Cross-host evolution of severe acute respiratory syndrome coronavirus in palm civet and human.
Identifieur interne : 002902 ( PubMed/Curation ); précédent : 002901; suivant : 002903Cross-host evolution of severe acute respiratory syndrome coronavirus in palm civet and human.
Auteurs : Huai-Dong Song [République populaire de Chine] ; Chang-Chun Tu ; Guo-Wei Zhang ; Sheng-Yue Wang ; Kui Zheng ; Lian-Cheng Lei ; Qiu-Xia Chen ; Yu-Wei Gao ; Hui-Qiong Zhou ; Hua Xiang ; Hua-Jun Zheng ; Shur-Wern Wang Chern ; Feng Cheng ; Chun-Ming Pan ; Hua Xuan ; Sai-Juan Chen ; Hui-Ming Luo ; Duan-Hua Zhou ; Yu-Fei Liu ; Jian-Feng He ; Peng-Zhe Qin ; Ling-Hui Li ; Yu-Qi Ren ; Wen-Jia Liang ; Ye-Dong Yu ; Larry Anderson ; Ming Wang ; Rui-Heng Xu ; Xin-Wei Wu ; Huan-Ying Zheng ; Jin-Ding Chen ; Guodong Liang ; Yang Gao ; Ming Liao ; Ling Fang ; Li-Yun Jiang ; Hui Li ; Fang Chen ; Biao Di ; Li-Juan He ; Jin-Yan Lin ; Suxiang Tong ; Xiangang Kong ; Lin Du ; Pei Hao ; Hua Tang ; Andrea Bernini ; Xiao-Jing Yu ; Ottavia Spiga ; Zong-Ming Guo ; Hai-Yan Pan ; Wei-Zhong He ; Jean-Claude Manuguerra ; Arnaud Fontanet ; Antoine Danchin ; Neri Niccolai ; Yi-Xue Li ; Chung-I Wu ; Guo-Ping ZhaoSource :
- Proceedings of the National Academy of Sciences of the United States of America [ 0027-8424 ] ; 2005.
Descripteurs français
- KwdFr :
- Animaux, Chine (épidémiologie), Flambées de maladies, Glycoprotéine de spicule des coronavirus, Glycoprotéines membranaires (génétique), Gènes viraux, Humains, Phylogénie, Polymorphisme de nucléotide simple, Protéines de l'enveloppe virale (génétique), Spécificité d'espèce, Substitution d'acide aminé, Syndrome respiratoire aigu sévère (transmission), Syndrome respiratoire aigu sévère (virologie), Syndrome respiratoire aigu sévère (épidémiologie), Virus du SRAS (génétique), Virus du SRAS (isolement et purification), Virus du SRAS (pathogénicité), Virus du SRAS (physiologie), Viverridae (virologie), Zoonoses (transmission), Zoonoses (virologie), Zoonoses (épidémiologie), Évolution moléculaire.
- MESH :
- génétique : Glycoprotéines membranaires, Protéines de l'enveloppe virale, Virus du SRAS.
- isolement et purification : Virus du SRAS.
- pathogénicité : Virus du SRAS.
- physiologie : Virus du SRAS.
- virologie : Syndrome respiratoire aigu sévère, Viverridae, Zoonoses.
- épidémiologie : Chine, Syndrome respiratoire aigu sévère, Zoonoses.
- Animaux, Flambées de maladies, Glycoprotéine de spicule des coronavirus, Gènes viraux, Humains, Phylogénie, Polymorphisme de nucléotide simple, Spécificité d'espèce, Substitution d'acide aminé, Évolution moléculaire.
- Wicri :
- geographic : République populaire de Chine.
English descriptors
- KwdEn :
- Amino Acid Substitution, Animals, China (epidemiology), Disease Outbreaks, Evolution, Molecular, Genes, Viral, Humans, Membrane Glycoproteins (genetics), Phylogeny, Polymorphism, Single Nucleotide, SARS Virus (genetics), SARS Virus (isolation & purification), SARS Virus (pathogenicity), SARS Virus (physiology), Severe Acute Respiratory Syndrome (epidemiology), Severe Acute Respiratory Syndrome (transmission), Severe Acute Respiratory Syndrome (virology), Species Specificity, Spike Glycoprotein, Coronavirus, Viral Envelope Proteins (genetics), Viverridae (virology), Zoonoses (epidemiology), Zoonoses (transmission), Zoonoses (virology).
