wicri :
- geographic : République populaire de Chine.
English descriptors
- KwdEn :
- Amino Acid Sequence, Animals, China, Chiroptera (virology), Coronaviridae (classification), Coronaviridae (genetics), Coronaviridae (isolation & purification), Coronaviridae Infections (veterinary), Coronaviridae Infections (virology), Female, Genome, Viral, Male, Molecular Sequence Data, Phylogeny, Sequence Alignment, Viral Proteins (chemistry), Viral Proteins (genetics).
- MESH :
- chemical , chemistry : Viral Proteins.
- chemical , genetics : Viral Proteins.
- geographic : China.
- classification : Coronaviridae.
- genetics : Coronaviridae.
- isolation & purification : Coronaviridae.
- veterinary : Coronaviridae Infections.
- virology : Chiroptera, Coronaviridae Infections.
- Amino Acid Sequence, Animals, Female, Genome, Viral, Male, Molecular Sequence Data, Phylogeny, Sequence Alignment.
Abstract
Although many severe acute respiratory syndrome-like coronaviruses (SARS-like CoVs) have been identified in bats in China, Europe, and Africa, most have a genetic organization significantly distinct from human/civet SARS CoVs in the receptor-binding domain (RBD), which mediates receptor binding and determines the host spectrum, resulting in their failure to cause human infections and making them unlikely progenitors of human/civet SARS CoVs. Here, a viral metagenomic analysis of 268 bat rectal swabs collected from four counties in Yunnan Province has identified hundreds of sequences relating to alpha- and betacoronaviruses. Phylogenetic analysis based on a conserved region of the RNA-dependent RNA polymerase gene revealed that alphacoronaviruses had diversities with some obvious differences from those reported previously. Full genomic analysis of a new SARS-like CoV from Baoshan (LYRa11) showed that it was 29,805 nucleotides (nt) in length with 13 open reading frames (ORFs), sharing 91% nucleotide identity with human/civet SARS CoVs and the most recently reported SARS-like CoV Rs3367, while sharing 89% with other bat SARS-like CoVs. Notably, it showed the highest sequence identity with the S gene of SARS CoVs and Rs3367, especially in the RBD region. Antigenic analysis showed that the S1 domain of LYRa11 could be efficiently recognized by SARS-convalescent human serum, indicating that LYRa11 is a novel virus antigenically close to SARS CoV. Recombination analyses indicate that LYRa11 is likely a recombinant descended from parental lineages that had evolved into a number of bat SARS-like CoVs.
DOI: 10.1128/JVI.00631-14
PubMed: 24719429
Affiliations:
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Veterinary, Academy of Military Medical Sciences, Changchun, Jilin Province, China Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou, Jiangsu Province</wicri:regionArea><wicri:noRegion>Jiangsu Province</wicri:noRegion></affiliation></author><author><name sortKey="Zhang, Yuzhen" sort="Zhang, Yuzhen" uniqKey="Zhang Y" first="Yuzhen" last="Zhang">Yuzhen Zhang</name><affiliation wicri:level="1"><nlm:affiliation>Yunnan Institute of Endemic Diseases Control and Prevention, Dali, Yunnan Province, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Yunnan Institute of Endemic Diseases Control and Prevention, Dali, Yunnan Province</wicri:regionArea><wicri:noRegion>Yunnan Province</wicri:noRegion></affiliation></author><author><name sortKey="Xu, Lin" sort="Xu, Lin" uniqKey="Xu L" first="Lin" last="Xu">Lin Xu</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Institute of Military Veterinary, Academy of Military Medical Sciences, Changchun, Jilin Province, China Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou, Jiangsu Province, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Institute of Military Veterinary, Academy of Military Medical Sciences, Changchun, Jilin Province, China Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou, Jiangsu Province</wicri:regionArea><wicri:noRegion>Jiangsu Province</wicri:noRegion></affiliation></author><author><name sortKey="Yang, Weihong" sort="Yang, Weihong" uniqKey="Yang W" first="Weihong" last="Yang">Weihong Yang</name><affiliation wicri:level="1"><nlm:affiliation>Yunnan Institute of Endemic Diseases Control and Prevention, Dali, Yunnan Province, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Yunnan Institute of Endemic Diseases Control and Prevention, Dali, Yunnan Province</wicri:regionArea><wicri:noRegion>Yunnan Province</wicri:noRegion></affiliation></author><author><name sortKey="Yang, Fanli" sort="Yang, Fanli" uniqKey="Yang F" first="Fanli" last="Yang">Fanli Yang</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Institute of Military Veterinary, Academy of Military Medical Sciences, Changchun, Jilin