Journal ArticleDOI
Genome-wide association study dissects the genetic architecture of oil biosynthesis in maize kernels
Hui Li,Zhiyu Peng,Xiaohong Yang,Weidong Wang,Junjie Fu,Jianhua Wang,Yingjia Han,Yuchao Chai,Tingting Guo,Ning Yang,Jie Liu,Marilyn L. Warburton,Yanbing Cheng,Xiaomin Hao,Pan Zhang,Jinyang Zhao,Yunjun Liu,Guoying Wang,Jiansheng Li,Jianbing Yan +19 more
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TLDR
The genetic architecture of maize oil biosynthesis is extensively examined in a genome-wide association study using 1.03 million SNPs characterized in 368 maize inbred lines, including 'high-oil' lines, to provide insights into the genetic basis ofOil biosynthesis in maize kernels.Abstract:
Maize kernel oil is a valuable source of nutrition. Here we extensively examine the genetic architecture of maize oil biosynthesis in a genome-wide association study using 1.03 million SNPs characterized in 368 maize inbred lines, including ‘high-oil’ lines. We identified 74 loci significantly associated with kernel oil concentration and fatty acid composition (P < 1.8 × 10 −6 ), which we subsequently examined using expression quantitative trait loci (QTL) mapping, linkage mapping and coexpression analysis. More than half of the identified loci localized in mapped QTL intervals, and one-third of the candidate genes were annotated as enzymes in the oil metabolic pathway. The 26 loci associated with oil concentration could explain up to 83% of the phenotypic variation using a simple additive model. Our results provide insights into the genetic basis of oil biosynthesis in maize kernels and may facilitate marker-based breeding for oil quantity and quality.read more
Citations
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Identification of a Functional Transposon Insertion in the Maize Domestication Gene tb1
TL;DR: This paper showed that a transposable element (Hopscotch) inserted in a regulatory region of the maize domestication gene, teosinte branched1 (tb1), acts as an enhancer of gene expression and partially explains the increased apical dominance in maize compared to its progenitor.
Journal ArticleDOI
Natural Variations and Genome-Wide Association Studies in Crop Plants
Xuehui Huang,Bin Han +1 more
TL;DR: The development of sequencing-based genotyping and genome-wide association studies in crops are described and the advent of high-throughput sequencing technology enables rapid and accurate resequencing of a large number of crop genomes to detect the genetic basis of phenotypic variations in crops.
Journal ArticleDOI
Genome-wide association study using whole-genome sequencing rapidly identifies new genes influencing agronomic traits in rice
Kenji Yano,Eiji Yamamoto,Koichiro Aya,Hideyuki Takeuchi,Pei Ching Lo,Li Hu,Masanori Yamasaki,Shinya Yoshida,Hidemi Kitano,Ko Hirano,Makoto Matsuoka +10 more
TL;DR: In this paper, the authors identified agronomically important genes in rice using GWAS based on whole-genome sequencing, followed by the screening of candidate genes based on the estimated effect of nucleotide polymorphisms.
Journal ArticleDOI
Combining high-throughput phenotyping and genome-wide association studies to reveal natural genetic variation in rice
Wanneng Yang,Zilong Guo,Chenglong Huang,Lingfeng Duan,Guoxing Chen,Ni Jiang,Wei Fang,Hui Feng,Weibo Xie,Xingming Lian,Gongwei Wang,Qingming Luo,Qifa Zhang,Qian Liu,Lizhong Xiong +14 more
TL;DR: A high-throughput rice phenotyping facility is developed to monitor 13 traditional agronomic traits and 2 newly defined traits during the rice growth period and genome-wide association studies of the 15 traits identify 141 associated loci.
Journal ArticleDOI
Metabolome-based genome-wide association study of maize kernel leads to novel biochemical insights
Weiwei Wen,Dong Li,Xiang Li,Yanqiang Gao,Wenqiang Li,Huihui Li,Jie Liu,Haijun Liu,Wei Chen,Jie Luo,Jianbing Yan +10 more
TL;DR: A comprehensive study of maize metabolism, combining genetic, metabolite and expression profiling methodologies to dissect the genetic basis of metabolic diversity in maize kernels, finds metabolite features associated with kernel weight could be used as biomarkers to facilitate genetic improvement of maize.
References
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Journal ArticleDOI
TASSEL: software for association mapping of complex traits in diverse samples
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