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浙江大学学报（农业与生命科学版）
浙江大学学报(农业与生命科学版)  2014, Vol. 40 Issue (4): 387-396    DOI: 10.3785/j.issn.1008-9209.2014.04.213
论文     
基于四交群体的连锁图谱构建（英文）
蒋蓓蓓1， 余世洲1， 肖炳光2*， 楼向阳3， 徐海明1,4
（1.浙江大学农业与生物技术学院生物信息学研究所，杭州 310058；2.云南省烟草农业科学研究院，昆明 650031；3.阿拉巴马大学伯明翰分校生物统计系，伯明翰 AL 35294，美国；4.浙江大学空气污染与健康研究中心，杭州 310058）
Constructing linkage map based on a four-way cross population
Jiang Beibei1， Yu Shizhou1， Xiao Bingguang2*， Lou Xiangyang3， Xu Haiming1,4
(1. Institute of Bioinformatics， College of Agriculture and Biotechnology， Zhejiang University， Hangzhou 310058， China; 2. Yunnan Academy of Tobacco Agricultural Sciences， Kunming 650031， China; 3. Department of Biostatistics，University of Alabama at Birmingham，Birmingham，AL 35294， USA; 4. Research Center for Air Pollution and Health, Zhejiang University, Hangzhou 310058, China)
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摘要： 目前，遗传连锁图谱构建主要基于两纯系亲本交配的衍生群体，存在遗传多样性不足等局限，不适合于烟草等基因组多样性较低的物种，因为往往没有足够的多态性标记可用于图谱的构图，稀疏的标记图谱很难有效用于标记辅助选择及基因定位.本研究提出了基于四交群体的遗传图谱构建方法，通过计算机模拟验证了该方法的可行性和有效性，研制了配套的计算机分析程序.该方法的主要步骤及特点如下：1）基于最大似然法估计成对标记间的遗传距离；2）基于标记距离矩阵进行聚类分析，将标记分成不同的类群（连锁群）；3）对每一连锁群，先确定连锁群两端的标记，再通过3标记间遗传距离的比较，将其他标记逐步插入到合适的排列位置，最终确定整个连锁群的标记顺序.蒙特卡洛模拟证实了该方法可行、有效，且适用于其他2个自交系亲本交配的衍生群体.
Abstract: Currently， developing genetic linkage map mostly use the derivedpopulations from crossing of two homogenous parents， which only covers limited genetic diversity and is inappropriate for some species， such as tobacco with lower diversity in genome. It is very general that there are no sufficient polymorphic markers to construct linkage map and ineffective to conduct marker-assisted selection （MAS） and quantitative trait locus (QTL) mapping based on lower density linkage map. This study proposed a method for developing genetic linkage map based on a four-way cross population. Computer simulation was conducted to investigate the feasibility and effectiveness of the method and a supporting program was designed. The main procedures and features of the proposed method were summarized as follows: 1） estimating genetic distance of any paired markers based on maximum likelihood method; 2） splitting all markers into different groups （linkage group） by cluster analysis based on genetic distance of markers; 3） for each linkage group， two end markers were first determined， then the marker order could be determined by inserting other markers in appropriate position by distance analysis of any three neighboring markers. Monte Carlo simulation showed that the proposed method is feasible， effective， and applicable in other derived populations from crossing of two homogenous parents.
出版日期: 2014-07-20
CLC:  Q 348  
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蒋蓓蓓
余世洲
肖炳光
楼向阳
徐海明

引用本文:

蒋蓓蓓， 余世洲， 肖炳光， 楼向阳， 徐海明. 基于四交群体的连锁图谱构建（英文）[J]. 浙江大学学报(农业与生命科学版), 2014, 40(4): 387-396.

Jiang Beibei， Yu Shizhou， Xiao Bingguang， Lou Xiangyang， Xu Haiming. Constructing linkage map based on a four-way cross population. Journal of Zhejiang University (Agriculture and Life Sciences), 2014, 40(4): 387-396.

链接本文:

http://www.zjujournals.com/agr/CN/10.3785/j.issn.1008-9209.2014.04.213    或    http://www.zjujournals.com/agr/CN/Y2014/V40/I4/387

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