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Journal of Heredity Advance Access originally published online on June 9, 2008
Journal of Heredity 2008 99(5):546-551; doi:10.1093/jhered/esn049
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© The American Genetic Association. 2008. All rights reserved. For permissions, please email: journals.permissions@oxfordjournals.org.

Experimental Designs and Statistical Methods for Mapping Quantitative Trait Loci Underlying Triploid Endosperm Traits without Maternal Genetic Variation

Yongxian Wen, and Weiren Wu

From the College of Crop Science, Fujian Agriculture & Forestry University, Fuzhou, Fujian 350002, People's Republic of China (Wen and Wu); the College of Computer and Information Science, Fujian Agriculture & Forestry University, Fuzhou, Fujian 350002, People's Republic of China (Wen); and the College of Agriculture & Biotechnology, Zhejiang University, Hangzhou, Zhejiang 310029, People's Republic of China (Wu)

Address correspondence to W. Wu at the address above, or e-mail: wrwu2005{at}yahoo.com.cn.

Many endosperm traits are related to grain quality in cereal crops. Endosperm traits are mainly controlled by the endosperm genome but may be affected by the maternal genome. Studies have shown that maternal genotypic variation could greatly influence the estimation of the direct effects of quantitative trait loci (QTLs) underlying endosperm traits. In this paper, we propose methods of interval mapping of endosperm QTLs using seeds of F2 or BC1 (an equal mixture of F1 x P1 and F1 x P2 with F1 as the female parent) derived from a cross between 2 pure lines (P1 x P2). The most significant advantage of our experimental designs is that the maternal effects do not contribute to the genetic variation of endosperm traits and therefore the direct effects of endosperm QTLs can be estimated without the influence of maternal effects. In addition, the experimental designs can greatly reduce environmental variation because a few F1 plants grown in a small block of field will produce sufficient F2 or BC1 seeds for endosperm QTL analysis. Simulation studies show that the methods can efficiently detect endosperm QTLs and unbiasedly estimate their positions and effects. The BC1 design is better than the F2 design.

Corresponding Editor: William Tracy

Received June 25, 2007
Accepted May 12, 2008


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