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A population genetic study on dispersed repeated sequences in the genome

基因组中分散重复序列的群体遗传学研究

基本信息

批准号：
04640597
负责人：
TACHIDA Hidenori
金额：
$ 1.34万
依托单位：
KYUSHU UNIVERSITY
依托单位国家：
日本
项目类别：
Grant-in-Aid for General Scientific Research (C)
财政年份：
1992
资助国家：
日本
起止时间：
1992 至 1993
项目状态：
已结题

项目摘要

Dispersed repeated sequences with a large number of copies such as SINEs and LINEs are abundantly found in higher eukaryotic genomes. It is of great interest to know how these sequences are evolving and what biological functions they have. In the present study, population genetic models for this type of repeated sequences were developed and analyzed. Firstly, the probabilities of finding an element at a specific site in genomes sampled in various schemes are computed. From these probabilities, methods to estimate the period of the amplification and to calculate the probability of inferring an incorrect phylogenetic relationship were developed. These results were applied to the human Alu sequence data. Secondly, the sequence divergences were considered. Statistical methods and computer programs are developed to analyze the large database of human Alu which contains more than 3000 sequences compiled by Jurka. Although the analyzes have not been completed yet, the data suggest that the amplification is unlikely to be due to a very few master copies. Furthermore, the amplification periods and rates were estimated from these data. We need to complete the analysis and extend the analyzes to other families of retroposons using the methods developed in the present study. Furthermore, population genetic models incorporating selection are worthwhile considering in the future. Then, we would be able to infer the significance of these repeated sequences by comparing the expectation of the models and the data.

高等真核生物基因组中大量存在具有大量拷贝的分散重复序列，例如 SINE 和 LINE。了解这些序列是如何进化的以及它们具有什么生物学功能是非常有趣的。在本研究中，开发并分析了此类重复序列的群体遗传模型。首先，计算在以各种方案采样的基因组中的特定位点找到元素的概率。根据这些概率，开发了估计扩增周期和计算推断错误系统发育关系的概率的方法。这些结果应用于人类 Alu 序列数据。其次，考虑了序列分歧。开发了统计方法和计算机程序来分析 Jurka 编制的包含 3000 多个序列的人类 Alu 大型数据库。尽管分析尚未完成，但数据表明，放大不太可能是由于母版数量极少所致。此外，根据这些数据估计了扩增周期和速率。我们需要使用本研究中开发的方法完成分析并将分析扩展到其他反座子家族。此外，结合选择的群体遗传模型在未来值得考虑。然后，我们可以通过比较模型和数据的期望来推断这些重复序列的重要性。