本项目以细胞核DNA标记为研究对象，在前期研究基础上，采取以计算模拟方法为主和真实数据分析为辅的研究手段，分析二倍体生物大样本谱系遗传研究中细胞核DNA 标记的单倍型错误发生情况和影响因素,并系统研究单倍型错误对谱系遗传分析的影响。在此基础上，综合研究多标记研究系统如何克服或减少单倍型错误影响的方法。本项目的研究对于细胞核DNA 标记的实际应用具有重要借鉴意义。我们在前期实验中已经获取了5个细胞核DNA 标记的大样本种群单倍型数据，并对这些真实数据和部分模拟数据进行了初步的单倍型错误研究。

Single copy nuclear polymorphic (scnp) DNA is a powerful molecular marker for evolutionary studies of populations. Phylogeography has expanded its focus to scnp DNA markers because the multi-locus analyses can provide considerable improvements in strength and accuracy of historical inference. However, a practical obstacle to its employment is the general problem of haplotype determination due to the common occurrence of heterozygosity in diploid organisms. The general protocol for obtaining haplotypes from scnp DNA markers consists of three steps: direct sequencing of PCR products, haplotype inference and experimental verification of uncertain inferrals. This process will inevitably produce haplotype error due to various genetic and non-genetics factors. Howerver, haplotype error under realistic scenarios and its impact on phylogeography analysis are not well understood, particularly for real data situations. Our previous studies indicated that haplotype error should not be ignored because it can cause bias in estimates of population genetic parameters and genealogical relationships. The aim of the research project proposed here is thus to evaluate systematically the impact of haplotye error on various phylogeographic analyses by coalescent simulation methods, intending to find a method to reduce the impact of haplotype error in multi-locus phylogeographic study.