RNA sequencing reveals the complex regulatory network in the maize kernel

文献类型： 外文期刊

第一作者： Fu, Junjie

作者： Fu, Junjie;Zheng, Jun;Wang, Guoying;Cheng, Yanbing;Kang, Lin;Peng, Zhiyu;Dai, Changmin;Xu, Jiabao;Li, Xiangru;Chen, Li;Luo, Longhai;Liu, Junjie;Qian, Xiaoju;Wang, Jun;Linghu, Jingjing;Yang, Xiaohong;Zhang, Jie;He, Cheng;Du, Xuemei;Wang, Bo;Wang, Weidong;Zhang, Zuxin;Zhai, Lihong;Yan, Jianbing

作者机构：

期刊名称：NATURE COMMUNICATIONS （ 影响因子：14.919； 五年影响因子：15.805 ）

ISSN： 2041-1723

年卷期： 2013 年 4 卷

页码：

收录情况： SCI

摘要： RNA sequencing can simultaneously identify exonic polymorphisms and quantitate gene expression. Here we report RNA sequencing of developing maize kernels from 368 inbred lines producing 25.8 billion reads and 3.6 million single-nucleotide polymorphisms. Both the MaizeSNP50 BeadChip and the Sequenom MassArray iPLEX platforms confirm a subset of high-quality SNPs. Of these SNPs, we have mapped 931,484 to gene regions with a mean density of 40.3 SNPs per gene. The genome-wide association study identifies 16,408 expression quantitative trait loci. A two-step approach defines 95.1% of the eQTLs to a 10-kb region, and 67.7% of them include a single gene. The establishment of relationships between eQTLs and their targets reveals a large-scale gene regulatory network, which include the regulation of 31 zein and 16 key kernel genes. These results contribute to our understanding of kernel development and to the improvement of maize yield and nutritional quality.

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