title: Constructing linkage map based on a four-way cross population.
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.
authors.affiliation: Institute of Bioinformatics, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China.
authors.forename: Jiang
authors.initials: J
authors.lastname: Beibei
authors.affiliation: Institute of Bioinformatics, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China.
authors.forename: Yu
authors.initials: Y
authors.lastname: Shizhou
authors.affiliation: Yunnan Academy of Tobacco Agricultural Sciences, Kunming 650031, China.
authors.forename: Xiao
authors.initials: X
authors.lastname: Bingguang
authors.affiliation: Department of Biostatistics, University of Alabama at Birmingham, Birmingham, AL 35294, USA.
authors.forename: Lou
authors.initials: L
authors.lastname: Xiangyang
authors.affiliation: Institute of Bioinformatics, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China ; Research Center for Air Pollution and Health, Zhejiang University, Hangzhou 310058, China.
authors.forename: Xu
authors.initials: X
authors.lastname: Haiming
keywords: Monte Carlo simulation; four-way cross population; genetic distance; genetic map; linkage analysis