Linkage Analysis and Map Construction in Genetic Populations of Clonal F-1 and Double Cross

文献类型： 外文期刊

第一作者： Zhang, Luyan

作者： Zhang, Luyan;Li, Huihui;Wang, Jiankang

作者机构：

关键词： clonal F-1;double cross;recombination frequency;linkage analysis;map construction

期刊名称：G3-GENES GENOMES GENETICS （ 影响因子：3.154； 五年影响因子：3.369 ）

ISSN： 2160-1836

年卷期： 2015 年 5 卷 3 期

页码：

收录情况： SCI

摘要： In this study, we considered four categories of molecular markers based on the number of distinguishable alleles at the marker locus and the number of distinguishable genotypes in clonal F-1 progenies. For two marker loci, there are nine scenarios that allow the estimation of female, male, and/or combined recombination frequencies. In a double cross population derived from four inbred lines, five categories of markers are classified and another five scenarios are present for recombination frequency estimation. Theoretical frequencies of identifiable genotypes were given for each scenario, from which the maximum likelihood estimates of one or more of the three recombination frequencies could be estimated. If there was no analytic solution, then Newton-Raphson method was used to acquire a numerical solution. We then proposed to use an algorithm in Traveling Salesman Problem to determine the marker order. Finally, we proposed a procedure to build the two haploids of the female parent and the two haploids of the male parent in clonal F-1. Once the four haploids were built, clonal F-1 hybrids could be exactly regarded as a double cross population. Efficiency of the proposed methods was demonstrated in simulated clonal F-1 populations and one actual maize double cross. Extensive comparisons with software JoinMap4.1, One-Map, and R/qtl show that the methodology proposed in this article can build more accurate linkage maps in less time.

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