Distant eQTLs and non-coding sequences play critical roles in regulating gene expression and quantitative trait variation in maize
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- 英文论文题名：Distant eQTLs and non-coding sequences play critical roles in regulating gene expression and quantitative trait variation in maize
- 论文作者：Haijun Liu ; Xin Luo ; Luyao Niu ; Yingjie Xiao ; Lu Chen ; Jie Liu ; Xiaqing Wang ; Minliang Jin ; Wenqiang Li ; Qinghua Zhang ; Jianbing Yan
- 英文论文作者：Haijun Liu ; Xin Luo ; Luyao Niu ; Yingjie Xiao ; Lu Chen ; Jie Liu ; Xiaqing Wang ; Minliang Jin ; Wenqiang Li ; Qinghua Zhang ; Jianbing Yan ; Key Laboratory of Crop Genetic Improvement ; Huazhong Agricultural University
- 年：2016
- 作者机构：Key Laboratory of Crop Genetic Improvement,Huazhong Agricultural University;
- 英文论文关键词：eQTL ; RNA-seq ; GBS ; GWAS ; non-coding regulation ; Zea mays
- 会议召开时间：2016-10-09
- 会议录名称：2016年全国植物生物学大会摘要集
- 语种：英文
- 分类号：S513;Q943.2
- 学会代码：ZGZO
- 会议名称：2016年全国植物生物学大会
- 会议地点：中国湖北武汉
- 主办单位：中国遗传学会、中国细胞生物学学会、中国植物学会、中国植物生理与植物分子生物学学会、中国作物学会
- 学会名称：中国植物学会
- 页数：1
- 文件大小：944k
- 原文格式：D
- 会议级别：全国
摘要
A detailed understanding of genetic architecture of mRNA expression by millions of genetic variants is important for studying quantitative trait variation. In this study,we identified 1.25 M SNPs with a minor allele frequency greater than 0.05 by combining reduced genome sequencing(GBS),highdensity array technologies(600K),and previous deep RNA-sequencing data from 368 diverse inbred lines of maize. The balanced allelic frequencies and distributions in a relatively large and diverse natural panel helped to identify expression quantitative trait loci(eQTLs) associated with more than 18000 genes(63.4% of tested genes). We found that distant eQTLs were more frequent(～75% of all eQTLs) across the whole genome. Thirteen novel associated loci affecting maize kernel oil concentration were identified using the new dataset,among which,one intergenic locus could affect the kernel oil variation by controlling expression of three other known oil related genes. Altogether,this study provides resources for expanding our understanding of cellular regulatory mechanisms of transcriptome variation and the landscape of functional variants within the maize genome,thereby enhancing the understanding of quantitative variations.
A detailed understanding of genetic architecture of mRNA expression by millions of genetic variants is important for studying quantitative trait variation. In this study,we identified 1.25 M SNPs with a minor allele frequency greater than 0.05 by combining reduced genome sequencing(GBS),highdensity array technologies(600K),and previous deep RNA-sequencing data from 368 diverse inbred lines of maize. The balanced allelic frequencies and distributions in a relatively large and diverse natural panel helped to identify expression quantitative trait loci(eQTLs) associated with more than 18000 genes(63.4% of tested genes). We found that distant eQTLs were more frequent(～75% of all eQTLs) across the whole genome. Thirteen novel associated loci affecting maize kernel oil concentration were identified using the new dataset,among which,one intergenic locus could affect the kernel oil variation by controlling expression of three other known oil related genes. Altogether,this study provides resources for expanding our understanding of cellular regulatory mechanisms of transcriptome variation and the landscape of functional variants within the maize genome,thereby enhancing the understanding of quantitative variations.
A detailed understanding of genetic architecture of mRNA expression by millions of genetic variants is important for studying quantitative trait variation. In this study,we identified 1.25 M SNPs with a minor allele frequency greater than 0.05 by combining reduced genome sequencing(GBS),highdensity array technologies(600K),and previous deep RNA-sequencing data from 368 diverse inbred lines of maize. The balanced allelic frequencies and distributions in a relatively large and diverse natural panel helped to identify expression quantitative trait loci(eQTLs) associated with more than 18000 genes(63.4% of tested genes). We found that distant eQTLs were more frequent(～75% of all eQTLs) across the whole genome. Thirteen novel associated loci affecting maize kernel oil concentration were identified using the new dataset,among which,one intergenic locus could affect the kernel oil variation by controlling expression of three other known oil related genes. Altogether,this study provides resources for expanding our understanding of cellular regulatory mechanisms of transcriptome variation and the landscape of functional variants within the maize genome,thereby enhancing the understanding of quantitative variations.
引文