Gene body demethylation increases expression and is associated with self-pruning during grape genome duplication

doi:10.1038/s41438-020-0303-7

	Gene body demethylation increases expression and is associated with self-pruning during grape genome duplication
	Zou, Luming 1,2; Liu, Wenwen 1,2; Zhang, Zhan 1,2,3; Edwards, Everard J.; Gathunga, Elias Kirabi 1,2; Fan, Peige 1; Duan, Wei 1; Li, Shaohua1,2 ; Liang, Zhenchang 1,5
	2020
发表期刊	HORTICULTURE RESEARCH
ISSN	2662-6810
卷号	7 期号:1
摘要	A colchicine-induced autotetraploid grapevine exhibiting potentially valuable agronomic traits for grape production and breeding, including self-pruning, was identified. This study investigated DNA methylation variation and its role in gene expression during self-pruning in the autotetraploid grapevine. We used RNA-Seq to estimate differentially expressed genes between diploid and autotetraploid grapevine shoot tips. The genes showing increases in the autotetraploid were mainly related to stress response pathways, whereas those showing decreases in the autotetraploid were related to biological metabolism and biosynthesis. Whole-genome bisulfite sequencing was performed to produce single-base methylomes for the diploid and autotetraploid grapevines. Comparison between the methylomes revealed that they were conserved in CG and CHG contexts. In the autotetraploid grapevine, hypodifferentially methylated regions (DMRs) and hyper-DMRs in the gene body increased or decreased gene expression, respectively. Our results indicated that a hypo-DMR in the ACO1 gene body increased its expression and might promote self-pruning. This study reports that hypo-DMRs in the gene body increase gene expression in plants and reveals the mechanism underlying the changes in the modifications affecting gene expression during genome duplication. Overall, our results provide valuable information for understanding the relationships between DNA methylation, gene expression, and autotetraploid breeding in grape.
学科领域	Plant Sciences ; Genetics & Heredity ; Horticulture
DOI	10.1038/s41438-020-0303-7
收录类别	SCI
语种	英语
WOS关键词	DNA METHYLATION ; ETHYLENE ; POLYPLOIDY ; ABSCISSION ; ABA ; AUXIN ; BIOSYNTHESIS ; RESISTANCE ; INDUCTION ; RETENTION
WOS研究方向	Plant Sciences ; Genetics & Heredity ; Agriculture
WOS记录号	WOS:000538044000006
出版者	NANJING AGRICULTURAL UNIV
文献子类	Article
出版地	NANJING
EISSN	2052-7276
资助机构	National Key Research and Development Program of China [2018YFD1000105] ; National Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31772266] ; Agricultural Breeding Project of Ningxia Hui Autonomous Region [NXNYYZ20150203] ; STS Project of the Chinese Academy of Sciences [KFJ-STS-ZDTP-025]
作者邮箱	shhli@ibcas.ac.cn ; zl249@ibcas.ac.cn
作品OA属性	Green Published, gold
引用统计	被引频次：9[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/2S10CLM1/21731
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, Beijing 100093, Peoples R China 2.Chinese Acad Sci, Inst Bot, CAS Key Lab Plant Resources, Beijing 100093, Peoples R China 3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 4.Shaanxi Normal Univ, Coll Life Sci, Xian 041004, Shanxi, Peoples R China 5.Edwards, Everard J.] CSIRO Agr & Food, Locked Bag 2, Glen Osmond, SA 5064, Australia 6.Chinese Acad Sci, Sino Africa Joint Res Ctr, Wuhan 430074, Peoples R China
推荐引用方式 GB/T 7714	Zou, Luming,Liu, Wenwen,Zhang, Zhan,et al. Gene body demethylation increases expression and is associated with self-pruning during grape genome duplication[J]. HORTICULTURE RESEARCH,2020,7(1).
APA	Zou, Luming.,Liu, Wenwen.,Zhang, Zhan.,Edwards, Everard J..,Gathunga, Elias Kirabi.,...&Liang, Zhenchang.(2020).Gene body demethylation increases expression and is associated with self-pruning during grape genome duplication.HORTICULTURE RESEARCH,7(1).
MLA	Zou, Luming,et al."Gene body demethylation increases expression and is associated with self-pruning during grape genome duplication".HORTICULTURE RESEARCH 7.1(2020).

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