Transcriptomic comparison reveals genetic variation potentially underlying seed developmental evolution of soybeans

doi:10.1093/jxb/ery291

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	Transcriptomic comparison reveals genetic variation potentially underlying seed developmental evolution of soybeans
	Gao, Huihui 3; Wang, Yan ; Li, Wei 1; Gu, Yongzhe 3; Lai, Yongcai 1; Bi, Yingdong 1; He, Chaoying 3
刊名	JOURNAL OF EXPERIMENTAL BOTANY
	2018
卷号	69 期号:21 页码:5089-5104
关键词	Differentially expressed gene (DEG) domestication fruit development RNA-seq seed size soybean
ISSN号	0022-0957
DOI	10.1093/jxb/ery291
文献子类	Article
英文摘要	Soybean (Glycine max) was domesticated from its wild relative Glycine soja. However, the genetic variations underlying soybean domestication are not well known. Comparative transcriptomics revealed that a small portion of the orthologous genes might have been fast evolving. In contrast, three gene expression clusters were identified as divergent by their expression patterns, which occupied 37.44% of the total genes, hinting at an essential role for gene expression alteration in soybean domestication. Moreover, the most divergent stage in gene expression between wild and cultivated soybeans occurred during seed development around the cotyledon stage (15 d after fertilization, G15). A module in which the co-expressed genes were significantly down-regulated at G15 of wild soybeans was identified. The divergent clusters and modules included substantial differentially expressed genes (DEGs) between wild and cultivated soybeans related to cell division, storage compound accumulation, hormone response, and seed maturation processes. Chromosomal-linked DEGs, quantitative trait loci controlling seed weight and oil content, and selection sweeps revealed candidate DEGs at G15 in the fruit-related divergence of G. max and G. soja. Our work establishes a transcriptomic selection mechanism for altering gene expression during soybean domestication, thus shedding light on the molecular networks underlying soybean seed development and breeding strategy.
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	RNA-SEQ DATA ; CELL-CYCLE ; MAIZE DOMESTICATION ; MOLECULAR-BASIS ; ORGAN SIZE ; PLANT ; WILD ; IDENTIFICATION ; NUCLEOTIDE ; EXPRESSION
语种	英语
出版者	OXFORD UNIV PRESS
WOS记录号	WOS:000448163900009
资助机构	Chinese Academy of SciencesChinese Academy of Sciences [XDA08010105] ; National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31525003]
内容类型	期刊论文
源URL	[http://ir.ibcas.ac.cn/handle/2S10CLM1/20502]
专题	系统与进化植物学国家重点实验室
作者单位	1.Univ Chinese Acad Sci, 19A Yuquan Rd, Beijing 100049, Peoples R China 2.Heilongjiang Acad Agr Sci, Crop Tillage & Cultivat Inst, Harbin 150086, Heilongjiang, Peoples R China 3.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Nanxincun 20, Beijing 100093, Peoples R China
推荐引用方式 GB/T 7714	Gao, Huihui,Wang, Yan,Li, Wei,et al. Transcriptomic comparison reveals genetic variation potentially underlying seed developmental evolution of soybeans[J]. JOURNAL OF EXPERIMENTAL BOTANY,2018,69(21):5089-5104.
APA	Gao, Huihui.,Wang, Yan.,Li, Wei.,Gu, Yongzhe.,Lai, Yongcai.,...&He, Chaoying.(2018).Transcriptomic comparison reveals genetic variation potentially underlying seed developmental evolution of soybeans.JOURNAL OF EXPERIMENTAL BOTANY,69(21),5089-5104.
MLA	Gao, Huihui,et al."Transcriptomic comparison reveals genetic variation potentially underlying seed developmental evolution of soybeans".JOURNAL OF EXPERIMENTAL BOTANY 69.21(2018):5089-5104.