The impact of library preparation protocols on the consistency of allele frequency estimates in Pool-Seq data.
The impact of library preparation protocols on the consistency of allele frequency estimates in Pool-Seq data.
复制标题
库准备协议对池序列数据中等位基因频率估计的一致性的影响。
DOI：
10.1111/1755-0998.12432
复制
发表时间：
2016-01
影响因子：
7.7
通讯作者：
Schlötterer C
中科院分区：
文献类型：
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作者：
Kofler R;Nolte V;Schlötterer C
个体测序池（Pool‐Seq）是一种确定全基因组等位基因频率估计的经济有效的方法。鉴于结合数据集的荟萃分析的重要性，我们确定了不同基因组文库制备方案对等位基因频率估计一致性的影响。我们发现，通常不超过 1% 的等位基因频率估计变异可归因于文库制备的差异。此外，读长对等位基因频率估计的一致性只有很小的影响。到目前为止，最显着的影响可归因于序列覆盖率。将覆盖范围从 30 倍增加到 50 倍，等位基因频率估计的一致性至少提高了 27%。我们的结论是，Pool‐Seq 数据可以轻松地跨不同的文库制备方法组合，但足够的序列覆盖率是可靠结果的关键。
Sequencing pools of individuals (Pool‐Seq) is a cost‐effective method to determine genome‐wide allele frequency estimates. Given the importance of meta‐analyses combining data sets, we determined the influence of different genomic library preparation protocols on the consistency of allele frequency estimates. We found that typically no more than 1% of the variation in allele frequency estimates could be attributed to differences in library preparation. Also read length had only a minor effect on the consistency of allele frequency estimates. By far, the most pronounced influence could be attributed to sequence coverage. Increasing the coverage from 30‐ to 50‐fold improved the consistency of allele frequency estimates by at least 27%. We conclude that Pool‐Seq data can be easily combined across different library preparation methods, but sufficient sequence coverage is key to reliable results.