A genome sequence of novel SARS-CoV isolates: the genotype, GD-Ins29, leads to a hypothesis of viral transmission in South China.
Identifieur interne : 006101 ( Main/Exploration ); précédent : 006100; suivant : 006102A genome sequence of novel SARS-CoV isolates: the genotype, GD-Ins29, leads to a hypothesis of viral transmission in South China.
Auteurs : E'De Qin [République populaire de Chine] ; Xionglei He ; Wei Tian ; Yong Liu ; Wei Li ; Jie Wen ; Jingqiang Wang ; Baochang Fan ; Qingfa Wu ; Guohui Chang ; Wuchun Cao ; Zuyuan Xu ; Ruifu Yang ; Jing Wang ; Man Yu ; Yan Li ; Jing Xu ; Bingyin Si ; Yongwu Hu ; Wenming Peng ; Lin Tang ; Tao Jiang ; Jianping Shi ; Jia Ji ; Yu Zhang ; Jia Ye ; Cui'E Wang ; Yujun Han ; Jun Zhou ; Yajun Deng ; Xiaoyu Li ; Jianfei Hu ; Caiping Wang ; Chunxia Yan ; Qingrun Zhang ; Jingyue Bao ; Guoqing Li ; Weijun Chen ; Lin Fang ; Changfeng Li ; Meng Lei ; Dawei Li ; Wei Tong ; Xiangjun Tian ; Jin Wang ; Bo Zhang ; Haiqing Zhang ; Yilin Zhang ; Hui Zhao ; Xiaowei Zhang ; Shuangli Li ; Xiaojie Cheng ; Xiuqing Zhang ; Bin Liu ; Changqing Zeng ; Songgang Li ; Xuehai Tan ; Siqi Liu ; Wei Dong ; Jun Wang ; Gane Ka-Shu Wong ; Jun Yu ; Jian Wang ; Qingyu Zhu ; Huanming YangSource :
- Genomics, proteomics & bioinformatics [ 1672-0229 ] ; 2003.
Descripteurs français
- KwdFr :
- MESH :
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- geographic : République populaire de Chine.
English descriptors
- KwdEn :
- MESH :
Abstract
We report a complete genomic sequence of rare isolates (minor genotype) of the SARS-CoV from SARS patients in Guangdong, China, where the first few cases emerged. The most striking discovery from the isolate is an extra 29-nucleotide sequence located at the nucleotide positions between 27,863 and 27,864 (referred to the complete sequence of BJ01) within an overlapped region composed of BGI-PUP5 (BGI-postulated uncharacterized protein 5) and BGI-PUP6 upstream of the N (nucleocapsid) protein. The discovery of this minor genotype, GD-Ins29, suggests a significant genetic event and differentiates it from the previously reported genotype, the dominant form among all sequenced SARS-CoV isolates. A 17-nt segment of this extra sequence is identical to a segment of the same size in two human mRNA sequences that may interfere with viral replication and transcription in the cytosol of the infected cells. It provides a new avenue for the exploration of the virus-host interaction in viral evolution, host pathogenesis, and vaccine development.
