Properties and Power of the Drosophila Synthetic Population Resource for the Routine Dissection of Complex Traits
Properties and Power of the Drosophila Synthetic Population Resource for the Routine Dissection of Complex Traits
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DOI：
10.1534/genetics.112.138537
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发表时间：
2012-07-01
期刊：
影响因子：
3.3
通讯作者：
Long, Anthony D.
中科院分区：
文献类型：
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作者：
King, Elizabeth G.;Macdonald, Stuart J.;Long, Anthony D.
果蝇人工种群资源(DSPR)是由1600个重组自交系(RIL)组成的一个新的多创建者高级杂交小组，设计用于复杂性状的遗传分离。在这里，我们描述了从一组密集的半显性限制位点相关DNA(RAD)标记中推断全集RIL的潜在镶嵌创始人结构，并使用模拟来探索标记密度和测序覆盖率的变化如何影响推理。对于给定的测序工作，就我们可以推断的遗传信息量而言，标记密度比每个标记的序列覆盖率更重要。我们还评估了DSPR的力量，根据推断的创始人状态将隐藏QTL的基因类型分配给每个RIL，并模拟不同实验设计、不同遗传结构、不同样本大小和不同效应大小的QTL的表型。我们发现DSPR同时具有高功率(例如，检测5%的QTL的84%的功率)和高的作图分辨率(例如，类似于检测5%的QTL的1.5 cM)。
The Drosophila Synthetic Population Resource (DSPR) is a newly developed multifounder advanced intercross panel consisting of >1600 recombinant inbred lines (RILs) designed for the genetic dissection of complex traits. Here, we describe the inference of the underlying mosaic founder structure for the full set of RILs from a dense set of semicodominant restriction-site-associated DNA (RAD) markers and use simulations to explore how variation in marker density and sequencing coverage affects inference. For a given sequencing effort, marker density is more important than sequence coverage per marker in terms of the amount of genetic information we can infer. We also assessed the power of the DSPR by assigning genotypes at a hidden QTL to each RIL on the basis of the inferred founder state and simulating phenotypes for different experimental designs, different genetic architectures, different sample sizes, and QTL of varying effect sizes. We found the DSPR has both high power (e.g., 84% power to detect a 5% QTL) and high mapping resolution (e.g., similar to 1.5 cM for a 5% QTL).