- MESH :
- chemical , genetics : Membrane Glycoproteins, Viral Envelope Proteins.
- geographic , epidemiology : China.
- epidemiology : Severe Acute Respiratory Syndrome, Zoonoses.
- genetics : SARS Virus.
- isolation & purification : SARS Virus.
- pathogenicity : SARS Virus.
- physiology : SARS Virus.
- transmission : Severe Acute Respiratory Syndrome, Zoonoses.
- virology : Severe Acute Respiratory Syndrome, Viverridae, Zoonoses.
- Amino Acid Substitution, Animals, Disease Outbreaks, Evolution, Molecular, Genes, Viral, Humans, Phylogeny, Polymorphism, Single Nucleotide, Species Specificity, Spike Glycoprotein, Coronavirus.
Abstract
The genomic sequences of severe acute respiratory syndrome coronaviruses from human and palm civet of the 2003/2004 outbreak in the city of Guangzhou, China, were nearly identical. Phylogenetic analysis suggested an independent viral invasion from animal to human in this new episode. Combining all existing data but excluding singletons, we identified 202 single-nucleotide variations. Among them, 17 are polymorphic in palm civets only. The ratio of nonsynonymous/synonymous nucleotide substitution in palm civets collected 1 yr apart from different geographic locations is very high, suggesting a rapid evolving process of viral proteins in civet as well, much like their adaptation in the human host in the early 2002-2003 epidemic. Major genetic variations in some critical genes, particularly the Spike gene, seemed essential for the transition from animal-to-human transmission to human-to-human transmission, which eventually caused the first severe acute respiratory syndrome outbreak of 2002/2003.
DOI: 10.1073/pnas.0409608102
PubMed: 15695582
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pubmed:15695582Le document en format XML
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last="Yu">Xiao-Jing Yu</name></author><author><name sortKey="Spiga, Ottavia" sort="Spiga, Ottavia" uniqKey="Spiga O" first="Ottavia" last="Spiga">Ottavia Spiga</name></author><author><name sortKey="Guo, Zong Ming" sort="Guo, Zong Ming" uniqKey="Guo Z" first="Zong-Ming" last="Guo">Zong-Ming Guo</name></author><author><name sortKey="Pan, Hai Yan" sort="Pan, Hai Yan" uniqKey="Pan H" first="Hai-Yan" last="Pan">Hai-Yan Pan</name></author><author><name sortKey="He, Wei Zhong" sort="He, Wei Zhong" uniqKey="He W" first="Wei-Zhong" last="He">Wei-Zhong He</name></author><author><name sortKey="Manuguerra, Jean Claude" sort="Manuguerra, Jean Claude" uniqKey="Manuguerra J" first="Jean-Claude" last="Manuguerra">Jean-Claude Manuguerra</name></author><author><name sortKey="Fontanet, Arnaud" sort="Fontanet, Arnaud" uniqKey="Fontanet A" first="Arnaud" last="Fontanet">Arnaud Fontanet</name></author><author><name sortKey="Danchin, Antoine" sort="Danchin, Antoine" uniqKey="Danchin A" first="Antoine" last="Danchin">Antoine Danchin</name></author><author><name sortKey="Niccolai, Neri" sort="Niccolai, Neri" uniqKey="Niccolai N" first="Neri" last="Niccolai">Neri Niccolai</name></author><author><name sortKey="Li, Yi Xue" sort="Li, Yi Xue" uniqKey="Li Y" first="Yi-Xue" last="Li">Yi-Xue Li</name></author><author><name sortKey="Wu, Chung I" sort="Wu, Chung I" uniqKey="Wu C" first="Chung-I" last="Wu">Chung-I Wu</name></author><author><name sortKey="Zhao, Guo Ping" sort="Zhao, Guo Ping" uniqKey="Zhao G" first="Guo-Ping" last="Zhao">Guo-Ping Zhao</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2005">2005</date><idno type="RBID">pubmed:15695582</idno><idno type="pmid">15695582</idno><idno type="doi">10.1073/pnas.0409608102</idno><idno type="wicri:Area/PubMed/Corpus">002902</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">002902</idno><idno type="wicri:Area/PubMed/Curation">002902</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">002902</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Cross-host evolution of severe acute respiratory syndrome coronavirus in palm civet and human.