The Illumina sequencing technology used to sequence Plasmodium spp has previously been described [20 (link)]. In brief, The SWGA amplicons were cleaned using Ampure XP beads and incubated for 5 min at 25°C. After which the bead/DNA mixture was placed on a magnetic rack to capture the DNA-bound beads. Beads were washed twice with 200 μL of 80% ethanol and the bound DNA eluted with 60 μL of elution buffer. Cleaned amplified DNA products (approx. 0.5–1 μg DNA) were used to prepare DNA library using the NEBNext DNA sample preparation kit (New England Biolabs) for high throughput sequencing.
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