Province, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Institute of Military Veterinary, Academy of Military Medical Sciences, Changchun, Jilin Province</wicri:regionArea><wicri:noRegion>Jilin Province</wicri:noRegion></affiliation></author><author><name sortKey="Feng, Yun" sort="Feng, Yun" uniqKey="Feng Y" first="Yun" last="Feng">Yun Feng</name><affiliation wicri:level="1"><nlm:affiliation>Yunnan Institute of Endemic Diseases Control and Prevention, Dali, Yunnan Province, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Yunnan Institute of Endemic Diseases Control and Prevention, Dali, Yunnan Province</wicri:regionArea><wicri:noRegion>Yunnan Province</wicri:noRegion></affiliation></author><author><name sortKey="Xia, Lele" sort="Xia, Lele" uniqKey="Xia L" first="Lele" last="Xia">Lele Xia</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Institute of Military Veterinary, Academy of Military Medical Sciences, Changchun, Jilin Province, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Institute of Military Veterinary, Academy of Military Medical Sciences, Changchun, Jilin Province</wicri:regionArea><wicri:noRegion>Jilin Province</wicri:noRegion></affiliation></author><author><name sortKey="Zhou, Jihua" sort="Zhou, Jihua" uniqKey="Zhou J" first="Jihua" last="Zhou">Jihua Zhou</name><affiliation wicri:level="1"><nlm:affiliation>Yunnan Institute of Endemic Diseases Control and Prevention, Dali, Yunnan Province, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Yunnan Institute of Endemic Diseases Control and Prevention, Dali, Yunnan Province</wicri:regionArea><wicri:noRegion>Yunnan Province</wicri:noRegion></affiliation></author><author><name sortKey="Zhen, Weibin" sort="Zhen, Weibin" uniqKey="Zhen W" first="Weibin" last="Zhen">Weibin Zhen</name><affiliation wicri:level="1"><nlm:affiliation>Baoshan Prefecture Center for Diseases Control and Prevention, Baoshan, Yunnan Province, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Baoshan Prefecture Center for Diseases Control and Prevention, Baoshan, Yunnan Province</wicri:regionArea><wicri:noRegion>Yunnan Province</wicri:noRegion></affiliation></author><author><name sortKey="Feng, Ye" sort="Feng, Ye" uniqKey="Feng Y" first="Ye" last="Feng">Ye Feng</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Institute of Military Veterinary, Academy of Military Medical Sciences, Changchun, Jilin Province, China Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou, Jiangsu Province, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Institute of Military Veterinary, Academy of Military Medical Sciences, Changchun, Jilin Province, China Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou, Jiangsu Province</wicri:regionArea><wicri:noRegion>Jiangsu Province</wicri:noRegion></affiliation></author><author><name sortKey="Guo, Huancheng" sort="Guo, Huancheng" uniqKey="Guo H" first="Huancheng" last="Guo">Huancheng Guo</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Institute of Military Veterinary, Academy of Military Medical Sciences, Changchun, Jilin Province, China Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou, Jiangsu Province, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Institute of Military Veterinary, Academy of Military Medical Sciences, Changchun, Jilin Province, China Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou, Jiangsu Province</wicri:regionArea><wicri:noRegion>Jiangsu Province</wicri:noRegion></affiliation></author><author><name sortKey="Zhang, Hailin" sort="Zhang, Hailin" uniqKey="Zhang H" first="Hailin" last="Zhang">Hailin Zhang</name><affiliation wicri:level="1"><nlm:affiliation>Yunnan Institute of Endemic Diseases Control and Prevention, Dali, Yunnan Province, China changchun_tu@hotmail.com zhanghl715@163.com.</nlm:affiliation><country wicri:rule="url">Oman</country></affiliation></author><author><name sortKey="Tu, Changchun" sort="Tu, Changchun" uniqKey="Tu C" first="Changchun" last="Tu">Changchun Tu</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Institute of Military Veterinary, Academy of Military Medical Sciences, Changchun, Jilin Province, China Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou, Jiangsu Province, China changchun_tu@hotmail.com zhanghl715@163.com.