</title><author><name sortKey="Song, Huai Dong" sort="Song, Huai Dong" uniqKey="Song H" first="Huai-Dong" last="Song">Huai-Dong Song</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory for Medical Genomics/Pôle Sino-Français de Recherche en Sciences du Vivant et Génomique, Ruijin Hospital Affiliated to Shanghai Second Medical University, 197 Rui Jin Road II, Shanghai 200025, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory for Medical Genomics/Pôle Sino-Français de Recherche en Sciences du Vivant et Génomique, Ruijin Hospital Affiliated to Shanghai Second Medical University, 197 Rui Jin Road II, Shanghai 200025</wicri:regionArea></affiliation></author><author><name sortKey="Tu, Chang Chun" sort="Tu, Chang Chun" uniqKey="Tu C" first="Chang-Chun" last="Tu">Chang-Chun Tu</name></author><author><name sortKey="Zhang, Guo Wei" sort="Zhang, Guo Wei" uniqKey="Zhang G" first="Guo-Wei" last="Zhang">Guo-Wei Zhang</name></author><author><name sortKey="Wang, Sheng Yue" sort="Wang, Sheng Yue" uniqKey="Wang S" first="Sheng-Yue" last="Wang">Sheng-Yue Wang</name></author><author><name sortKey="Zheng, Kui" sort="Zheng, Kui" uniqKey="Zheng K" first="Kui" last="Zheng">Kui Zheng</name></author><author><name sortKey="Lei, Lian Cheng" sort="Lei, Lian Cheng" uniqKey="Lei L" first="Lian-Cheng" last="Lei">Lian-Cheng Lei</name></author><author><name sortKey="Chen, Qiu Xia" sort="Chen, Qiu Xia" uniqKey="Chen Q" first="Qiu-Xia" last="Chen">Qiu-Xia Chen</name></author><author><name sortKey="Gao, Yu Wei" sort="Gao, Yu Wei" uniqKey="Gao Y" first="Yu-Wei" last="Gao">Yu-Wei Gao</name></author><author><name sortKey="Zhou, Hui Qiong" sort="Zhou, Hui Qiong" uniqKey="Zhou H" first="Hui-Qiong" last="Zhou">Hui-Qiong Zhou</name></author><author><name sortKey="Xiang, Hua" sort="Xiang, Hua" uniqKey="Xiang H" first="Hua" last="Xiang">Hua Xiang</name></author><author><name sortKey="Zheng, Hua Jun" sort="Zheng, Hua Jun" uniqKey="Zheng H" first="Hua-Jun" last="Zheng">Hua-Jun Zheng</name></author><author><name sortKey="Chern, Shur Wern Wang" sort="Chern, Shur Wern Wang" uniqKey="Chern S" first="Shur-Wern Wang" last="Chern">Shur-Wern Wang Chern</name></author><author><name sortKey="Cheng, Feng" sort="Cheng, Feng" uniqKey="Cheng F" first="Feng" last="Cheng">Feng Cheng</name></author><author><name sortKey="Pan, Chun Ming" sort="Pan, Chun Ming" uniqKey="Pan C" first="Chun-Ming" last="Pan">Chun-Ming Pan</name></author><author><name sortKey="Xuan, Hua" sort="Xuan, Hua" uniqKey="Xuan H" first="Hua" last="Xuan">Hua Xuan</name></author><author><name sortKey="Chen, Sai Juan" sort="Chen, Sai Juan" uniqKey="Chen S" first="Sai-Juan" last="Chen">Sai-Juan Chen</name></author><author><name sortKey="Luo, Hui Ming" sort="Luo, Hui Ming" uniqKey="Luo H" first="Hui-Ming" last="Luo">Hui-Ming Luo</name></author><author><name sortKey="Zhou, Duan Hua" sort="Zhou, Duan Hua" uniqKey="Zhou D" first="Duan-Hua" last="Zhou">Duan-Hua Zhou</name></author><author><name sortKey="Liu, Yu Fei" sort="Liu, Yu Fei" uniqKey="Liu Y" first="Yu-Fei" last="Liu">Yu-Fei Liu</name></author><author><name sortKey="He, Jian Feng" sort="He, Jian Feng" uniqKey="He J" first="Jian-Feng" last="He">Jian-Feng He</name></author><author><name sortKey="Qin, Peng Zhe" sort="Qin, Peng Zhe" uniqKey="Qin P" first="Peng-Zhe" last="Qin">Peng-Zhe Qin</name></author><author><name sortKey="Li, Ling Hui" sort="Li, Ling Hui" uniqKey="Li L" first="Ling-Hui" last="Li">Ling-Hui Li</name></author><author><name sortKey="Ren, Yu Qi" sort="Ren, Yu Qi" uniqKey="Ren Y" first="Yu-Qi" last="Ren">Yu-Qi Ren</name></author><author><name sortKey="Liang, Wen Jia" sort="Liang, Wen Jia" uniqKey="Liang W" first="Wen-Jia" last="Liang">Wen-Jia Liang</name></author><author><name sortKey="Yu, Ye Dong" sort="Yu, Ye Dong" uniqKey="Yu Y" first="Ye-Dong" last="Yu">Ye-Dong Yu</name></author><author><name sortKey="Anderson, Larry" sort="Anderson, Larry" uniqKey="Anderson