Originally published as Genetics Published Articles Ahead of Print on December 1, 2005.

Genetics, Vol. 172, 1287-1300, February 2006, Copyright © 2006
doi:10.1534/genetics.105.047209

Identification of Quantitative Trait Loci Across Recombinant Inbred Lines and Testcross Populations for Traits of Agronomic Importance in Rice

Aiqing You*, Xinggui Lu{dagger}, Huajun Jin*, Xiang Ren*, Kai Liu{dagger}, Guocai Yang{dagger}, Haiyuan Yang*, Lili Zhu* and Guangcun He*,1

* The Key Laboratory for Developmental Biology, College of Life Sciences, Wuhan University, Wuhan 430072, China and {dagger} Hybrid Rice Research Center, Hubei Academy of Agricultural Sciences, Wuhan 430064, China

1 Corresponding author: College of Life Sciences, Wuhan University, Wuchang, Wuhan 430072, China.
E-mail: gche{at}whu.edu.cn

This study was conducted to determine whether quantitative trait loci (QTL) controlling traits of agronomic importance detected in recombinant inbred lines (RILs) are also expressed in testcross (TC) hybrids of rice. A genetic map was constructed using an RIL population derived from a cross between B5 and Minghui 63, a parent of the most widely grown hybrid rice cultivar in China. Four TC hybrid populations were produced by crossing the RILs with three maintaining lines for the widely used cytoplasmic male-sterile (CMS) lines and the genic male-sterile line Peiai64s. The mean values of the RILs for the seven traits investigated were significantly correlated to those of the F1 hybrids in the four TC populations. Twenty-seven main-effect QTL were identified in the RILs. Of these, the QTL that had the strongest effect on each of the seven traits in the RILs was detected in two or more of the TC populations, and six other QTL were detected in one TC population. Epistatic analysis revealed that the effect of epistatic QTL was relatively weak and cross combination specific. Searching publicly available QTL data in rice revealed the positional convergence of the QTL with the strongest effect in a wide range of populations and under different environments. Since the main-effect QTL is expressed across different testers, and in different genetic backgrounds and environments, it is a valuable target for gene manipulation and for further application in rice breeding. When a restorer line that expresses main-effect QTL is bred, it could be used in a number of cross combinations.