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Journal of Integrative Agriculture  2016, Vol. 15 Issue (11): 2437-2450    DOI: 10.1016/S2095-3119(15)61311-9
Crop Genetics · Breeding · Germplasm Resources Advanced Online Publication | Current Issue | Archive | Adv Search |
Comparison and analysis of QTLs for grain and hull thickness related traits in two recombinant inbred line (RIL) populations in rice (Oryza sativa L.)
YAO Xiao-yun, WANG Jia-yu, LIU Jin, WANG Wei, YANG Sheng-long, ZHANG Yu, XU Zheng-jin
Key Laboratory of Northeast Rice Biology and Breeding, Ministry of Agriculture/Rice Research Institute, Shenyang Agricultural University, Shenyang 110866, P.R.China
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Abstract      Grain traits are major constraints in rice production, which are key factors in determining grain yield and market values. This study used two recombinant inbred line (RIL) populations, RIL-JJ (japonica/japonica) and RIL-IJ (indica/japonica) derived from the two crosses Shennong 265/Lijiangxintuanheigu (SN265/LTH) and Shennong 265/Luhui 99 (SN265/LH99). Sixty-eight quantitative trait loci (QTLs) associated with 10 grain traits were consistently detected on the 12 chromosomes across different populations and two environments. Although 61.75% of the QTLs clustered together across two populations, only 16.17% could be detected across two populations. Eight major QTLs were detected on the 9, 10 and 12 chromosomes in RIL-JJ under two environments, a novel QTL clustered on the 10 chromosome, qGT10, qBT10 and qTGW10, have a higher percentage of explained phenotypic variation (PVE) and additive effect; 15 major QTLs were detected on the 5, 8, 9, and 11 chromosomes in RIL-IJ under two environments, a novel clustered QTL, qGT8 and qTGW8, on the 8 chromosome have a higher additive effect. Finally, the analysis of major QTL-BSA mapping narrowed the qTGW10 to a 1.47-Mb region flanked by simple sequence repeat markers RM467 and RM6368 on chromosome 10. A comparison of QTLs for grain traits in two different genetic backgrounds recombinant inbred line populations confirmed that genetic background had a significant impact on grain traits. The identified QTLs were stable across different populations and various environments, and 29.42% of QTLs controlling grain traits were reliably detected in different environments. Fewer QTLs were detected for brown rice traits than for paddy rice traits, 7 and 17 QTLs brown rice out of 25 and 43 QTLs under RIL-JJ and RIL-IJ populations, respectively. The identification of genes constituting the QTLs will help to further our understanding of the molecular mechanisms underlying grain shape.
Keywords:  paddy rice        brown rice        hull thickness        genetic backgrounds        QTL mapping        rice (Oryza sativa L.)  
Received: 11 September 2015   Accepted: 04 November 2016

This research was supported by the National Natural Science Foundation of China (31371586) and the Program for Liaoning Excellent Talents in University, China (LJQ2013075).

Corresponding Authors:  WANG Jia-yu, Tel/Fax: +86-24-88487184, E-mail:   
About author:  YAO Xiao-yun, E-mail:

Cite this article: 

YAO Xiao-yun, WANG Jia-yu, LIU Jin, WANG Wei, YANG Sheng-long, ZHANG Yu, XU Zheng-jin. 2016. Comparison and analysis of QTLs for grain and hull thickness related traits in two recombinant inbred line (RIL) populations in rice (Oryza sativa L.). Journal of Integrative Agriculture, 15(11): 2437-2450.

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