L" first="Larry" last="Anderson">Larry Anderson</name></author><author><name sortKey="Wang, Ming" sort="Wang, Ming" uniqKey="Wang M" first="Ming" last="Wang">Ming Wang</name></author><author><name sortKey="Xu, Rui Heng" sort="Xu, Rui Heng" uniqKey="Xu R" first="Rui-Heng" last="Xu">Rui-Heng Xu</name></author><author><name sortKey="Wu, Xin Wei" sort="Wu, Xin Wei" uniqKey="Wu X" first="Xin-Wei" last="Wu">Xin-Wei Wu</name></author><author><name sortKey="Zheng, Huan Ying" sort="Zheng, Huan Ying" uniqKey="Zheng H" first="Huan-Ying" last="Zheng">Huan-Ying Zheng</name></author><author><name sortKey="Chen, Jin Ding" sort="Chen, Jin Ding" uniqKey="Chen J" first="Jin-Ding" last="Chen">Jin-Ding Chen</name></author><author><name sortKey="Liang, Guodong" sort="Liang, Guodong" uniqKey="Liang G" first="Guodong" last="Liang">Guodong Liang</name></author><author><name sortKey="Gao, Yang" sort="Gao, Yang" uniqKey="Gao Y" first="Yang" last="Gao">Yang Gao</name></author><author><name sortKey="Liao, Ming" sort="Liao, Ming" uniqKey="Liao M" first="Ming" last="Liao">Ming Liao</name></author><author><name sortKey="Fang, Ling" sort="Fang, Ling" uniqKey="Fang L" first="Ling" last="Fang">Ling Fang</name></author><author><name sortKey="Jiang, Li Yun" sort="Jiang, Li Yun" uniqKey="Jiang L" first="Li-Yun" last="Jiang">Li-Yun Jiang</name></author><author><name sortKey="Li, Hui" sort="Li, Hui" uniqKey="Li H" first="Hui" last="Li">Hui Li</name></author><author><name sortKey="Chen, Fang" sort="Chen, Fang" uniqKey="Chen F" first="Fang" last="Chen">Fang Chen</name></author><author><name sortKey="Di, Biao" sort="Di, Biao" uniqKey="Di B" first="Biao" last="Di">Biao Di</name></author><author><name sortKey="He, Li Juan" sort="He, Li Juan" uniqKey="He L" first="Li-Juan" last="He">Li-Juan He</name></author><author><name sortKey="Lin, Jin Yan" sort="Lin, Jin Yan" uniqKey="Lin J" first="Jin-Yan" last="Lin">Jin-Yan Lin</name></author><author><name sortKey="Tong, Suxiang" sort="Tong, Suxiang" uniqKey="Tong S" first="Suxiang" last="Tong">Suxiang Tong</name></author><author><name sortKey="Kong, Xiangang" sort="Kong, Xiangang" uniqKey="Kong X" first="Xiangang" last="Kong">Xiangang Kong</name></author><author><name sortKey="Du, Lin" sort="Du, Lin" uniqKey="Du L" first="Lin" last="Du">Lin Du</name></author><author><name sortKey="Hao, Pei" sort="Hao, Pei" uniqKey="Hao P" first="Pei" last="Hao">Pei Hao</name></author><author><name sortKey="Tang, Hua" sort="Tang, Hua" uniqKey="Tang H" first="Hua" last="Tang">Hua Tang</name></author><author><name sortKey="Bernini, Andrea" sort="Bernini, Andrea" uniqKey="Bernini A" first="Andrea" last="Bernini">Andrea Bernini</name></author><author><name sortKey="Yu, Xiao Jing" sort="Yu, Xiao Jing" uniqKey="Yu X" first="Xiao-Jing" last="Yu">Xiao-Jing Yu</name></author><author><name sortKey="Spiga, Ottavia" sort="Spiga, Ottavia" uniqKey="Spiga O" first="Ottavia" last="Spiga">Ottavia Spiga</name></author><author><name sortKey="Guo, Zong Ming" sort="Guo, Zong Ming" uniqKey="Guo Z" first="Zong-Ming" last="Guo">Zong-Ming Guo</name></author><author><name sortKey="Pan, Hai Yan" sort="Pan, Hai Yan" uniqKey="Pan H" first="Hai-Yan" last="Pan">Hai-Yan Pan</name></author><author><name sortKey="He, Wei Zhong" sort="He, Wei Zhong" uniqKey="He W" first="Wei-Zhong" last="He">Wei-Zhong He</name></author><author><name sortKey="Manuguerra, Jean Claude" sort="Manuguerra, Jean Claude" uniqKey="Manuguerra J" first="Jean-Claude" last="Manuguerra">Jean-Claude Manuguerra</name></author><author><name sortKey="Fontanet, Arnaud" sort="Fontanet, Arnaud" uniqKey="Fontanet A" first="Arnaud" last="Fontanet">Arnaud Fontanet</name></author><author><name sortKey="Danchin, Antoine" sort="Danchin, Antoine" uniqKey="Danchin A" first="Antoine" last="Danchin">Antoine Danchin</name></author><author><name sortKey="Niccolai, Neri" sort="Niccolai, Neri" uniqKey="Niccolai N" first="Neri" last="Niccolai">Neri