Optimization of whole-genome sequencing of Plasmodium falciparum from low-density dried blood spot samples.

ABSTRACT:

Background

Whole-genome sequencing (WGS) is becoming increasingly useful to study the biology, epidemiology, and ecology of malaria parasites. Despite ease of sampling, DNA extracted from dried blood spots (DBS) has a high ratio of human DNA compared to parasite DNA, which poses a challenge for downstream genetic analyses. The effects of multiple methods for DNA extraction, digestion of methylated DNA, and amplification were evaluated on the quality and fidelity of WGS data recovered from DBS.

Methods

Low parasite density mock DBS samples were created, extracted either with Tween-Chelex or QIAamp, treated with or without McrBC, and amplified with one of three different amplification techniques (two sWGA primer sets and one rWGA). Extraction conditions were evaluated on perfo

SUBMITTER: Teyssier NB 

PROVIDER: S-EPMC7912882 | biostudies-literature | 2021 Feb

REPOSITORIES: biostudies-literature