Characterization of Chromatin Accessibility and Gene Expression upon Cold Stress Reveals that the RAV1 Transcription Factor Functions in Cold Response in Vitis Amurensis

doi:10.1093/pcp/pcab115

	Characterization of Chromatin Accessibility and Gene Expression upon Cold Stress Reveals that the RAV1 Transcription Factor Functions in Cold Response in Vitis Amurensis
	Ren, Chong ; Li, Huayang 1; Wang, Zemin ; Dai, Zhanwu; Lecourieux, Fatma 2; Kuang, Yangfu 1; Xin, Haiping 3; Li, Shaohua; Liang, Zhenchang
	2021
发表期刊	PLANT AND CELL PHYSIOLOGY
ISSN	0032-0781
卷号	62 期号:10 页码:1615-1629
摘要	Cold tolerance is regulated by a variety of transcription factors (TFs) and their target genes. Except for the well-characterized C-repeat binding factors (CBFs)-dependent transcriptional cascade, the mechanisms of cold tolerance mediated by other transcriptional regulatory networks are still largely unknown. Here, we used the assay for transposase-accessible chromatin with sequencing (ATAC-seq) and RNA-seq to identify cold responsive TFs in Vitis amurensis, a grape species with high cold hardiness. Nine TFs, including CBF4, RAV1 and ERF104, were identified after cold treatment. Weighted gene co-expression network analysis (WGCNA) and gene ontology (GO) analysis revealed that these TFs may regulate cold response through different pathways. As a prime candidate TF, overexpression of VaRAV1 in grape cells improved its cold tolerance. The transgenic cells exhibited low electrolyte leakage and malondialdehyde content and high peroxidase activity. Moreover, the TF gene TCP8 and a gene involving in homogalacturonan biosynthesis were found to be regulated by VaRAV1, suggesting that the contribution of VaRAV1 to cold tolerance may be achieved by enhancing the stability of cell membrane and regulating the expression of target genes involved in plant cell wall composition. Our work provides novel insights into plant response to cold stress and demonstrates the utility of ATAC-seq and RNA-seq for the rapid identification of TFs in response to cold stress in grapevine. VaRAV1 may play an important role in adaption to cold stress.
关键词	ATAC-seq Cold response RAV1 RNA-seq Transcription factor Vitis amurensis
学科领域	Plant Sciences ; Cell Biology
DOI	10.1093/pcp/pcab115
收录类别	SCI
语种	英语
WOS关键词	FREEZING TOLERANCE ; LOW-TEMPERATURE ; SIGNAL-TRANSDUCTION ; READ ALIGNMENT ; ICE1 STABILITY ; ARABIDOPSIS ; DROUGHT ; ACCLIMATION ; BINDING ; FAMILY
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号	WOS:000733328800009
出版者	OXFORD UNIV PRESS
文献子类	Article
出版地	OXFORD
EISSN	1471-9053
资助机构	National Key Research and Development Program of China [2018YFD1000105, 2019YFD1002501] ; National Natural Science Foundation of China [32025032] ; Strategic Priority Research Program of Chinese Academy of Sciences [XDA01020304] ; Bureau of International Cooperation of Chinese Academy of Sciences [151111KYSB20170032]
作者邮箱	zl249@ibcas.ac.cn
作品OA属性	Green Published, hybrid
引用统计	被引频次：21[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.ibcas.ac.cn/handle/2S10CLM1/26355
专题	中科院北方资源植物重点实验室
作者单位	1.Chinese Acad Sci, Inst Bot, Beijing Key Lab Grape Sci & Enol, Key Lab Plant Resource, 20 Nanxincun, Beijing 100093, Peoples R China 2.Univ Chinese Acad Sci, 19 Yuquan Rd, Beijing 100049, Peoples R China 3.Univ Bordeaux, ISVV, INRA, EGFV,Bordeaux Sci Agro, 210 Chemin Leysotte, F-33882 Villenave Dornon, France 4.Chinese Acad Sci, Key Lab Plant Germplasm Enhancement & Specialty A, Wuhan Bot Garden, 1 Lumo Rd, Wuhan 430074, Peoples R China
推荐引用方式 GB/T 7714	Ren, Chong,Li, Huayang,Wang, Zemin,et al. Characterization of Chromatin Accessibility and Gene Expression upon Cold Stress Reveals that the RAV1 Transcription Factor Functions in Cold Response in Vitis Amurensis[J]. PLANT AND CELL PHYSIOLOGY,2021,62(10):1615-1629.
APA	Ren, Chong.,Li, Huayang.,Wang, Zemin.,Dai, Zhanwu.,Lecourieux, Fatma.,...&Liang, Zhenchang.(2021).Characterization of Chromatin Accessibility and Gene Expression upon Cold Stress Reveals that the RAV1 Transcription Factor Functions in Cold Response in Vitis Amurensis.PLANT AND CELL PHYSIOLOGY,62(10),1615-1629.
MLA	Ren, Chong,et al."Characterization of Chromatin Accessibility and Gene Expression upon Cold Stress Reveals that the RAV1 Transcription Factor Functions in Cold Response in Vitis Amurensis".PLANT AND CELL PHYSIOLOGY 62.10(2021):1615-1629.

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