| Molecular phylogeny of coronaviruses including human SARS-CoV |
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| 作者姓名： | GAO Lei * QI Ji * WEI Haibin * SUN Yigang & HAO Bailin . Institute of Theoretical Physics Chinese Academy of Sciences Bei-jing China . T-Life Research Center Fudan University Shanghai China . Graduate School Zhejiang University Hangzhou China . Hangzhou Branch Beijing Genomics Institute Chinese Academy of Sciences Hangzhou China Correspondence should be addressed to Hao Baibin |
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| 作者单位： | GAO Lei,QI Ji(Institute of Theoretical Physics, Chinese Academy of Sciences, Beijing 100080, China; T-Life Research Center, Fudan University, Shanghai 200433, China);WEI Haibin,Sun Yigang(Graduate School, Zhejiang University, Hangzhou 310027, China; Hangzhou Branch, Beijing Genomics Institute, Chinese Academy of Sciences, Hangzhou 310008, China);HAO Bailin(T-Life Research Center, Fudan University, Shanghai 200433, China; Hangzhou Branch, Beijing Genomics Institute, Chinese Academy of Sciences, Hangzhou 310008, China) |
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| 基金项目： | 国家自然科学基金，中国科学院知识创新工程项目 |
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| 摘 要： | The outbreak of SARS sets an urgent task to reveal the origin of human SARS-CoV, i.e. its relation to other known species of coronavirus, and to trace the genetic variation in the spreading process of SARS. Partial answer to the problem may be obtained from phylogenetic analy-sis of available genomes. We call a phylogenetic tree of different species of coronavirus including the human SARS-Cov a CoV Tree and that of different isolates of SARS-CoV a SARS Tree. CoV trees have been c…
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| 收稿时间： | 2003-05-27 |
| 修稿时间： | 2003-06-12 |
Molecular phylogeny of coronaviruses including human SARS-CoV |
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| GAO Lei,*,QI Ji,*,WEI Haibin,*,SUN Yigang, & HAO Bailin, . Institute of Theoretical Physics,Chinese Academy of Sciences,Bei-jing ,China, . T-Life Research Center,Fudan University,Shanghai ,China . Graduate School,Zhejiang University,Hangzhou ,China, . Hangzhou Branch,Beijing Genomics Institute,Chinese Academy of Sciences,Hangzhou ,China, Correspondence should be addressed to Hao Baibin.Molecular phylogeny of coronaviruses including human SARS-CoV[J].Chinese Science Bulletin,2003,48(12):1170-1174. |
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| Authors: | Gao Lei Qi Ji Wei Haibin Sun Yigang Hao Bailin |
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| Institution: | e-mail: hao@itp.ac. cn * These authors contributed equally to this work. |
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| Abstract: | Phylogenetic tree of coronaviruses (CoVs) in-cluding the human SARS-associated virus is reconstructed from complete genomes by using our newly developed K- string composition approach. The relation of the human SARS-CoV to other coronaviruses, i.e. the rooting of the tree is suggested by choosing an appropriate outgroup. SARS-CoV makes a separate group closer but still distant from G2 (CoVs in mammalian host). The relation between different isolates of the human SARS virus is inferred by first constructing an ultrametric distance matrix from counting sequence variations in the genomes. The resulting tree is consistent with clinic relations between the SARS-CoV isolates. In addition to a larger variety of coronavirus ge-nomes these results provide phylogenetic knowledge based on independent novel methodology as compared to recent phylogenetic studies on SARS-CoV. |
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| Keywords: | severe acute respiratory syndrome (SARS) coronavirus molecular phylogeny composition distance ultramericity |
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