The Chikungunya Virus Typing Tool: Introduction.
The definition of a Chikungunya genotype is based on the identification of well defined phylogenetic clusters that its origin has been associated to a given geographic region.
We have carefully analysed all of CHIKV whole genomes and reviewed in the literature in order to represent the diversity of each phylotype. In addition, we performed extensive testing to be sure that our reference strains accurately classify other sequences.
- We include 3 phylotypes
- Phylotype 1 includes sequences from Asian and Caribbean
- Phylotype 2 includes sequences from East-Central-South-African.
- Phylotype 3 includes sequences West Africa
Fig. 1. Chikungunya maximum likelihood phylogenetic tree of the (A) complete genome and (B) E1 gene