Comparing the performance of analytical techniques for genetic PARENTAGE of half-sib progeny arrays.
Comparing the performance of analytical techniques for genetic PARENTAGE of half-sib progeny arrays.
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DOI：
10.1017/s0016672309990231
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发表时间：
2009-10
影响因子：
1.5
通讯作者：
D. Croshaw;Maureen B. Peters;T. Glenn
中科院分区：
文献类型：
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作者：
D. Croshaw;Maureen B. Peters;T. Glenn
自然种群中雌性多次交配的普遍性对交配系统进化中的许多问题都很重要。几种统计技术使用遗传数据来估计为后代贡献配子的父亲的数量，但它们尚未被广泛比较，以评估其性能差异的大小。结合新的数据和对以前发表的数据的重新分析，我们比较了五种分析方法：（1）等位基因计数，（2）GERUD中的亲本重建，（3）贝叶斯概率模型估计多次交配频率（FMM），（4）基于单倍型中群体等位基因频率的计算机模拟和（5）PARENTAGE中的贝叶斯亲本重建。结果表明，选择的分析技术可以显着影响公畜数的估计。从GERUD的估计完全符合从严格排除潜在的父系在实验背景下获得的结果。然而，单倍型和亲本产生的估计值有时会分别超过GERUD的120%和55%。在大多数情况下，我们推荐GERUD而不是其他方法，因为它在分析中的准确性和一致性。我们的新的遗传数据集，使我们能够调查的程度和频率，在大理石纹蝾螈（Ambystoma opacum）人口在南卡罗来纳州，美国的多重父系。A. opacum与其他蝾螈物种相比，具有相对较低的多重父权水平（只有31-54%，而71-96%）。虽然A. opacum具有最低水平的多重亲子关系，在这里使用的所有分析方法下，物种之间的差异程度各不相同。
The prevalence of female multiple mating in natural populations is important for many questions in mating system evolution. Several statistical techniques use genetic data to estimate the number of fathers that contribute gametes to broods, but they have not been widely compared to assess the magnitude of differences in their performance. With a combination of new data and reanalysis of previously published data, we compared five analytical approaches: (1) allele-counting, (2) parental reconstruction in GERUD, (3) a Bayesian probability model to estimate the frequency of multiple mating (FMM), (4) computer simulations based on population allele frequencies in HAPLOTYPES and (5) Bayesian parental reconstruction in PARENTAGE. The results show that choice of analysis technique can significantly affect estimates of sire number. Estimates from GERUD conformed exactly to results obtained from strict exclusion of potential sires in an experimental context. However, estimates yielded by HAPLOTYPES and PARENTAGE sometimes exceeded the numbers from GERUD by as much as 120 and 55%, respectively. We recommend GERUD over these other approaches for most purposes because of its accuracy and consistency in this analysis. Our novel genetic data set allowed us to investigate the extent and frequency of multiple paternity in a marbled salamander (Ambystoma opacum) population in South Carolina, USA. A. opacum contrasted with other salamander species by having relatively low levels of multiple paternity (only 31-54% compared with 71-96%). Although A. opacum had the lowest level of multiple paternity under all analytical approaches used here, the magnitude of differences among species varied.