Unraveling the genetic architecture of grain size in einkorn wheat through linkage and homology mapping and transcriptomic profiling

doi:10.1093/jxb/erz247

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	Unraveling the genetic architecture of grain size in einkorn wheat through linkage and homology mapping and transcriptomic profiling
	Yu, Kang 3,4; Liu, Dongcheng ; Chen, Yong 2; Wang, Dongzhi 5; Yang, Wenlong ; Yang, Wei 6; Yin, Lixin 6; Zhang, Chi 3,6; Zhao, Shancen 3,6; Sun, Jiazhu
刊名	JOURNAL OF EXPERIMENTAL BOTANY
	2019
卷号	70 期号:18 页码:4671-4687
关键词	Einkorn wheat (Triticum monococcum) grain size high-density genetic map quantitative trait loci RAD-seq RNA-seq
ISSN号	0022-0957
DOI	10.1093/jxb/erz247
文献子类	Article
英文摘要	Understanding the genetic architecture of grain size is a prerequisite to manipulating grain development and improving the potential crop yield. In this study, we conducted a whole genome-wide quantitative trait locus (QTL) mapping of grain-size-related traits by constructing a high-density genetic map using 109 recombinant inbred lines of einkorn wheat. We explored the candidate genes underlying QTLs through homologous analysis and RNA sequencing. The high-density genetic map spanned 1873 cM and contained 9937 single nucleotide polymorphism markers assigned to 1551 bins on seven chromosomes. Strong collinearity and high genome coverage of this map were revealed by comparison with physical maps of wheat and barley. Six grain size-related traits were surveyed in five environments. In total, 42 QTLs were identified; these were assigned to 17 genomic regions on six chromosomes and accounted for 52.3-66.7% of the phenotypic variation. Thirty homologous genes involved in grain development were located in 12 regions. RNA sequencing identified 4959 genes differentially expressed between the two parental lines. Twenty differentially expressed genes involved in grain size development and starch biosynthesis were mapped to nine regions that contained 26 QTLs, indicating that the starch biosynthesis pathway plays a vital role in grain development in einkorn wheat. This study provides new insights into the genetic architecture of grain size in einkorn wheat; identification of the underlying genes enables understanding of grain development and wheat genetic improvement. Furthermore, the map facilitates quantitative trait mapping, map-based cloning, genome assembly, and comparative genomics in wheat taxa.
学科主题	Plant Sciences
电子版国际标准刊号	1460-2431
出版地	OXFORD
WOS关键词	QUANTITATIVE TRAIT LOCUS ; TRITICUM-MONOCOCCUM L. ; HIGH-DENSITY ; BREAD WHEAT ; RNA-SEQ ; MAP ; QTL ; YIELD ; DOMESTICATION ; EVOLUTION
WOS研究方向	Plant Sciences
语种	英语
出版者	OXFORD UNIV PRESS
WOS记录号	WOS:000493107700010
资助机构	National Key Research and Development Program of China [2016YFD0101802, 2016YFD0101004] ; National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31571643]
内容类型	期刊论文
源URL	[http://ir.ibcas.ac.cn/handle/2S10CLM1/19850]
专题	中科院植物分子生理学重点实验室
作者单位	1.State Tobacco Monopoly Adm, Sci & Technol Dept, Beijing 100045, Peoples R China 2.BGI Shenzhen, State Key Lab Agr Genom, Shenzhen 518083, Peoples R China 3.Beijing Genom Inst Shenzhen, Shenzhen 518083, Peoples R China 4.Chinese Acad Sci, State Key Lab Plant Cell & Chromosome Engn, Inst Genet & Dev Biol, Innovat Acad Seed Design, Beijing 100101, Peoples R China 5.Chinese Acad Sci, Key Lab Plant Mol Physiol, Inst Bot, Beijing 100093, Peoples R China 6.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
推荐引用方式 GB/T 7714	Yu, Kang,Liu, Dongcheng,Chen, Yong,et al. Unraveling the genetic architecture of grain size in einkorn wheat through linkage and homology mapping and transcriptomic profiling[J]. JOURNAL OF EXPERIMENTAL BOTANY,2019,70(18):4671-4687.
APA	Yu, Kang.,Liu, Dongcheng.,Chen, Yong.,Wang, Dongzhi.,Yang, Wenlong.,...&Zhang, Aimin.(2019).Unraveling the genetic architecture of grain size in einkorn wheat through linkage and homology mapping and transcriptomic profiling.JOURNAL OF EXPERIMENTAL BOTANY,70(18),4671-4687.
MLA	Yu, Kang,et al."Unraveling the genetic architecture of grain size in einkorn wheat through linkage and homology mapping and transcriptomic profiling".JOURNAL OF EXPERIMENTAL BOTANY 70.18(2019):4671-4687.