ArticleThe Journal of infectious diseases2013
Pooled deep sequencing of Plasmodium falciparum isolates: an efficient and scalable tool to quantify prevailing malaria drug-resistance genotypes.
Article in The Journal of infectious diseases, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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Who cites it
46 citing papers in PubMed.
- Interactions Between Antenatal Sulfadoxine-Pyrimethamine, Drug-Resistant Plasmodium falciparum Parasites, and Delivery Outcomes in Malawi.The Journal of infectious diseases · 2020Trial
- Trial
- Advancing artemisinin resistance monitoring using a high sensitivity ddPCR assay for Pfkelch13 mutation detection in Asia.Scientific reports · 2025Article
- High Frequency of Artemisinin Partial Resistance Mutations in the Great Lakes Region Revealed Through Rapid Pooled Deep Sequencing.The Journal of infectious diseases · 2025Article
- Application of a new highly multiplexed amplicon sequencing tool to evaluatemedRxiv : the preprint server for health sciences · 2024Article
- High frequency of artemisinin partial resistance mutations in the great lake region revealed through rapid pooled deep sequencing.medRxiv : the preprint server for health sciences · 2024Article
- Molecular tools are crucial for malaria elimination.Molecular biology reports · 2024Review
- Application of a new highly multiplexed amplicon sequencing tool to evaluateFrontiers in parasitology · 2024Article
- Molecular Surveillance of Malaria Using the PF AmpliSeq Custom Assay forBio-protocol · 2023Article
- Factors Affecting the Performance of HRP2-Based Malaria Rapid Diagnostic Tests.Tropical medicine and infectious disease · 2022Review
- Article
- A Rapid and Specific Genotyping Platform for Plasmodium falciparum Chloroquine Resistance via Allele-Specific PCR with a Lateral Flow Assay.Microbiology spectrum · 2022Article
- Decrypting the complexity of the human malaria parasite biology through systems biology approaches.Frontiers in systems biology · 2022Article
- Article
- Article
- Antimalarial Drug Resistance and Implications for the WHO Global Technical Strategy.Current epidemiology reports · 2021Review
- Remarkable genetic diversity of Trypanosoma cruzi and Trypanosoma rangeli in two localities of southern Ecuador identified via deep sequencing of mini-exon gene amplicons.Parasites & vectors · 2020Article
- Amplicon deep sequencing of kelch13 in Plasmodium falciparum isolates from Senegal.Malaria journal · 2020Article
- Article
- Amplicon deep sequencing improves Plasmodium falciparum genotyping in clinical trials of antimalarial drugs.Scientific reports · 2019Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
Molecular surveillance for drug-resistant malaria parasites requires reliable, timely, and scalable methods. These data may be efficiently produced by genotyping parasite populations using second-generation sequencing (SGS). We designed and validated a SGS protocol to quantify mutant allele frequencies in the Plasmodium falciparum genes dhfr and dhps in mixed isolates. We applied this new protocol to field isolates from children and compared it to standard genotyping using Sanger sequencing. The SGS protocol accurately quantified dhfr and dhps allele frequencies in a mixture of parasite strains. Using SGS of DNA that was extracted and then pooled from individual isolates, we estimated mutant allele frequencies that were closely correlated to those estimated by Sanger sequencing (correlations, >0.98). The SGS protocol obviated most molecular steps in conventional methods and is cost saving for parasite populations >50. This SGS genotyping method efficiently and reproducibly estimates parasite allele frequencies within populations of P. falciparum for molecular epidemiologic studies.
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