A Multipurpose, High-Throughput Single-Nucleotide Polymorphism Chip for the Dengue and Yellow Fever Mosquito, Aedes aegypti
A Multipurpose, High-Throughput Single-Nucleotide Polymorphism Chip for the Dengue and Yellow Fever Mosquito, Aedes aegypti
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DOI：
10.1534/g3.114.016196
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发表时间：
2015-05-01
影响因子：
2.6
通讯作者：
Powell, Jeffrey R.
中科院分区：
文献类型：
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作者：
Evans, Benjamin R.;Gloria-Soria, Andrea;Powell, Jeffrey R.
登革热和黄热病蚊子，埃及伊蚊，对全球疾病负担有重大贡献。埃及伊蚊的遗传学研究对于了解其进化历史、作为疾病媒介的能力以及媒介控制方法的效果和功效至关重要。埃及伊蚊基因组中重复序列和转座元件的普遍存在使标记开发变得复杂，并使全基因组遗传研究变得具有挑战性。为了克服这些挑战，我们开发了一种高通量基因分型芯片Axiom_aegypti1。该芯片筛选了来自世界各地的埃及伊蚊种群中存在的5万个单核苷酸多态性。该阵列目前同时使用基因型96个样品。为了确保这些标记满足许多遗传分析中常见的假设，我们分别在实验室杂交和野生种群中测试了孟德尔遗传和连锁不平衡。到目前为止，我们已经验证了超过25，000个这些标记，并预计这个数字将随着更多的采样而增加。我们还提供了芯片在区分世界各地人群方面的有效性的证据。该芯片上的标记是从群体遗传学到全基因组关联研究的理想应用。该工具使不同的埃及伊蚊研究人员能够获得快速，具有成本效益和可比性的基因型数据，从那些对气候变化引起的潜在范围变化感兴趣的人到那些表征其传播疾病能力的遗传基础的人。
The dengue and yellow fever mosquito, Aedes aegypti, contributes significantly to global disease burden. Genetic study of Aedes aegypti is essential to understanding its evolutionary history, competence as a disease vector, and the effects and efficacy of vector control methods. The prevalence of repeats and transposable elements in the Aedes aegypti genome complicates marker development and makes genome-wide genetic study challenging. To overcome these challenges, we developed a high-throughput genotyping chip, Axiom_aegypti1. This chip screens for 50,000 single-nucleotide polymorphisms present in Aedes aegypti populations from around the world. The array currently used genotypes 96 samples simultaneously. To ensure that these markers satisfy assumptions commonly made in many genetic analyses, we tested for Mendelian inheritance and linkage disequilibrium in laboratory crosses and a wild population, respectively. We have validated more than 25,000 of these markers to date, and expect this number to increase with more sampling. We also present evidence of the chip's efficacy in distinguishing populations throughout the world. The markers on this chip are ideal for applications ranging from population genetics to genome-wide association studies. This tool makes rapid, cost-effective, and comparable genotype data attainable to diverse sets of Aedes aegypti researchers, from those interested in potential range shifts due to climate change to those characterizing the genetic underpinnings of its competence to transmit disease.