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Genetics, Vol. 175, 1955-1963, April 2007, Copyright © 2007
doi:10.1534/genetics.106.066571
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Department of Botany and Plant Sciences, University of California, Riverside, California 92521
1 Corresponding author: Department of Botany and Plant Sciences, University of California, 900 University Ave., Riverside, CA 92521.
E-mail: xu{at}genetics.ucr.edu
25 environments for seven quantitative traits: heading, height, kernel weight, lodging, maturity, test weight, and yield. We applied an empirical Bayes method that simultaneously estimates 127 main effects for all markers and 127(127–1)/2=8001 interaction effects for all marker pairs in a single model. We found that the largest main-effect QTL (single marker) and the largest epistatic effect (single pair of markers) explained
18 and 2.6% of the phenotypic variance, respectively. On average, the sum of all significant main effects and the sum of all significant epistatic effects contributed 35 and 6% of the total phenotypic variance, respectively. Epistasis seems to be negligible for all the seven traits. We also found that whether two loci interact does not depend on whether or not the loci have individual main effects. This invalidates the common practice of epistatic analysis in which epistatic effects are estimated only for pairs of loci of which both have main effects. This article has been cited by other articles:
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