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Evaluation of Reciprocal Cross Design on Detection and Characterization of Mendelian QTL in F2 Outbred Populations |
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Yun-Mi Lee, Eun-Hee Kim, Jong-Joo Kim* |
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Correspondence:
Jong-Joo Kim,
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| Abstract |
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A simulation study was conducted to evaluate the effect of reciprocal cross on the detection and characterization of Mendelian QTL in F2 QTL swine populations. Data were simulated under two different mating designs. In the one-way cross design, six F0 grand sires of one breed and 30 F0 grand dams of another breed generated 10 F1 offspring per dam. Sixteen F1 sires and 64 F1 dams were randomly chosen to produce a total of 640 F2 offspring. In the reciprocal design, three F0 grand sires of A breed and 15 F0 grand dams of B breed were mated to generate 10 F1 offspring per dam. Eight F1 sires and 32 F1 dams were randomly chosen to produce 10 F2 offspring per F1 dam, for a total of 320 F2 offspring. Another mating set comprised three F0 grand sires of B breed and 15 F0 grand dams of A breed to produce the same number of F1 and F2 offspring. A chromosome of 100 cM was simulated with large, medium or small QTL with fixed, similar, or different allele frequencies in parental breeds. Tests between Mendelian models allowed QTL to be characterized as fixed (LC QTL), or segregating at similar (HS QTL) or different (CB QTL) frequencies in parental breeds. When alternate breed alleles segregated in parental breeds, a greater proportion of QTL were classified as CB QTL and estimates of QTL effects for the CB QTL were more unbiased and precise in the reciprocal cross than in the one-way cross. This result suggests that reciprocal cross design allows better characterization of Mendelian QTL in terms of allele frequencies in parental breeds. |
| Keywords:
Quantitative Trait Loci; Swine; Detection Power; Reciprocal Cross |
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