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Zika and Flaviviruses Phylogeny Based on the Alignment-Free Natural Vector Method

Yongkun Li Department of Mathematical Sciences, Tsinghua University Lily He Department of Mathematical Sciences, Tsinghua University Rong Lucy He Department of Biological Sciences, Chicago State University Stephen S.-T. Yau(Corresponding Department of Mathematical Sciences, Tsinghua University

Data Analysis, Bio-Statistics, Bio-Mathematics mathscidoc:1903.42003

Dna & Cell Biology, 36, (2), 1-8, 2017
Zika virus (ZIKV) is a mosquito-borne flavivirus. It was first isolated from Uganda in 1947 and has become an emergent event since 2007. However, because of the inconsistency of alignment methods, the evolution of ZIKV remains poorly understood. In this study, we first use the complete protein and an alignment-free method to build a phylogenetic tree of 87 Zika strains in which Asian, East African, and West African lineages are characterized. We also use the NS5 protein to construct the genetic relationship among 44 Zika strains. For the first time, these strains are divided into two clades: African 1 and African 2. This result suggests that ZIKV originates from Africa, then spread to Asia, Pacific islands, and throughout the Americas. We also perform the phylogeny analysis for 53 viruses in genus Flavivirus to which ZIKV belongs using complete proteins. Our conclusion is consistent with the classification by the hosts and transmission vectors.
Zika virus, Flavivirus, evolution, natural vector
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@inproceedings{yongkun2017zika,
  title={Zika and Flaviviruses Phylogeny Based on the Alignment-Free Natural Vector Method},
  author={Yongkun Li, Lily He, Rong Lucy He, and Stephen S.-T. Yau(Corresponding},
  url={http://archive.ymsc.tsinghua.edu.cn/pacm_paperurl/20190315150330464996201},
  booktitle={Dna & Cell Biology},
  volume={36},
  number={2},
  pages={1-8},
  year={2017},
}
Yongkun Li, Lily He, Rong Lucy He, and Stephen S.-T. Yau(Corresponding. Zika and Flaviviruses Phylogeny Based on the Alignment-Free Natural Vector Method. 2017. Vol. 36. In Dna & Cell Biology. pp.1-8. http://archive.ymsc.tsinghua.edu.cn/pacm_paperurl/20190315150330464996201.
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