Niccolai</name></author><author><name sortKey="Li, Yi Xue" sort="Li, Yi Xue" uniqKey="Li Y" first="Yi-Xue" last="Li">Yi-Xue Li</name></author><author><name sortKey="Wu, Chung I" sort="Wu, Chung I" uniqKey="Wu C" first="Chung-I" last="Wu">Chung-I Wu</name></author><author><name sortKey="Zhao, Guo Ping" sort="Zhao, Guo Ping" uniqKey="Zhao G" first="Guo-Ping" last="Zhao">Guo-Ping Zhao</name></author></analytic><series><title level="j">Proceedings of the National Academy of Sciences of the United States of America</title><idno type="ISSN">0027-8424</idno><imprint><date when="2005" type="published">2005</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Amino Acid Substitution</term><term>Animals</term><term>China (epidemiology)</term><term>Disease Outbreaks</term><term>Evolution, Molecular</term><term>Genes, Viral</term><term>Humans</term><term>Membrane Glycoproteins (genetics)</term><term>Phylogeny</term><term>Polymorphism, Single Nucleotide</term><term>SARS Virus (genetics)</term><term>SARS Virus (isolation & purification)</term><term>SARS Virus (pathogenicity)</term><term>SARS Virus (physiology)</term><term>Severe Acute Respiratory Syndrome (epidemiology)</term><term>Severe Acute Respiratory Syndrome (transmission)</term><term>Severe Acute Respiratory Syndrome (virology)</term><term>Species Specificity</term><term>Spike Glycoprotein, Coronavirus</term><term>Viral Envelope Proteins (genetics)</term><term>Viverridae (virology)</term><term>Zoonoses (epidemiology)</term><term>Zoonoses (transmission)</term><term>Zoonoses (virology)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Animaux</term><term>Chine (épidémiologie)</term><term>Flambées de maladies</term><term>Glycoprotéine de spicule des coronavirus</term><term>Glycoprotéines membranaires (génétique)</term><term>Gènes viraux</term><term>Humains</term><term>Phylogénie</term><term>Polymorphisme de nucléotide simple</term><term>Protéines de l'enveloppe virale (génétique)</term><term>Spécificité d'espèce</term><term>Substitution d'acide aminé</term><term>Syndrome respiratoire aigu sévère (transmission)</term><term>Syndrome respiratoire aigu sévère (virologie)</term><term>Syndrome respiratoire aigu sévère (épidémiologie)</term><term>Virus du SRAS (génétique)</term><term>Virus du SRAS (isolement et purification)</term><term>Virus du SRAS (pathogénicité)</term><term>Virus du SRAS (physiologie)</term><term>Viverridae (virologie)</term><term>Zoonoses (transmission)</term><term>Zoonoses (virologie)</term><term>Zoonoses (épidémiologie)</term><term>Évolution moléculaire</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Membrane Glycoproteins</term><term>Viral Envelope Proteins</term></keywords><keywords scheme="MESH" type="geographic" qualifier="epidemiology" xml:lang="en"><term>China</term></keywords><keywords scheme="MESH" qualifier="epidemiology" xml:lang="en"><term>Severe Acute Respiratory Syndrome</term><term>Zoonoses</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Glycoprotéines membranaires</term><term>Protéines de l'enveloppe virale</term><term>Virus du SRAS</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Virus du SRAS</term></keywords><keywords scheme="MESH" qualifier="pathogenicity" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="pathogénicité" xml:lang="fr"><term>Virus du SRAS</term></keywords><keywords scheme="MESH" qualifier="physiologie" xml:lang="fr"><term>Virus du SRAS</term></keywords><keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="transmission" xml:lang="en"><term>Severe Acute Respiratory Syndrome</term><term>Zoonoses</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Syndrome respiratoire aigu sévère</term><term>Viverridae</term><term>Zoonoses</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Severe Acute Respiratory Syndrome</term><term>Viverridae</term><term>Zoonoses</term></keywords><keywords scheme="MESH" qualifier="épidémiologie" xml:lang="fr"><term>Chine</term><term>Syndrome