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Chinese Science Bulletin

, Volume 48, Issue 12, pp 1170–1174 | Cite as

Molecular phylogeny of coronaviruses including human SARS-CoV

  • Lei Gao
  • Ji Qi
  • Haibin Wei
  • Yigang Sun
  • Bailin HaoEmail author
Reports Special Topics

Abstract

Phylogenetic tree of coronaviruses (CoVs) including 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 genomes these results provide phylogenetic knowledge based on independent novel methodology as compared to recent phylogenetic studies on SARS-CoV.

Keywords

severe acute respiratory syndrome (SARS) coronavirus molecular phylogeny composition distance ultramericity 

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Copyright information

© Science in China Press 2003

Authors and Affiliations

  • Lei Gao
    • 1
    • 2
  • Ji Qi
    • 1
    • 2
  • Haibin Wei
    • 3
    • 4
  • Yigang Sun
    • 3
    • 4
  • Bailin Hao
    • 2
    • 4
    Email author
  1. 1.Institute of Theoretical PhysicsChinese Academy of SciencesBeijingChina
  2. 2.T-Life Research CenterFudan UniversityShanghaiChina
  3. 3.Graduate SchoolZhejiang UniversityHangzhouChina
  4. 4.Hangzhou Branch, Beijing Genomics InstituteChinese Academy of SciencesHangzhouChina

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