DOI: 10.1016/s1672-0229(03)01014-3
PubMed: 15626340
Affiliations:
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first="E'De" last="Qin">E'De Qin</name><affiliation wicri:level="1"><nlm:affiliation>Institute of Microbiology and Epidemiology, Chinese Academy of Military Medical Sciences, Beijing 100071, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Institute of Microbiology and Epidemiology, Chinese Academy of Military Medical Sciences, Beijing 100071</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="He, Xionglei" sort="He, Xionglei" uniqKey="He X" first="Xionglei" last="He">Xionglei He</name></author><author><name sortKey="Tian, Wei" sort="Tian, Wei" uniqKey="Tian W" first="Wei" last="Tian">Wei Tian</name></author><author><name sortKey="Liu, Yong" sort="Liu, Yong" uniqKey="Liu Y" first="Yong" last="Liu">Yong Liu</name></author><author><name sortKey="Li, Wei" sort="Li, Wei" uniqKey="Li W" first="Wei" last="Li">Wei Li</name></author><author><name sortKey="Wen, Jie" sort="Wen, Jie" uniqKey="Wen J" first="Jie" last="Wen">Jie Wen</name></author><author><name sortKey="Wang, Jingqiang" sort="Wang, Jingqiang" uniqKey="Wang J" first="Jingqiang" last="Wang">Jingqiang Wang</name></author><author><name sortKey="Fan, Baochang" sort="Fan, Baochang" uniqKey="Fan B" first="Baochang" last="Fan">Baochang Fan</name></author><author><name sortKey="Wu, Qingfa" sort="Wu, Qingfa" uniqKey="Wu Q" first="Qingfa" last="Wu">Qingfa Wu</name></author><author><name sortKey="Chang, Guohui" sort="Chang, Guohui" uniqKey="Chang G" first="Guohui" last="Chang">Guohui Chang</name></author><author><name sortKey="Cao, Wuchun" sort="Cao, Wuchun" uniqKey="Cao W" first="Wuchun" last="Cao">Wuchun Cao</name></author><author><name sortKey="Xu, Zuyuan" sort="Xu, Zuyuan" uniqKey="Xu Z" first="Zuyuan" last="Xu">Zuyuan Xu</name></author><author><name sortKey="Yang, Ruifu" sort="Yang, Ruifu" uniqKey="Yang R" first="Ruifu" last="Yang">Ruifu Yang</name></author><author><name sortKey="Wang, Jing" sort="Wang, Jing" uniqKey="Wang J" first="Jing" last="Wang">Jing Wang</name></author><author><name sortKey="Yu, Man" sort="Yu, Man" uniqKey="Yu M" first="Man" last="Yu">Man Yu</name></author><author><name sortKey="Li, Yan" sort="Li, Yan" uniqKey="Li Y" first="Yan" last="Li">Yan Li</name></author><author><name sortKey="Xu, Jing" sort="Xu, Jing" uniqKey="Xu J" first="Jing" last="Xu">Jing Xu</name></author><author><name sortKey="Si, Bingyin" sort="Si, Bingyin" uniqKey="Si B" first="Bingyin" last="Si">Bingyin Si</name></author><author><name sortKey="Hu, Yongwu" sort="Hu, Yongwu" uniqKey="Hu Y" first="Yongwu" last="Hu">Yongwu Hu</name></author><author><name sortKey="Peng, Wenming" sort="Peng, Wenming" uniqKey="Peng W" first="Wenming" last="Peng">Wenming Peng</name></author><author><name sortKey="Tang, Lin" sort="Tang, Lin" uniqKey="Tang L" first="Lin" last="Tang">Lin Tang</name></author><author><name sortKey="Jiang, Tao" sort="Jiang, Tao" uniqKey="Jiang T" first="Tao" last="Jiang">Tao Jiang</name></author><author><name sortKey="Shi, Jianping" sort="Shi, Jianping" uniqKey="Shi J" first="Jianping" last="Shi">Jianping Shi</name></author><author><name sortKey="Ji, Jia" sort="Ji, Jia" uniqKey="Ji J" first="Jia" last="Ji">Jia Ji</name></author><author><name sortKey="Zhang, Yu" sort="Zhang, Yu" uniqKey="Zhang Y" first="Yu" last="Zhang">Yu Zhang</name></author><author><name sortKey="Ye, Jia" sort="Ye, Jia" uniqKey="Ye J" first="Jia" last="Ye">Jia Ye</name></author><author><name sortKey="Wang, Cui E" sort="Wang, Cui E" uniqKey="Wang C" first="Cui'E" last="Wang">Cui'E Wang</name></author><author><name sortKey="Han, Yujun" sort="Han, Yujun" uniqKey="Han Y" first="Yujun" last="Han">Yujun