Reconstructing the duplication history of tandemly repeated genes
Reconstructing the duplication history of tandemly repeated genes
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DOI：
10.1093/oxfordjournals.molbev.a004081
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发表时间：
2002-03-01
影响因子：
10.7
通讯作者：
Lefranc, MP
中科院分区：
文献类型：
--
作者：
Elemento, O;Gascuel, O;Lefranc, MP
本文提出了一种诺埃尔的方法来处理串联重复基因的复制历史的重建问题，这种复制历史是由不平等重组引起的。本文首先描述了串联重复进化的数学模型，并介绍了复制历史和复制树。然后，我们提供了一个简单的递归算法，它确定是否一个给定的根重复调用是一个重复的历史和另一种算法，模拟不平等的重组过程，并根据最大简约准则搜索最佳的重复树。我们使用人类免疫球蛋白和T细胞受体的真实的数据集来验证我们的方法和算法。最简约的重复树和最简约的具有相同数据的关于韧皮部的额外知识的重复树之间的身份。与关于序列的额外知识（例如多态性的存在）的一致性相结合，显示了强有力的证据，即我们的重建程序提供了对基因座的复制历史的良好洞察。
We present a noel approach to deal with the problem of reconstructing, the duplication history of tandemly repeated genes that are supposed to have arisen from unequal recombination, We first describe the mathematical model of evolution by tandem duplication and introduce duplication histories and duplication trees. We then provide a simple recursive algorithm which determines whether or not a given rooted phylogeny call be a duplication history and another algorithm that simulates the unequal recombination process and searches for the best duplication trees according to the maximum parsimony criterion. We use real data sets of human immunglobulins and T-cell receptor, to validate Our methods and algorithms. Identity between most parsimonious duplication trees and most parsimonious with additional knowledge about phlogenies for the same data. combined with the agreement with additional knowledge about sequences, such as the presence of polymorphisms, shows strong evidence that our reconstruction procedure provides good insights into the duplication histories of the loci.