横向基因转移简单模型的可辨识性
Identifiability of a Simple Model of Lateral Gene Transfer
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中文总结 AI 辅助
本研究针对横向基因转移提出一种基于位点模式的模型，证明在转移限于近缘物种时，可从SNP数据辨识物种树的无根拓扑，并利用展平矩阵秩及奇异值分解实现。
中文摘要 AI 辅助
在进化生物学中，横向基因转移等因素使生命之树复杂化，增加了物种树推断的难度。横向基因转移现象允许遗传物质在生物体之间传递，而非通过遗传继承，这导致特定基因的树与物种树不同。在本研究中，我们基于位点模式定义了一个横向基因转移模型。在横向基因转移仅限于密切相关的物种之间发生的情况下，我们证明了物种树的无根拓扑结构可以从分类群的SNP数据中辨识出来。我们的证明过程展示了我们的横向基因转移模型与相关树上的图模型之间的联系，并利用展平矩阵的秩来识别树中的分裂。我们还报告了在模拟数据中，使用展平矩阵的奇异值分解来识别无根拓扑结构的结果。
英文摘要
In evolutionary biology, factors like lateral gene transfer complicate the tree of life, making inference of a species tree more difficult. The phenomenon of lateral gene transfer allows genetic material to be passed between organisms as opposed to inheritance, causing the tree for a particular gene to differ from the species tree. In this work, we define a model of lateral gene transfer on site patterns. In the case where lateral gene transfer is restricted to occur only between closely related species, we show that the unrooted topology of the species tree is identifiable from SNP data on the taxa. Our proof involves showing a connection between our lateral gene transfer model and graphical models on a related tree, and uses ranks of flattenings to identify splits in the tree. We also report on results of using the singular value decomposition on flattening matrices to identify the unrooted topology in simulated data.
发表机构
- North Carolina State University（北卡罗来纳州立大学）
机构由 AI 辅助整理，请以论文原文为准。