respiratoire aigu sévère</term><term>Zoonoses</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Amino Acid Substitution</term><term>Animals</term><term>Disease Outbreaks</term><term>Evolution, Molecular</term><term>Genes, Viral</term><term>Humans</term><term>Phylogeny</term><term>Polymorphism, Single Nucleotide</term><term>Species Specificity</term><term>Spike Glycoprotein, Coronavirus</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Animaux</term><term>Flambées de maladies</term><term>Glycoprotéine de spicule des coronavirus</term><term>Gènes viraux</term><term>Humains</term><term>Phylogénie</term><term>Polymorphisme de nucléotide simple</term><term>Spécificité d'espèce</term><term>Substitution d'acide aminé</term><term>Évolution moléculaire</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">The genomic sequences of severe acute respiratory syndrome coronaviruses from human and palm civet of the 2003/2004 outbreak in the city of Guangzhou, China, were nearly identical. Phylogenetic analysis suggested an independent viral invasion from animal to human in this new episode. Combining all existing data but excluding singletons, we identified 202 single-nucleotide variations. Among them, 17 are polymorphic in palm civets only. The ratio of nonsynonymous/synonymous nucleotide substitution in palm civets collected 1 yr apart from different geographic locations is very high, suggesting a rapid evolving process of viral proteins in civet as well, much like their adaptation in the human host in the early 2002-2003 epidemic. Major genetic variations in some critical genes, particularly the Spike gene, seemed essential for the transition from animal-to-human transmission to human-to-human transmission, which eventually caused the first severe acute respiratory syndrome outbreak of 2002/2003.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">15695582</PMID><DateCompleted><Year>2005</Year><Month>04</Month><Day>13</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Print">0027-8424</ISSN><JournalIssue CitedMedium="Print"><Volume>102</Volume><Issue>7</Issue><PubDate><Year>2005</Year><Month>Feb</Month><Day>15</Day></PubDate></JournalIssue><Title>Proceedings of the National Academy of Sciences of the United States of America</Title><ISOAbbreviation>Proc. Natl. Acad. Sci. U.S.A.</ISOAbbreviation></Journal><ArticleTitle>Cross-host evolution of severe acute respiratory syndrome coronavirus in palm civet and human.</ArticleTitle><Pagination><MedlinePgn>2430-5</MedlinePgn></Pagination><Abstract><AbstractText>The genomic sequences of severe acute respiratory syndrome coronaviruses from human and palm civet of the 2003/2004 outbreak in the city of Guangzhou, China, were nearly identical. Phylogenetic analysis suggested an independent viral invasion from animal to human in this new episode. Combining all existing data but excluding singletons, we identified 202 single-nucleotide variations. Among them, 17 are polymorphic in palm civets only. The ratio of nonsynonymous/synonymous nucleotide substitution in palm civets collected 1 yr apart from different geographic locations is very high, suggesting a rapid evolving process of viral proteins in civet as well, much like their adaptation in the human host in the early 2002-2003 epidemic. Major genetic variations in some critical genes, particularly the Spike gene, seemed essential for the transition from animal-to-human transmission to human-to-human transmission, which eventually caused the first severe acute respiratory syndrome outbreak of 2002/2003.