</nlm:affiliation><country wicri:rule="url">Oman</country></affiliation></author></analytic><series><title level="j">Journal of virology</title><idno type="eISSN">1098-5514</idno><imprint><date when="2014" type="published">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Amino Acid Sequence</term><term>Animals</term><term>China</term><term>Chiroptera (virology)</term><term>Coronaviridae (classification)</term><term>Coronaviridae (genetics)</term><term>Coronaviridae (isolation & purification)</term><term>Coronaviridae Infections (veterinary)</term><term>Coronaviridae Infections (virology)</term><term>Female</term><term>Genome, Viral</term><term>Male</term><term>Molecular Sequence 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Proteins</term></keywords><keywords scheme="MESH" type="geographic" xml:lang="en"><term>China</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>Protéines virales</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="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></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Chiroptera</term><term>Coronaviridae Infections</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Amino Acid Sequence</term><term>Animals</term><term>Female</term><term>Genome, Viral</term><term>Male</term><term>Molecular Sequence Data</term><term>Phylogeny</term><term>Sequence Alignment</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Alignement de séquences</term><term>Animaux</term><term>Chine</term><term>Coronaviridae</term><term>Données de séquences moléculaires</term><term>Femelle</term><term>Génome viral</term><term>Mâle</term><term>Phylogénie</term><term>Protéines virales</term><term>Séquence d'acides aminés</term></keywords><keywords scheme="Wicri" type="geographic" xml:lang="fr"><term>République populaire de Chine</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Although many severe acute respiratory syndrome-like coronaviruses (SARS-like CoVs) have been identified in bats in China, Europe, and Africa, most have a genetic organization significantly distinct from human/civet SARS CoVs in the receptor-binding domain (RBD), which mediates receptor binding and determines the host spectrum, resulting in their failure to cause human infections and making them unlikely progenitors of human/civet SARS CoVs. Here, a viral metagenomic analysis of 268 bat rectal swabs collected from four counties in Yunnan Province has identified hundreds of sequences relating to alpha- and betacoronaviruses. Phylogenetic analysis based on a conserved region of the RNA-dependent RNA polymerase gene revealed that alphacoronaviruses had diversities with some obvious differences from those reported previously. Full genomic analysis of a new SARS-like CoV from Baoshan (LYRa11) showed that it was 29,805 nucleotides (nt) in length with 13 open reading frames (ORFs), sharing 91% nucleotide identity with human/civet SARS CoVs and the most recently reported SARS-like CoV Rs3367, while sharing 89% with other bat SARS-like CoVs. Notably, it showed the highest sequence identity with the S gene of SARS CoVs and Rs3367, especially in the RBD region. Antigenic analysis showed that the S1 domain of LYRa11 could be efficiently recognized by SARS-convalescent human serum, indicating that LYRa11 is a novel virus antigenically close to SARS CoV. Recombination analyses indicate that LYRa11 is likely a recombinant descended from parental lineages that had evolved into a number of bat SARS-like CoVs.</div></front></TEI><affiliations><list><country><li>Oman</li><li>République populaire de Chine</li></country></list><tree><country name="République populaire de Chine"><noRegion><name sortKey="He, Biao" sort="He, Biao" uniqKey="He B" first="Biao" last="He">Biao He</name></noRegion><name sortKey="Feng, Ye" sort="Feng, Ye" uniqKey="Feng Y" first="Ye" last="Feng">Ye Feng</name><name sortKey="Feng, Yun" sort="Feng, Yun" uniqKey="Feng Y" first="Yun" last="Feng">Yun Feng</name><name sortKey="Guo, Huancheng" sort="Guo, Huancheng" uniqKey="Guo H" first="Huancheng" last="Guo">Huancheng Guo</name><name sortKey="Xia, Lele" sort="Xia, Lele" uniqKey="Xia L" first="Lele" last="Xia">Lele Xia</name><name sortKey="Xu, Lin" sort="Xu, Lin" uniqKey="Xu L" first="Lin" last="Xu">Lin Xu</name><name sortKey="Yang, Fanli" sort="Yang, Fanli" uniqKey="Yang F" first="Fanli" last="Yang">Fanli Yang</name><name sortKey="Yang, Weihong" sort="Yang, Weihong" uniqKey="Yang W" first="Weihong" last="Yang">Weihong Yang</name><name sortKey="Zhang, Yuzhen" sort="Zhang, Yuzhen" uniqKey="Zhang Y" first="Yuzhen" last="Zhang">Yuzhen Zhang</name><name sortKey="Zhen, Weibin" sort="Zhen, Weibin" uniqKey="Zhen W" first="Weibin" last="Zhen">Weibin Zhen</name><name sortKey="Zhou, Jihua" sort="Zhou, Jihua" uniqKey="Zhou J" first="Jihua" last="Zhou">Jihua Zhou</name></country><country name="Oman"><noRegion><name sortKey="Zhang, Hailin" sort="Zhang, Hailin" uniqKey="Zhang H" first="Hailin" last="Zhang">Hailin Zhang</name></noRegion><name sortKey="Tu, Changchun" sort="Tu, Changchun" uniqKey="Tu C" first="Changchun" last="Tu">Changchun Tu</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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