Genomic prediction in the wild: A case study in Soay sheep
Genomic prediction in the wild: A case study in Soay sheep
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野外基因组预测：索伊羊案例研究
DOI：
10.1101/2020.07.15.205385
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发表时间：
2020
期刊：
影响因子：
--
通讯作者：
Ashraf B
中科院分区：
文献类型：
--
作者：
Ashraf B
基因组预测是一种从基因组中估计个体表型的遗传成分的技术，它已经彻底改变了动植物育种和医学遗传学。然而，尽管它在近20年前首次引入，但几乎没有被研究野生生物的进化遗传学界所采用。在这里，基因组预测进行8个性状在野生群体的Soay羊。该种群已经成为超过30年的进化生态学研究的焦点，并且已经对焦点孟德尔和数量性状的遗传结构有了相当多的了解。我们表明，基因组预测的准确性是高的所有性状，但特别是那些具有大效应分离的位点。比较了五种不同的方法，可以在同一模型中容纳零效应和大效应位点的两种方法往往表现最好。如果基因组预测的准确性在其他野生种群中是相似的，那么在更多的野生种群中实现无谱系的分子定量遗传学研究就有了真实的机会;目前的文献主要是需要数十年的实地数据收集才能产生足够深的谱系的研究。最后，一些潜在的应用基因组预测在野生种群进行了讨论。
Genomic prediction, the technique whereby an individual's genetic component of their phenotype is estimated from its genome, has revolutionised animal and plant breeding and medical genetics. However, despite being first introduced nearly two decades ago, it has hardly been adopted by the evolutionary genetics community studying wild organisms. Here, genomic prediction is performed on eight traits in a wild population of Soay sheep. The population has been the focus of a >30 year evolutionary ecology study and there is already considerable understanding of the genetic architecture of the focal Mendelian and quantitative traits. We show that the accuracy of genomic prediction is high for all traits, but especially those with loci of large effect segregating. Five different methods are compared, and the two methods that can accommodate zero‐effect and large‐effect loci in the same model tend to perform best. If the accuracy of genomic prediction is similar in other wild populations, then there is a real opportunity for pedigree‐free molecular quantitative genetics research to be enabled in many more wild populations; currently the literature is dominated by studies that have required decades of field data collection to generate sufficiently deep pedigrees. Finally, some of the potential applications of genomic prediction in wild populations are discussed.
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