SNP Genotyping Identifies New Signatures of Selection in a Deep Sample of West African Plasmodium falciparum Malaria Parasites
Open Access
- 11 July 2012
- journal article
- research article
- Published by Oxford University Press (OUP) in Molecular Biology and Evolution
- Vol. 29 (11), 3249-3253
- https://doi.org/10.1093/molbev/mss151
Abstract
We used a high-density single-nucleotide polymorphism array to genotype 75 Plasmodium falciparum isolates recently collected from Senegal and The Gambia to search for signals of selection in this malaria endemic region. We found little geographic or temporal stratification of the genetic diversity among the sampled parasites. Through application of the iHS and REHH haplotype-based tests for positive selection, we found evidence of recent selective sweeps at a known drug resistance locus, at several known antigenic loci, and at several genomic regions not previously identified as sites of recent selection. We discuss the value of deep population-specific genomic analyses for identifying selection signals within sampled endemic populations of parasites, which may correspond to local selection pressures such as distinctive therapeutic regimes or mosquito vectors.Keywords
This publication has 19 references indexed in Scilit:
- Malaria Parasite clag3 Genes Determine Channel-Mediated Nutrient Uptake by Infected Red Blood CellsCell, 2011
- Identification and Functional Validation of the Novel Antimalarial Resistance Locus PF10_0355 in Plasmodium falciparumPLoS Genetics, 2011
- Chloroquine susceptibility and reversibility in a Plasmodium falciparum genetic crossMolecular Microbiology, 2010
- Plasmodium falciparum genome-wide scans for positive selection, recombination hot spots and resistance to antimalarial drugsNature Genetics, 2010
- Malaria Parasite Invasion of the Mosquito Salivary Gland Requires Interaction between the Plasmodium TRAP and the Anopheles Saglin ProteinsPLoS Pathogens, 2009
- Genome-Wide Compensatory Changes Accompany Drug- Selected Mutations in the Plasmodium falciparum crt GenePLOS ONE, 2008
- Differential evidence of natural selection on two leading sporozoite stage malaria vaccine candidate antigensInternational Journal for Parasitology, 2007
- A Map of Recent Positive Selection in the Human GenomePLoS Biology, 2006
- Detecting recent positive selection in the human genome from haplotype structureNature, 2002
- Estimating F-Statistics for the Analysis of Population StructureEvolution, 1984