Whole genome sequencing of Plasmodium vivax: BL23_D47_HNA_R-No_AmpliconSeq
We extracted DNA from each sample and used multiplex PCRs to amplify 100-300 bp of DNA sequence surrounding SNPs polymorphic among Cambodian P. vivax. A total of 128 SNPs distributed throughout the genome were targeted. We pooled all PCR products generated from one sample and used a second PCR to incorporate a unique oligonucleotide sequence. Finally, we pooled the barcoded PCR products of 96 samples together and sequenced them simultaneously on an Illumina MiSeq.