Mol Biol Evol. 2012 Nov;29(11):3249-53. doi: 10.1093/molbev/mss151. Epub 2012 Jun 11.
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.
我们使用高密度单核苷酸多态性芯片对最近从塞内加尔和冈比亚采集的 75 株疟原虫进行基因分型，以在这个疟疾流行地区寻找选择信号。我们发现，抽样寄生虫的遗传多样性在地理和时间上几乎没有分层。通过应用 iHS 和基于 REHH 单倍型的正选择测试，我们在一个已知的耐药性基因座、几个已知的抗原基因座和几个以前未被确定为近期选择位点的基因组区域发现了近期选择清除的证据。我们讨论了对寄生虫流行地区进行深入的特定种群基因组分析以识别选择信号的价值，这些信号可能对应于局部选择压力，如独特的治疗方案或蚊子媒介。
