Mapping drug resistance genes in Plasmodium Falciparum by genome-wide association

Tim J.C. Anderson

    Research output: Contribution to journalReview articlepeer-review

    55 Scopus citations


    When alleles conferring drug resistance spread through a population of malaria parasites, they leave characteristic "scars" in the parasite genome. Flanking neutral polymorphisms "hitchhike" to high frequency with the resistance mutation, generating deep valleys of reduced variation and broad swathes of elevated linkage disequilibrium around the resistance locus. We can systematically search the genome for these scars by genotyping polymorphic marker loci at intervals throughout the genome of P. falciparum, and use them as signposts for locating drug resistance genes. In this review I outline the rational behind this approach to genetic mapping. I describe key features of P. falciparum population biology, such as recombination rate, inbreeding, and selection intensity that influence the size of genomic regions affected by selection and the choice of study population. I discuss suitable genetic markers, study designs, and statistical approaches to data analysis. Finally, to demonstrate the utility of the approach I describe two proof-of-principle studies documenting patterns of genetic variability around known drug resistance genes.

    Original languageEnglish (US)
    Pages (from-to)65-78
    Number of pages14
    JournalCurrent Drug Targets - Infectious Disorders
    Issue number1
    StatePublished - 2004


    • Drug resistance
    • Hitchhiking
    • Linkage disequilibrium
    • Malaria
    • Microsatellite
    • Plasmodium
    • Selective sweep

    ASJC Scopus subject areas

    • Molecular Medicine
    • Pharmacology
    • Microbiology (medical)


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