The 5-methylcytosine DNA glycosylase ROS1 prevents paternal genome hypermethylation in Arabidopsis endosperm

IF 10.1 1区 生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY
Elizabeth A. Hemenway, Mary Gehring
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Abstract

DNA methylation patterning is a consequence of opposing activities of DNA methyltransferases and DNA demethylases. In many plant and animal species, reproduction is a period of significant epigenome lability. In flowering plants, two distinct female gametes, the egg cell and the central cell, are fertilized to produce the embryo and the endosperm of the seed. The endosperm is an unusual tissue, exemplified by triploidy and reduced DNA methylation. In Arabidopsis thaliana, a 5-methylcytosine DNA glycosylase, DME, demethylates regions of the central cell genome, leading to methylation differences between maternally- and paternally-inherited endosperm genomes after fertilization. Expression of DME in the central cell is required for gene imprinting, or parent-of-origin specific gene expression, in endosperm. DME is part of a four member gene family in Arabidopsis that includes ROS1, DML2, and DML3. It is unknown whether any of the other DNA glycosylases are required for endosperm methylation patterning. Using whole-genome methylation profiling, we identify ROS1 target regions in the endosperm. We show that ROS1 prevents hypermethylation of paternally-inherited alleles in the endosperm at regions that lack maternal or paternal allele methylation in wild-type endosperm. Additionally, we demonstrate that at many ROS1 target regions the maternal alleles are demethylated by DME. ROS1 promotes epigenetic symmetry between parental genomes in the endosperm by preventing CG methylation gain on the paternal genome. We conclude that ROS1 and DME act in a parent-of-origin-specific manner at shared endosperm targets, and consider possible implications for the evolution of imprinting mechanisms.
5-甲基胞嘧啶DNA糖基化酶ROS1可防止拟南芥胚乳父本基因组超甲基化
DNA甲基化模式是DNA甲基转移酶和DNA去甲基化酶相反活动的结果。在许多植物和动物物种中,繁殖是表观基因组显著不稳定的时期。在开花植物中,两个不同的雌性配子,卵细胞和中心细胞,受精后产生胚胎和种子的胚乳。胚乳是一种不寻常的组织,以三倍体和DNA甲基化降低为例。在拟南芥(Arabidopsis thaliana)中,5-甲基胞嘧啶DNA糖基化酶(DME)会使中央细胞基因组的区域去甲基化,从而导致受精后母系遗传和父系遗传的胚乳基因组之间的甲基化差异。在胚乳中,二甲醚在中心细胞中的表达是基因印迹或亲本特异性基因表达所必需的。DME是拟南芥四成员基因家族的一部分,包括ROS1、DML2和DML3。目前尚不清楚是否有其他DNA糖基化酶是胚乳甲基化模式所必需的。利用全基因组甲基化分析,我们在胚乳中鉴定了ROS1靶区。我们发现ROS1在野生型胚乳中缺乏母本或父本等位基因甲基化的区域阻止父本遗传等位基因的超甲基化。此外,我们证明在许多ROS1靶区,母体等位基因被二甲醚去甲基化。ROS1通过阻止父本基因组上的CG甲基化增加来促进胚乳亲本基因组之间的表观遗传对称。我们得出结论,ROS1和DME在共享的胚乳靶点上以亲本起源特异性的方式起作用,并考虑了印迹机制进化的可能含义。
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来源期刊
Genome Biology
Genome Biology Biochemistry, Genetics and Molecular Biology-Genetics
CiteScore
21.00
自引率
3.30%
发文量
241
审稿时长
2 months
期刊介绍: Genome Biology stands as a premier platform for exceptional research across all domains of biology and biomedicine, explored through a genomic and post-genomic lens. With an impressive impact factor of 12.3 (2022),* the journal secures its position as the 3rd-ranked research journal in the Genetics and Heredity category and the 2nd-ranked research journal in the Biotechnology and Applied Microbiology category by Thomson Reuters. Notably, Genome Biology holds the distinction of being the highest-ranked open-access journal in this category. Our dedicated team of highly trained in-house Editors collaborates closely with our esteemed Editorial Board of international experts, ensuring the journal remains on the forefront of scientific advances and community standards. Regular engagement with researchers at conferences and institute visits underscores our commitment to staying abreast of the latest developments in the field.
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