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Mapping Quantitative Trait Loci in Plant Breeding Populations

Use of Parental Haplotype Sharing

Ritsert C. Jansen*,a, Jean-Luc Janninkb and William D. Beavisc

a Groningen Bioinformatics Centre, Inst. of Mathematics and Computing Sci., POB 800, NL-9700 AV, Groningen, The Netherlands
b Dep. of Agronomy, Iowa State Univ., Ames, IA 50011-1010, USA
c NCGR, 2935 Rodeo Park Drive East, Santa Fe, NM 87505, USA



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  		Fig. 1. Results from two simulation studies of 60 related plant breeding F2:3 populations and 200 random markers on a 2000-cM genome and with unlinked quantitative trait loci (QTLs) on each of chromosomes 1 to 5. (a) Parent pairs of the crosses were 10% related, but originated from a base population with medium linkage disequilibrium level. Each population consisted of 10 offspring. (b) Parent pairs of the crosses were 45% related, but originated from a base population with low linkage disequilibrium level. Each population consisted of 50 offspring; see main text for a complete description of the simulated configurations and for the appropriate definitions of QTL likelihood. IM, interval mapping; haploIM, haplotype interval mapping; haploMQM, haplotype multiple quantitative trait loci model; haploMQM-, reduced haplotype multiple quantitative trait loci model.

 




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