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Song</LastName><ForeName>Huai-Dong</ForeName><Initials>HD</Initials><AffiliationInfo><Affiliation>State Key Laboratory for Medical Genomics/Pôle Sino-Français de Recherche en Sciences du Vivant et Génomique, Ruijin Hospital Affiliated to Shanghai Second Medical University, 197 Rui Jin Road II, Shanghai 200025, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tu</LastName><ForeName>Chang-Chun</ForeName><Initials>CC</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Guo-Wei</ForeName><Initials>GW</Initials></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Sheng-Yue</ForeName><Initials>SY</Initials></Author><Author ValidYN="Y"><LastName>Zheng</LastName><ForeName>Kui</ForeName><Initials>K</Initials></Author><Author ValidYN="Y"><LastName>Lei</LastName><ForeName>Lian-Cheng</ForeName><Initials>LC</Initials></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Qiu-Xia</ForeName><Initials>QX</Initials></Author><Author ValidYN="Y"><LastName>Gao</LastName><ForeName>Yu-Wei</ForeName><Initials>YW</Initials></Author><Author ValidYN="Y"><LastName>Zhou</LastName><ForeName>Hui-Qiong</ForeName><Initials>HQ</Initials></Author><Author ValidYN="Y"><LastName>Xiang</LastName><ForeName>Hua</ForeName><Initials>H</Initials></Author><Author ValidYN="Y"><LastName>Zheng</LastName><ForeName>Hua-Jun</ForeName><Initials>HJ</Initials></Author><Author ValidYN="Y"><LastName>Chern</LastName><ForeName>Shur-Wern Wang</ForeName><Initials>SW</Initials></Author><Author ValidYN="Y"><LastName>Cheng</LastName><ForeName>Feng</ForeName><Initials>F</Initials></Author><Author ValidYN="Y"><LastName>Pan</LastName><ForeName>Chun-Ming</ForeName><Initials>CM</Initials></Author><Author ValidYN="Y"><LastName>Xuan</LastName><ForeName>Hua</ForeName><Initials>H</Initials></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Sai-Juan</ForeName><Initials>SJ</Initials></Author><Author ValidYN="Y"><LastName>Luo</LastName><ForeName>Hui-Ming</ForeName><Initials>HM</Initials></Author><Author ValidYN="Y"><LastName>Zhou</LastName><ForeName>Duan-Hua</ForeName><Initials>DH</Initials></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Yu-Fei</ForeName><Initials>YF</Initials></Author><Author ValidYN="Y"><LastName>He</LastName><ForeName>Jian-Feng</ForeName><Initials>JF</Initials></Author><Author ValidYN="Y"><LastName>Qin</LastName><ForeName>Peng-Zhe</ForeName><Initials>PZ</Initials></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Ling-Hui</ForeName><Initials>LH</Initials></Author><Author ValidYN="Y"><LastName>Ren</LastName><ForeName>Yu-Qi</ForeName><Initials>YQ</Initials></Author><Author ValidYN="Y"><LastName>Liang</LastName><ForeName>Wen-Jia</ForeName><Initials>WJ</Initials></Author><Author ValidYN="Y"><LastName>Yu</LastName><ForeName>Ye-Dong</ForeName><Initials>YD</Initials></Author><Author ValidYN="Y"><LastName>Anderson</LastName><ForeName>Larry</ForeName><Initials>L</Initials></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Ming</ForeName><Initials>M</Initials></Author><Author ValidYN="Y"><LastName>Xu</LastName><ForeName>Rui-Heng</ForeName><Initials>RH</Initials></Author><Author ValidYN="Y"><LastName>Wu</LastName><ForeName>Xin-Wei</ForeName><Initials>XW</Initials></Author><Author ValidYN="Y"><LastName>Zheng</LastName><ForeName>Huan-Ying</ForeName><Initials>HY</Initials></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Jin-Ding</ForeName><Initials>JD</Initials></Author><Author ValidYN="Y"><LastName>Liang</LastName><ForeName>Guodong</ForeName><Initials>G</Initials></Author><Author ValidYN="Y"><LastName>Gao</LastName><ForeName>Yang</ForeName><Initials>Y</Initials></Author><Author ValidYN="Y"><LastName>Liao</LastName><ForeName>Ming</ForeName><Initials>M</Initials></Author><Author ValidYN="Y"><LastName>Fang</LastName><ForeName>Ling</ForeName><Initials>L</Initials></Author><Author ValidYN="Y"><LastName>Jiang</LastName><ForeName>Li-Yun</ForeName><Initials>LY</Initials></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Hui</ForeName><Initials>H</Initials></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Fang</ForeName><Initials>F</Initials></Author><Author ValidYN="Y"><LastName>Di</LastName><ForeName>Biao</ForeName><Initials>B</Initials></Author><Author