细菌基因组同源重组：量化与鉴定

doi:10.16288/j.yczz.15-382

遗传 ›› 2016, Vol. 38 ›› Issue (2): 137-143.doi: 10.16288/j.yczz.15-382

细菌基因组同源重组：量化与鉴定

杨献伟,杨瑞馥,崔玉军

军事医学科学院微生物流行病研究所,病原微生物生物安全国家重点实验室,北京 100071

收稿日期:2015-09-08 修回日期:2015-12-04 出版日期:2016-02-20 发布日期:2015-12-30
通讯作者: 崔玉军,副研究员,硕士生导师,研究方向：病原细菌基因组学与进化。E-mail: cuiyujun.new@gmail.com
作者简介:杨献伟,硕士生,专业方向：病原细菌基因组学与进化。E-mail: yangxianwei1988@163.com
基金资助:
国家“十二五”科技重大专项(编号：2012ZX10004215)和国家自然科学基金(编号：31430006)[Supported by the National Key Program for Infectious Diseases of China (No; 2012ZX10004215) and the National Natural Science Foundation of China (No; 31430006)]

Homologous recombination among bacterial genomes: the measurement and identification

Xianwei Yang, Ruifu Yang, Yujun Cui

State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, China

Received:2015-09-08 Revised:2015-12-04 Online:2016-02-20 Published:2015-12-30

摘要/Abstract

摘要： 同源重组(Homologous recombination)是塑造细菌群体多样性的重要原因之一。遗传物质通过同源重组在细菌不同种系间进行水平转移,打乱了克隆繁殖形成的竖向系统发育结构,从而为系统发育重建和种群结构判定带来困难。本文讨论了同源重组对系统发育分析和进化研究的影响,从实际应用的角度对量化重组程度和鉴定重组事件的常用软件及方法进行了综述,归纳了各软件工具和模型方法的优缺点,旨在对细菌重组分析和种群进化研究有所借鉴。

关键词: 同源重组, 克隆, 基因组, 系统发育, 种群结构

Abstract: Homologous recombination is one of important sources in shaping the bacterial population diversity, which disrupts the clonal relationship among different lineages through horizontal transferring of DNA-segments. As consequence of blurring the vertical inheritance signals, the homologous recombination raises difficulties in phylogenetic analysis and reconstruction of population structure. Here we discuss the impacts of homologous recombination in inferring phylogenetic relationship among bacterial isolates, and summarize the tools and models separately used in recombination measurement and identification. We also highlight the merits and drawbacks of various approaches, aiming to assist in the practical application for the analysis of homologous recombination in bacterial evolution research.

Key words: homologous recombination, clonal, genome, phylogenetic, population structure

杨献伟,杨瑞馥,崔玉军. 细菌基因组同源重组：量化与鉴定[J]. 遗传, 2016, 38(2): 137-143.

Xianwei Yang, Ruifu Yang, Yujun Cui. Homologous recombination among bacterial genomes: the measurement and identification[J]. HEREDITAS(Beijing), 2016, 38(2): 137-143.

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细菌基因组同源重组：量化与鉴定

Homologous recombination among bacterial genomes: the measurement and identification

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