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Computational characterization of double reduction in autotetraploid natural populations
The Plant Journal ( IF 7.2 ) Pub Date : 2020-12-09 , DOI: 10.1111/tpj.15126
Libo Jiang 1, 2 , Xiangyu Ren 1, 2 , Rongling Wu 1, 2, 3
Affiliation  

Population genetic theory has been well developed for diploid species, but its extension to study genetic diversity, variation and evolution in autopolyploids, a class of polyploids derived from the genome doubling of a single ancestral species, requires the incorporation of multisomic inheritance. Double reduction, which is characteristic of autopolyploidy, has long been believed to shape the evolutionary consequence of organisms in changing environments. Here, we develop a computational model for testing and estimating double reduction and its genomic distribution in autotetraploids. The model is implemented with the expectation–maximization (EM) algorithm to dissect unobservable allelic recombinations among multiple chromosomes, enabling the simultaneous estimation of allele frequencies and double reduction in natural populations. The framework fills an important gap in the population genetic theory of autopolyploids.

中文翻译:

同源四倍体自然种群双重减少的计算表征

二倍体物种的种群遗传理论已经得到很好的发展,但其扩展到研究同源多倍体的遗传多样性、变异和进化,一类多倍体来源于单个祖先物种的基因组加倍,需要纳入多体遗传。双重减少是同源多倍体的特征,长期以来一直被认为会影响生物体在不断变化的环境中的进化结果。在这里,我们开发了一个计算模型,用于测试和估计双还原及其在同源四倍体中的基因组分布。该模型通过期望最大化 (EM) 算法实现,以剖析多条染色体之间不可观察的等位基因重组,从而能够同时估计等位基因频率和自然种群的双重减少。
更新日期:2020-12-09
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