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Fig. 6 | Genome Medicine

Fig. 6

From: New var reconstruction algorithm exposes high var sequence diversity in a single geographic location in Mali

Fig. 6

Sequence similarity among var2csa elements. a PCA of reconstructed and known var2csa exon 1 amino acid sequences: 19 var2csa sequences reconstructed from the 12 Malian samples were aligned to VarDom var2csa sequences and Euclidian distance matrix generated from the multiple alignment was used to plot the PCA. The sequences are colored based on their origin. 3D7, FCR3/IT4 (Gambia), HB3 (Honduras), Dd2 (Indochina), PFCLIN (Ghana), IGH (India), RAJ116 (India), AAQ73930 (Malayan Camp), and NHP (Plasmodium reichenowi, a Non-Human Primate parasite var2csa). b Neighbor net of the reconstructed var2csa exon 1 nucleotide sequences based on uncorrected p-distances. The network is inferred from the 19 var2csa sequences reconstructed from the 12 Malian samples and 11 var2csa sequences from the VarDom database multiple alignments. The sequences are color-coded based on their origin as in Fig. 6a

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