Reconstructing sibling relationships in wild populations
Reconstructing sibling relationships in wild populations
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DOI：
10.1093/bioinformatics/btm219
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发表时间：
2007-07-01
期刊：
影响因子：
5.8
通讯作者：
Putrevu, S. Lahari
中科院分区：
文献类型：
--
作者：
Berger-Wolf, Tanya Y.;Sheikh, Saad I.;Putrevu, S. Lahari
从遗传数据中重建兄弟姐妹关系是许多生物学应用的重要组成部分。特别是，分子标记（微卫星）越来越多地应用于研究野生动植物种群，这就需要新的计算方法来建立这些种群中个体之间的系谱关系，例如兄弟姐妹群。目前大多数从微卫星数据重建兄弟关系的方法使用统计和启发式技术，这些技术依赖于各种参数分布的先验知识。此外，这些方法是为具有大量采样位点和小家族群体的数据而设计的，这两种情况通常不适用于野生种群。我们提出了一种确定性技术，即仅使用孟德尔遗传定律就能简洁地重建兄弟姐妹群体。我们使用模拟和真实的生物学数据验证了我们的方法，并将其与其他方法进行了比较。该方法在实际数据上具有较高的精度，在基因座少、家族群大的模拟数据上优于其他方法。这是唯一一种不依赖于被研究人群的先验知识的方法。因此，我们的方法特别适合于重建野生种群中的兄弟群体。
Reconstruction of sibling relationships from genetic data is an important component of many biological applications. In particular, the growing application of molecular markers (microsatellites) to study wild populations of plant and animals has created the need for new computational methods of establishing pedigree relationships, such as sibgroups, among individuals in these populations. Most current methods for sibship reconstruction from microsatellite data use statistical and heuristic techniques that rely on a priori knowledge about various parameter distributions. Moreover, these methods are designed for data with large number of sampled loci and small family groups, both of which typically do not hold for wild populations. We present a deterministic technique that parsimoniously reconstructs sibling groups using only Mendelian laws of inheritance. We validate our approach using both simulated and real biological data and compare it to other methods. Our method is highly accurate on real data and compares favorably with other methods on simulated data with few loci and large family groups. It is the only method that does not rely on a priori knowledge about the population under study. Thus, our method is particularly appropriate for reconstructing sibling groups in wild populations.