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Association mapping of grain color, phenolic content, flavonoid content and antioxidant capacity in dehulled rice

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Abstract

Phytochemicals such as phenolics and flavonoids in rice grain are antioxidants that are associated with reduced risk of developing chronic diseases including cardiovascular disease, type-2 diabetes and some cancers. Understanding the genetic basis of these traits is necessary for the improvement of nutritional quality by breeding. Association mapping based on linkage disequilibrium has emerged as a powerful strategy for identifying genes or quantitative trait loci (QTL) underlying complex traits in plants. In this study, genome-wide association mapping using models controlling both population structure (Q) and relative kinship (K) were performed to identify the marker loci/QTLs underlying the naturally occurring variations of grain color and nutritional quality traits in 416 rice germplasm accessions including red and black rice. A total of 41 marker loci were identified for all the traits, and it was confirmed that Ra (i.e., Prp-b for purple pericarp) and Rc (brown pericarp and seed coat) genes were main-effect loci for rice grain color and nutritional quality traits. RM228, RM339, fgr (fragrance gene) and RM316 were important markers associated with most of the traits. Association mapping for the traits of the 361 white or non-pigmented rice accessions (i.e., excluding the red and black rice) revealed a total of 11 markers for four color parameters, and one marker (RM346) for phenolic content. Among them, Wx gene locus was identified for the color parameters of lightness (L*), redness (a*) and hue angle (H o). Our study suggested that the markers identified in this study can feasibly be used to improve nutritional quality or health benefit properties of rice by marker-assisted selection if the co-segregations of the marker–trait associations are validated in segregating populations.

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Acknowledgments

Financial support for this work was provided in part by the Zhejiang Provincial Natural Science Foundation of China (R3080016), the Science and Technology Department of Zhejiang Province (2010C32082), the Program for the New Century Excellent Talents in University (NCET-08-0484) and the ANTA project from the Chinese Ministry of Agriculture (200803034).

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Authors and Affiliations

  1. Institute of Nuclear Agricultural Sciences, Key Laboratory of Zhejiang Province and Chinese Ministry of Agriculture for Nuclear-Agricultural Sciences, Zhejiang University, Hua Jiachi Campus, Hangzhou, 310029, People’s Republic of China

    Yafang Shao, Liang Jin, Gan Zhang, Yan Lu, Yun Shen & Jinsong Bao

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  1. Yafang Shao
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  2. Liang Jin
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  3. Gan Zhang
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  4. Yan Lu
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Correspondence to Jinsong Bao.

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Communicated by J. Yu.

Y. Shao and L. Jin have contributed equally to this work.

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Shao, Y., Jin, L., Zhang, G. et al. Association mapping of grain color, phenolic content, flavonoid content and antioxidant capacity in dehulled rice. Theor Appl Genet 122, 1005–1016 (2011). https://doi.org/10.1007/s00122-010-1505-4

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