Chinese Academy of Sciences (CAS) Key Laboratory of Computational Biology, Max Planck Independent Research Group on Population Genomics, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, 200031, China.
University of Chinese Academy of Sciences, Beijing 100049, China.
Sci Rep. 2017 Feb 23;7:43054. doi: 10.1038/srep43054.
Recent migrations and inter-ethnic mating of long isolated populations have resulted in genetically admixed populations. To understand the complex population admixture process, which is critical to both evolutionary and medical studies, here we used admixture induced linkage disequilibrium (LD) to infer continuous admixture events, which is common for most existing admixed populations. Unlike previous studies, we expanded the typical continuous admixture model to a more general scenario with isolation after a certain duration of continuous gene flow. Based on the new models, we developed a method, CAMer, to infer the admixture history considering continuous and complex demographic process of gene flow between populations. We evaluated the performance of CAMer by computer simulation and further applied our method to real data analysis of a few well-known admixed populations.
近期的人口迁移和长期隔离种群之间的杂交导致了基因混合种群的出现。为了理解复杂的种群混合过程，这对进化和医学研究都至关重要，我们在这里使用混合诱导连锁不平衡（LD）来推断连续的混合事件，这在大多数现有的混合群体中很常见。与以前的研究不同，我们将典型的连续混合模型扩展到了一个更一般的场景，即在连续基因流动一定时间后发生隔离。基于新模型，我们开发了一种方法 CAMer，用于推断混合历史，同时考虑了种群之间连续和复杂的基因流动的人口统计过程。我们通过计算机模拟评估了 CAMer 的性能，并进一步将我们的方法应用于几个知名混合人群的实际数据分析。
