A generalized framework for AMOVA with multiple hierarchies and ploidies
A generalized framework for AMOVA with multiple hierarchies and ploidies
复制标题
具有多个层次结构和倍体的 AMOVA 通用框架
DOI：
10.1111/1749-4877.12460
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发表时间：
2020-08-17
影响因子：
3.3
通讯作者：
Li, Baoguo
中科院分区：
文献类型：
--
作者：
Huang, Kang;Wang, Tiantian;Li, Baoguo
分子方差分析（AMOVA）是一种在群体遗传学和分子生态学中广泛应用的统计方法。AMOVA的经典框架只支持单倍体和二倍体数据，其中层次的数量从2到4不等。在实践中，自然种群可以分为更多的等级，多倍体是常见的现存物种。倍性水平甚至可以在相同物种内和/或在相同个体内变化。我们推广了AMOVA的框架，使得它可以用于任何数量的层次结构和任何倍性水平。基于这个框架，我们提出了四种方法来解释数据是多位点基因型和等位基因表型（未知的等位基因剂量）。我们使用模拟数据集和经验数据集来评估我们的框架的性能。我们在一个新的软件包polygene中免费提供我们的方法，该软件包可在。
The analysis of molecular variance (AMOVA) is a widely used statistical method in population genetics and molecular ecology. The classic framework of AMOVA only supports haploid and diploid data, in which the number of hierarchies ranges from two to four. In practice, natural populations can be classified into more hierarchies, and polyploidy is frequently observed in extant species. The ploidy level may even vary within the same species, and/or within the same individual. We generalized the framework of AMOVA such that it can be used for any number of hierarchies and any level of ploidy. Based on this framework, we present four methods to account for data that are multilocus genotypic and allelic phenotypic (with unknown allele dosage). We use simulated datasets and an empirical dataset to evaluate the performance of our framework. We make freely available our methods in a new software package,polygene, which is freely available at .