Han</name></author><author><name sortKey="Zhou, Jun" sort="Zhou, Jun" uniqKey="Zhou J" first="Jun" last="Zhou">Jun Zhou</name></author><author><name sortKey="Deng, Yajun" sort="Deng, Yajun" uniqKey="Deng Y" first="Yajun" last="Deng">Yajun Deng</name></author><author><name sortKey="Li, Xiaoyu" 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sortKey="Wang, Jian" sort="Wang, Jian" uniqKey="Wang J" first="Jian" last="Wang">Jian Wang</name></author><author><name sortKey="Zhu, Qingyu" sort="Zhu, Qingyu" uniqKey="Zhu Q" first="Qingyu" last="Zhu">Qingyu Zhu</name></author><author><name sortKey="Yang, Huanming" sort="Yang, Huanming" uniqKey="Yang H" first="Huanming" last="Yang">Huanming Yang</name></author></analytic><series><title level="j">Genomics, proteomics & bioinformatics</title><idno type="ISSN">1672-0229</idno><imprint><date when="2003" type="published">2003</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Base Sequence</term><term>China</term><term>Cluster Analysis</term><term>Gene Components</term><term>Genetic Variation</term><term>Genome, Viral</term><term>Genotype</term><term>Molecular Sequence Data</term><term>Phylogeny</term><term>Reverse Transcriptase Polymerase Chain Reaction</term><term>SARS Virus (genetics)</term><term>Sequence Analysis, DNA</term><term>Severe Acute Respiratory Syndrome (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Analyse de regroupements</term><term>Analyse de séquence d'ADN</term><term>Chine</term><term>Composants de gène</term><term>Données de séquences moléculaires</term><term>Génome viral</term><term>Génotype</term><term>Phylogénie</term><term>RT-PCR</term><term>Syndrome respiratoire aigu sévère (génétique)</term><term>Séquence nucléotidique</term><term>Variation génétique</term><term>Virus du SRAS (génétique)</term></keywords><keywords scheme="MESH" type="geographic" xml:lang="en"><term>China</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>SARS Virus</term><term>Severe Acute Respiratory Syndrome</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Syndrome respiratoire aigu sévère</term><term>Virus du SRAS</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Base Sequence</term><term>Cluster Analysis</term><term>Gene Components</term><term>Genetic Variation</term><term>Genome, Viral</term><term>Genotype</term><term>Molecular Sequence Data</term><term>Phylogeny</term><term>Reverse Transcriptase Polymerase Chain Reaction</term><term>Sequence Analysis, DNA</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de regroupements</term><term>Analyse de séquence d'ADN</term><term>Chine</term><term>Composants de gène</term><term>Données de séquences moléculaires</term><term>Génome viral</term><term>Génotype</term><term>Phylogénie</term><term>RT-PCR</term><term>Séquence nucléotidique</term><term>Variation génétique</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">We report a complete genomic sequence of rare isolates (minor genotype) of the SARS-CoV from SARS patients in Guangdong, China, where the first few cases emerged. The most striking discovery from the isolate is an extra 29-nucleotide sequence located at the nucleotide positions between 27,863 and 27,864 (referred to the complete sequence of BJ01) within an overlapped region composed of BGI-PUP5 (BGI-postulated uncharacterized protein 5) and BGI-PUP6 upstream of the N (nucleocapsid) protein. The discovery of this minor genotype, GD-Ins29, suggests a significant genetic event and differentiates it from the previously reported genotype, the dominant form among all sequenced SARS-CoV isolates. A 17-nt segment of this extra sequence is identical to a segment of the same size in two human mRNA sequences that may interfere with viral replication and transcription in the cytosol of the infected cells. It provides a new avenue for the exploration of the virus-host interaction in viral evolution, host pathogenesis, and vaccine development.