Estimating pairwise relatedness between individuals with different levels of ploidy
Estimating pairwise relatedness between individuals with different levels of ploidy
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DOI：
10.1111/1755-0998.12351
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发表时间：
2015-07
影响因子：
7.7
通讯作者：
Kang Huang;K. Ritland;Songtao Guo;D. Dunn;Dan Chen;Yi Ren;X. Qi;Pei Zhang;G. He;Baoguo Li
中科院分区：
文献类型：
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作者：
Kang Huang;K. Ritland;Songtao Guo;D. Dunn;Dan Chen;Yi Ren;X. Qi;Pei Zhang;G. He;Baoguo Li
基于遗传标记数据的相关系数的估计对于遗传学和生态学的研究常常是必要的。虽然二倍体生物存在许多基于矩法或最大似然法的估计值，但对于某些昆虫和植物物种中存在多倍性水平的生物，不存在此类估计值。在这里，我们扩展了五个估计来解释不同水平的倍性：一个相关系数估计，三个共祖系数估计和一个最大似然估计。我们使用的估计器性能的Monte Carlo模拟评估作为一个例子，在未受精卵发育成单倍体男性。此外，还模拟了三种虚拟性别决定系统，以评估它们在更高水平的倍性方面的性能。此外，我们使用两个真实的数据集，以测试这些估计在实际条件下的稳健性。我们提供了一个软件包，PolyRelatedness，供其他研究人员应用于具有不同倍性水平的生物体。
Estimates of relatedness coefficients, based on genetic marker data, are often necessary for studies of genetics and ecology. Whilst many estimates based on method‐of‐moment or maximum‐likelihood methods exist for diploid organisms, no such estimators exist for organisms with multiple ploidy levels, which occur in some insect and plant species. Here, we extend five estimators to account for different levels of ploidy: one relatedness coefficient estimator, three coefficients of coancestry estimators and one maximum‐likelihood estimator. We use arrhenotoky (when unfertilized eggs develop into haploid males) as an example in evaluations of estimator performance by Monte Carlo simulation. Also, three virtual sex‐determination systems are simulated to evaluate their performances for higher levels of ploidy. Additionally, we used two real data sets to test the robustness of these estimators under actual conditions. We make available a software package, PolyRelatedness, for other researchers to apply to organisms that have various levels of ploidy.