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prediction of ibd based on population history for fine gene mapping预测基于人口历史的ibd优良基因映射.pdf

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prediction of ibd based on population history for fine gene mapping预测基于人口历史的ibd优良基因映射

Genet. Sel. Evol. 38 (2006) 231–252 231 c INRA, EDP Sciences, 2006 DOI: 10.1051/gse:2006001 Original article Prediction of IBD based on population history for ﬁne gene mapping Jules H-S∗, Chris S. H, ´ ´ John A. W Roslin Institute, Midlothian, EH25 9PS, Scotland, UK (Received 31 March 2005; accepted 19 December 2005) Abstract – A novel multiple regression method (RM) is developed to predict identity-by- descent probabilities at a locus L (IBDL ), among individuals without pedigree, given infor- mation on surrounding markers and population history. These IBDL probabilities are a function of the increase in linkage disequilibrium (LD) generated by drift in a homogeneous popula- tion over generations. Three parameters are suﬃcient to describe population history: eﬀective population size (Ne), number of generations since foundation (T ), and marker allele frequen- cies among founders (p ). IBDL are used in a simulation study to map a quantitative trait locus (QTL) via variance component estimation. RM is compared to a coalescent method (CM) in terms of power and robustness of QTL detection. Diﬀerences between RM and CM are small but signiﬁcant. For example, RM is more powerful than CM in dioecious populations, but not in monoecious populations. Moreov