</div></front></TEI><affiliations><list><country><li>République populaire de Chine</li></country><settlement><li>Pékin</li></settlement></list><tree><noCountry><name sortKey="Bao, Jingyue" sort="Bao, Jingyue" uniqKey="Bao J" first="Jingyue" last="Bao">Jingyue Bao</name><name sortKey="Cao, Wuchun" sort="Cao, Wuchun" uniqKey="Cao W" first="Wuchun" last="Cao">Wuchun Cao</name><name sortKey="Chang, Guohui" sort="Chang, Guohui" uniqKey="Chang G" first="Guohui" last="Chang">Guohui Chang</name><name sortKey="Chen, Weijun" sort="Chen, Weijun" uniqKey="Chen W" first="Weijun" last="Chen">Weijun Chen</name><name sortKey="Cheng, Xiaojie" sort="Cheng, Xiaojie" uniqKey="Cheng X" first="Xiaojie" last="Cheng">Xiaojie Cheng</name><name sortKey="Deng, Yajun" sort="Deng, Yajun" uniqKey="Deng Y" first="Yajun" last="Deng">Yajun Deng</name><name sortKey="Dong, Wei" sort="Dong, Wei" uniqKey="Dong W" first="Wei" last="Dong">Wei Dong</name><name sortKey="Fan, Baochang" sort="Fan, Baochang" uniqKey="Fan B" first="Baochang" last="Fan">Baochang Fan</name><name sortKey="Fang, Lin" sort="Fang, Lin" uniqKey="Fang L" first="Lin" last="Fang">Lin Fang</name><name sortKey="Han, Yujun" sort="Han, Yujun" uniqKey="Han Y" first="Yujun" last="Han">Yujun Han</name><name sortKey="He, Xionglei" sort="He, Xionglei" uniqKey="He X" first="Xionglei" last="He">Xionglei He</name><name sortKey="Hu, Jianfei" sort="Hu, Jianfei" uniqKey="Hu J" first="Jianfei" last="Hu">Jianfei Hu</name><name sortKey="Hu, Yongwu" sort="Hu, Yongwu" uniqKey="Hu Y" first="Yongwu" last="Hu">Yongwu Hu</name><name sortKey="Ji, Jia" sort="Ji, Jia" uniqKey="Ji J" first="Jia" last="Ji">Jia Ji</name><name sortKey="Jiang, Tao" sort="Jiang, Tao" uniqKey="Jiang T" first="Tao" last="Jiang">Tao Jiang</name><name sortKey="Lei, Meng" sort="Lei, Meng" uniqKey="Lei M" first="Meng" last="Lei">Meng Lei</name><name sortKey="Li, Changfeng" sort="Li, Changfeng" uniqKey="Li C" first="Changfeng" last="Li">Changfeng Li</name><name sortKey="Li, Dawei" sort="Li, Dawei" uniqKey="Li D" first="Dawei" last="Li">Dawei Li</name><name sortKey="Li, Guoqing" sort="Li, Guoqing" uniqKey="Li G" first="Guoqing" last="Li">Guoqing Li</name><name sortKey="Li, Shuangli" sort="Li, Shuangli" uniqKey="Li S" first="Shuangli" last="Li">Shuangli Li</name><name sortKey="Li, Songgang" sort="Li, Songgang" uniqKey="Li S" first="Songgang" last="Li">Songgang Li</name><name sortKey="Li, Wei" sort="Li, Wei" uniqKey="Li W" first="Wei" last="Li">Wei Li</name><name sortKey="Li, Xiaoyu" sort="Li, Xiaoyu" uniqKey="Li X" first="Xiaoyu" last="Li">Xiaoyu Li</name><name sortKey="Li, Yan" sort="Li, Yan" uniqKey="Li Y" first="Yan" last="Li">Yan Li</name><name sortKey="Liu, Bin" sort="Liu, Bin" uniqKey="Liu B" first="Bin" last="Liu">Bin Liu</name><name sortKey="Liu, Siqi" sort="Liu, Siqi" uniqKey="Liu S" first="Siqi" last="Liu">Siqi Liu</name><name sortKey="Liu, Yong" sort="Liu, Yong" uniqKey="Liu Y" first="Yong" last="Liu">Yong Liu</name><name sortKey="Peng, Wenming" sort="Peng, Wenming" uniqKey="Peng W" first="Wenming" last="Peng">Wenming Peng</name><name sortKey="Shi, Jianping" sort="Shi, Jianping" uniqKey="Shi J" first="Jianping" last="Shi">Jianping Shi</name><name sortKey="Si, Bingyin" sort="Si, Bingyin" uniqKey="Si B" first="Bingyin" last="Si">Bingyin Si</name><name sortKey="Tan, Xuehai" sort="Tan, Xuehai" uniqKey="Tan X" first="Xuehai" last="Tan">Xuehai Tan</name><name sortKey="Tang, Lin" sort="Tang, Lin" uniqKey="Tang L" first="Lin" last="Tang">Lin