DNA demethylation affects imprinted gene expression in maize endosperm

doi:10.1186/s13059-022-02641-x

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	DNA demethylation affects imprinted gene expression in maize endosperm
	Xu, Qiang ; Wu, Leiming ; Luo, Zhixiang ; Zhang, Mei 1; Lai, Jinsheng 2; Li, Lin ; Springer, Nathan M.; Li, Qing 4
刊名	GENOME BIOLOGY
	2022
卷号	23 期号:1
关键词	DNA demethylation Imprinting Tissue-specific expression Transcription factor binding Maize
ISSN号	1474-760X
DOI	10.1186/s13059-022-02641-x
文献子类	Article
英文摘要	Background: DNA demethylation occurs in many species and is involved in diverse biological processes. However, the occurrence and role of DNA demethylation in maize remain unknown. Results: We analyze loss-of-function mutants of two major genes encoding DNA demethylases. No significant change in DNA methylation has been detected in these mutants. However, we detect increased DNA methylation levels in the mutants around genes and some transposons. The increase in DNA methylation is accompanied by alteration in gene expression, with a tendency to show downregulation, especially for the genes that are preferentially expressed in endosperm. Imprinted expression of both maternally and paternally expressed genes changes in F-1 hybrid with the mutant as female and the wild-type as male parental line, but not in the reciprocal hybrid. This alteration in gene expression is accompanied by allele-specific DNA methylation differences, suggesting that removal of DNA methylation of the maternal allele is required for the proper expression of these imprinted genes. Finally, we demonstrate that hypermethylation in the double mutant is associated with reduced binding of transcription factor to its target, and altered gene expression. Conclusions: Our results suggest that active removal of DNA methylation is important for transcription factor binding and proper gene expression in maize endosperm.
学科主题	Biotechnology & Applied Microbiology ; Genetics & Heredity
出版地	LONDON
WOS关键词	COMPANION CELLS ; ZEIN GENES ; SMALL RNA ; METHYLATION ; ARABIDOPSIS ; DEMETER ; GENOME ; GLYCOSYLASE ; ACTIVATION ; ALLELES
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
语种	英语
出版者	BMC
WOS记录号	WOS:000766589500001
资助机构	National Natural Science Foundation of China [31871635] ; Huazhong Agricultural University Scientific & Technological Self-innovation Foundation [2016RC012] ; 111 Project Crop Genomics and Molecular Breeding [B20051]
内容类型	期刊论文
源URL	[http://ir.ibcas.ac.cn/handle/2S10CLM1/28723]
专题	中科院植物分子生理学重点实验室
作者单位	1.Huazhong Agr Univ, Natl Key Lab Crop Genet Improvement, Wuhan 430070, Peoples R China 2.Chinese Acad Sci, Inst Bot, Key Lab Plant Mol Physiol, Nanxincun 20,Fragrant Hill, Beijing 100093, Peoples R China 3.China Agr Univ, State Key Lab Plant Physiol & Biochem & Natl Maiz, Dept Plant Genet & Breeding, Beijing 100094, Peoples R China 4.Springer, Nathan M.] Univ Minnesota, Dept Plant & Microbial Biol, St Paul, MN 55108 USA 5.Hubei Hongshan Lab, Wuhan 430070, Peoples R China
推荐引用方式 GB/T 7714	Xu, Qiang,Wu, Leiming,Luo, Zhixiang,et al. DNA demethylation affects imprinted gene expression in maize endosperm[J]. GENOME BIOLOGY,2022,23(1).
APA	Xu, Qiang.,Wu, Leiming.,Luo, Zhixiang.,Zhang, Mei.,Lai, Jinsheng.,...&Li, Qing.(2022).DNA demethylation affects imprinted gene expression in maize endosperm.GENOME BIOLOGY,23(1).
MLA	Xu, Qiang,et al."DNA demethylation affects imprinted gene expression in maize endosperm".GENOME BIOLOGY 23.1(2022).