Mixed linear model approach for mapping quantitative trait loci underlying crop seed traits

文献类型： 外文期刊

第一作者： Qi, T.

作者： Qi, T.;Jiang, B.;Zhu, Z.;Wei, C.;Zhu, S.;Xu, H.;Gao, Y.;Lou, X.

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期刊名称：HEREDITY （ 影响因子：3.821； 五年影响因子：4.553 ）

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收录情况： SCI

摘要： The crop seed is a complex organ that may be composed of the diploid embryo, the triploid endosperm and the diploid maternal tissues. According to the genetic features of seed characters, two genetic models for mapping quantitative trait loci (QTLs) of crop seed traits are proposed, with inclusion of maternal effects, embryo or endosperm effects of QTL, environmental effects and QTL-by-environment (QE) interactions. The mapping population can be generated either from double back-cross of immortalized F 2 (IF 2) to the two parents, from random-cross of IF 2 or from selfing of IF 2 population. Candidate marker intervals potentially harboring QTLs are first selected through one-dimensional scanning across the whole genome. The selected candidate marker intervals are then included in the model as cofactors to control background genetic effects on the putative QTL(s). Finally, a QTL full model is constructed and model selection is conducted to eliminate false positive QTLs. The genetic main effects of QTLs, QE interaction effects and the corresponding P-values are computed by Markov chain Monte Carlo algorithm for Gaussian mixed linear model via Gibbs sampling. Monte Carlo simulations were performed to investigate the reliability and efficiency of the proposed method. The simulation results showed that the proposed method had higher power to accurately detect simulated QTLs and properly estimated effect of these QTLs. To demonstrate the usefulness, the proposed method was used to identify the QTLs underlying fiber percentage in an upland cotton IF 2 population. A computer software, QTLNetwork-Seed, was developed for QTL analysis of seed traits.

分类号： Q3

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