Tang</name><name sortKey="Tian, Wei" sort="Tian, Wei" uniqKey="Tian W" first="Wei" last="Tian">Wei Tian</name><name sortKey="Tian, Xiangjun" sort="Tian, Xiangjun" uniqKey="Tian X" first="Xiangjun" last="Tian">Xiangjun Tian</name><name sortKey="Tong, Wei" sort="Tong, Wei" uniqKey="Tong W" first="Wei" last="Tong">Wei Tong</name><name sortKey="Wang, Caiping" sort="Wang, Caiping" uniqKey="Wang C" first="Caiping" last="Wang">Caiping Wang</name><name sortKey="Wang, Cui E" sort="Wang, Cui E" uniqKey="Wang C" first="Cui'E" last="Wang">Cui'E Wang</name><name sortKey="Wang, Jian" sort="Wang, Jian" uniqKey="Wang J" first="Jian" last="Wang">Jian Wang</name><name sortKey="Wang, Jin" sort="Wang, Jin" uniqKey="Wang J" first="Jin" last="Wang">Jin Wang</name><name sortKey="Wang, Jing" sort="Wang, Jing" uniqKey="Wang J" first="Jing" last="Wang">Jing Wang</name><name sortKey="Wang, Jingqiang" sort="Wang, Jingqiang" uniqKey="Wang J" first="Jingqiang" last="Wang">Jingqiang Wang</name><name sortKey="Wang, Jun" sort="Wang, Jun" uniqKey="Wang J" first="Jun" last="Wang">Jun Wang</name><name sortKey="Wen, Jie" sort="Wen, Jie" uniqKey="Wen J" first="Jie" last="Wen">Jie Wen</name><name sortKey="Wong, Gane Ka Shu" sort="Wong, Gane Ka Shu" uniqKey="Wong G" first="Gane Ka-Shu" last="Wong">Gane Ka-Shu Wong</name><name sortKey="Wu, Qingfa" sort="Wu, Qingfa" uniqKey="Wu Q" first="Qingfa" last="Wu">Qingfa Wu</name><name sortKey="Xu, Jing" sort="Xu, Jing" uniqKey="Xu J" first="Jing" last="Xu">Jing Xu</name><name sortKey="Xu, Zuyuan" sort="Xu, Zuyuan" uniqKey="Xu Z" first="Zuyuan" last="Xu">Zuyuan Xu</name><name sortKey="Yan, Chunxia" sort="Yan, Chunxia" uniqKey="Yan C" first="Chunxia" last="Yan">Chunxia Yan</name><name sortKey="Yang, Huanming" sort="Yang, Huanming" uniqKey="Yang H" first="Huanming" last="Yang">Huanming Yang</name><name sortKey="Yang, Ruifu" sort="Yang, Ruifu" uniqKey="Yang R" first="Ruifu" last="Yang">Ruifu Yang</name><name sortKey="Ye, Jia" sort="Ye, Jia" uniqKey="Ye J" first="Jia" last="Ye">Jia Ye</name><name sortKey="Yu, Jun" sort="Yu, Jun" uniqKey="Yu J" first="Jun" last="Yu">Jun Yu</name><name sortKey="Yu, Man" sort="Yu, Man" uniqKey="Yu M" first="Man" last="Yu">Man Yu</name><name sortKey="Zeng, Changqing" sort="Zeng, Changqing" uniqKey="Zeng C" first="Changqing" last="Zeng">Changqing Zeng</name><name sortKey="Zhang, Bo" sort="Zhang, Bo" uniqKey="Zhang B" first="Bo" last="Zhang">Bo Zhang</name><name sortKey="Zhang, Haiqing" sort="Zhang, Haiqing" uniqKey="Zhang H" first="Haiqing" last="Zhang">Haiqing Zhang</name><name sortKey="Zhang, Qingrun" sort="Zhang, Qingrun" uniqKey="Zhang Q" first="Qingrun" last="Zhang">Qingrun Zhang</name><name sortKey="Zhang, Xiaowei" sort="Zhang, Xiaowei" uniqKey="Zhang X" first="Xiaowei" last="Zhang">Xiaowei Zhang</name><name sortKey="Zhang, Xiuqing" sort="Zhang, Xiuqing" uniqKey="Zhang X" first="Xiuqing" last="Zhang">Xiuqing Zhang</name><name sortKey="Zhang, Yilin" sort="Zhang, Yilin" uniqKey="Zhang Y" first="Yilin" last="Zhang">Yilin Zhang</name><name sortKey="Zhang, Yu" sort="Zhang, Yu" uniqKey="Zhang Y" first="Yu" last="Zhang">Yu Zhang</name><name sortKey="Zhao, Hui" sort="Zhao, Hui" uniqKey="Zhao H" first="Hui" last="Zhao">Hui Zhao</name><name sortKey="Zhou, Jun" sort="Zhou, Jun" uniqKey="Zhou J" first="Jun" last="Zhou">Jun Zhou</name><name sortKey="Zhu, Qingyu" sort="Zhu, Qingyu" uniqKey="Zhu Q" first="Qingyu" last="Zhu">Qingyu Zhu</name></noCountry><country name="République populaire de Chine"><noRegion><name sortKey="Qin, E De" sort="Qin, E De" uniqKey="Qin E" first="E'De" last="Qin">E'De Qin</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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