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首页> 外文期刊>Genome >Estimating a founder's genomic proportion for each descendant in an outbred pedigree.
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Estimating a founder's genomic proportion for each descendant in an outbred pedigree.

机译：估计远亲家谱中每个后代的创始人的基因组比例。

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摘要

The question of how to estimate a founder's proportion of a single descendant's genome has renewed relevance for outbred pedigrees, given the abundant DNA sequence data for model and nonmodel eukaryotes alike. Here we show that a donor-recurrent shortcut method can provide a robust estimation of founder proportions. In addition, we define the theoretical variance and estimate confidence intervals using a nonparameteric bootstrap method. Using actual marker data from a highly heterozygous outbred Pinus taeda pedigree, it was found that each founder's genomic proportion varied widely for each descendant, ranging from 8.8% to 38.7%. In 1 case, skewed transmission of a founder's genome could be statistically detected. Its founder proportions ranged from 1.54% to 48.46%, and its mean value was 17.59%, well below the expected value of 25%. Two-thirds of its 91 descendants had 1 or the other founder haplotype, despite 2 successive meioses. The donor-recurrent method was robust; variation for estimated founder's proportions was also wide for simulated high-density datasets whether markers were dispersed or clustered. Estimating founder contributions using this computational shortcut has broad application for highly heterozygous outbred pedigrees characterized by large sibships, low population differentiation, and shallow physical mapping resources. The relevance of this computational shortcut for outbred populations used for conservation, domestication, and evolutionary biology research is discussed.
机译：鉴于模型和非模型真核生物都拥有丰富的DNA序列数据，如何估计单个后代基因组的创建者比例的问题与近亲谱系有了新的关联。在这里，我们显示出供体循环快捷方法可以为创建者比例提供可靠的估计。此外，我们定义了理论方差，并使用非参数自举法估计了置信区间。使用来自高度杂合的远交松阔谱系谱系的实际标记数据，发现每个创始人的基因组比例在每个后代中差异很大，范围从8.8％到38.7％。在1种情况下，可以通过统计方法检测创始人基因组的偏斜传播。其创始人比例在1.54％至48.46％之间，平均值为17.59％，远低于预期的25％。尽管有2个连续的求偶基因，它的91个后代中有三分之二具有1个或另一个创始人单倍型。供体循环法是可靠的。无论标记是分散的还是聚类的，对于模拟的高密度数据集，估计的创始人比例的变化也很大。使用这种计算捷径来估算创始人的贡献已广泛应用于以大同胞，低种群分化和浅层物理制图资源为特征的高度杂合的远交系谱系。讨论了此计算捷径与用于保存，驯化和进化生物学研究的近交种群的相关性。

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