Dynamic Changes of Genome-Wide DNA Methylation during Soybean Seed Development.
Dynamic Changes of Genome-Wide DNA Methylation during Soybean Seed Development.
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DOI：
10.1038/s41598-017-12510-4
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发表时间：
2017-09-25
影响因子：
4.6
通讯作者：
Xiao W
中科院分区：
文献类型：
--
作者：
An YC;Goettel W;Han Q;Bartels A;Liu Z;Xiao W
植物种子的发育是由许多基因表达调控的。种子成熟是影响大豆种子品质和产量的重要发育过程。DNA甲基化是调节基因表达的主要表观遗传修饰。然而，对DNA甲基化的动态性质及其在植物发育过程中对基因表达的影响知之甚少。通过全基因组亚硫酸氢盐测序，我们发现DNA甲基化在种子成熟过程中经历了动态变化。在子叶中，平均66%的CG、45%的CHG和9%的CHH上下文被甲基化。子叶中CHH甲基化水平变化很大，从早期的6%到后期的11%。转录基因的差异甲基化的可能性比非转录基因高约两倍。我们确定了40，66和2136个基因含有差异甲基化区域（DMR），其表达和甲基化之间的负相关性，在CG，CHG和CHH的情况下，分别。大多数的DMR基因在CHH的背景下转录下调种子成熟：99%的人在早期成熟过程中下调，并优先与DNA复制和细胞分裂。这些结果为DNA甲基化的动态性质及其与种子发育中基因调控的关系提供了新的见解。
Seed development is programmed by expression of many genes in plants. Seed maturation is an important developmental process to soybean seed quality and yield. DNA methylation is a major epigenetic modification regulating gene expression. However, little is known about the dynamic nature of DNA methylation and its effects on gene expression during plant development. Through whole-genome bisulfite sequencing, we showed that DNA methylation went through dynamic changes during seed maturation. An average of 66% CG, 45% CHG and 9% CHH contexts was methylated in cotyledons. CHH methylation levels in cotyledons changed greatly from 6% at the early stage to 11% at the late stage. Transcribed genes were approximately two-fold more likely to be differentially methylated than non-transcribed genes. We identified 40, 66 and 2136 genes containing differentially methylated regions (DMRs) with negative correlation between their expression and methylation in the CG, CHG and CHH contexts, respectively. The majority of the DMR genes in the CHH context were transcriptionally down-regulated as seeds mature: 99% of them during early maturation were down-regulated, and preferentially associated with DNA replication and cell division. The results provide novel insights into the dynamic nature of DNA methylation and its relationship with gene regulation in seed development.
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影响因子：
10.5
作者：
Bartee, L;Malagnac, F;Bender, J
通讯作者：
Bender, J
影响因子：
7.4
作者：
Curaba, J;Moritz, T;Vachon, G
通讯作者：
Vachon, G
使用下一代 DNA 测序数据进行变异发现和基因分型的框架。
影响因子：
30.8
作者：
通讯作者：
--
DOI：
10.1126/science.1190614
发表时间：
2010-10-29
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Feng S;Jacobsen SE;Reik W
通讯作者：
Reik W
DOI：
10.1073/pnas.93.16.8449
发表时间：
1996-08-06
影响因子：
11.1
作者：
Finnegan, EJ;Peacock, WJ;Dennis, ES
通讯作者：
Dennis, ES