ValidYN="Y"><LastName>He</LastName><ForeName>Li-Juan</ForeName><Initials>LJ</Initials></Author><Author ValidYN="Y"><LastName>Lin</LastName><ForeName>Jin-Yan</ForeName><Initials>JY</Initials></Author><Author ValidYN="Y"><LastName>Tong</LastName><ForeName>Suxiang</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Kong</LastName><ForeName>Xiangang</ForeName><Initials>X</Initials></Author><Author ValidYN="Y"><LastName>Du</LastName><ForeName>Lin</ForeName><Initials>L</Initials></Author><Author ValidYN="Y"><LastName>Hao</LastName><ForeName>Pei</ForeName><Initials>P</Initials></Author><Author ValidYN="Y"><LastName>Tang</LastName><ForeName>Hua</ForeName><Initials>H</Initials></Author><Author ValidYN="Y"><LastName>Bernini</LastName><ForeName>Andrea</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Yu</LastName><ForeName>Xiao-Jing</ForeName><Initials>XJ</Initials></Author><Author ValidYN="Y"><LastName>Spiga</LastName><ForeName>Ottavia</ForeName><Initials>O</Initials></Author><Author ValidYN="Y"><LastName>Guo</LastName><ForeName>Zong-Ming</ForeName><Initials>ZM</Initials></Author><Author ValidYN="Y"><LastName>Pan</LastName><ForeName>Hai-Yan</ForeName><Initials>HY</Initials></Author><Author ValidYN="Y"><LastName>He</LastName><ForeName>Wei-Zhong</ForeName><Initials>WZ</Initials></Author><Author ValidYN="Y"><LastName>Manuguerra</LastName><ForeName>Jean-Claude</ForeName><Initials>JC</Initials></Author><Author ValidYN="Y"><LastName>Fontanet</LastName><ForeName>Arnaud</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Danchin</LastName><ForeName>Antoine</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Niccolai</LastName><ForeName>Neri</ForeName><Initials>N</Initials></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Yi-Xue</ForeName><Initials>YX</Initials></Author><Author ValidYN="Y"><LastName>Wu</LastName><ForeName>Chung-I</ForeName><Initials>CI</Initials></Author><Author ValidYN="Y"><LastName>Zhao</LastName><ForeName>Guo-Ping</ForeName><Initials>GP</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType><PublicationType UI="D013487">Research Support, U.S. Gov't, P.H.S.</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2005</Year><Month>02</Month><Day>04</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>Proc Natl Acad Sci U S A</MedlineTA><NlmUniqueID>7505876</NlmUniqueID><ISSNLinking>0027-8424</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D008562">Membrane Glycoproteins</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D064370">Spike Glycoprotein, Coronavirus</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D014759">Viral Envelope Proteins</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D019943" MajorTopicYN="N">Amino Acid Substitution</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D000818" MajorTopicYN="N">Animals</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D002681" MajorTopicYN="N" Type="Geographic">China</DescriptorName><QualifierName UI="Q000453" MajorTopicYN="N">epidemiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D004196" MajorTopicYN="N">Disease Outbreaks</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D019143" MajorTopicYN="Y">Evolution, Molecular</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005814" MajorTopicYN="N">Genes, Viral</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D006801" MajorTopicYN="N">Humans</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008562" MajorTopicYN="N">Membrane Glycoproteins</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="N">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D020641" MajorTopicYN="N">Polymorphism, Single Nucleotide</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D045473" MajorTopicYN="N">SARS Virus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</QualifierName><QualifierName UI="Q000472" MajorTopicYN="N">pathogenicity</QualifierName><QualifierName UI="Q000502" 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