Epigenetic memory at embryonic enhancers identified in DNA methylation maps from adult mouse tissues
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TLDR
By mapping base-resolution methylomes in adult mouse tissues at shallow coverage, this work identifies 302,864 tissue-specific differentially methylated regions (tsDMRs) and estimates that >6.7% of the mouse genome is variably methylated, and suggests that epigenetic memory of embryonic development may be retained in adult tissues.Abstract:
Mammalian development requires cytosine methylation, a heritable epigenetic mark of cellular memory believed to maintain a cell's unique gene expression pattern. However, it remains unclear how dynamic DNA methylation relates to cell type-specific gene expression and animal development. Here, by mapping base-resolution methylomes in 17 adult mouse tissues at shallow coverage, we identify 302,864 tissue-specific differentially methylated regions (tsDMRs) and estimate that >6.7% of the mouse genome is variably methylated. Supporting a prominent role for DNA methylation in gene regulation, most tsDMRs occur at distal cis-regulatory elements. Unexpectedly, some tsDMRs mark enhancers that are dormant in adult tissues but active in embryonic development. These 'vestigial' enhancers are hypomethylated and lack active histone modifications in adult tissues but nevertheless exhibit activity during embryonic development. Our results provide new insights into the role of DNA methylation at tissue-specific enhancers and suggest that epigenetic memory of embryonic development may be retained in adult tissues.read more
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Determining gestational age using genome methylation profile: A novel approach for fetal medicine
Tal Falick Michaeli,Adam Spiro,Ofra Sabag,Gilad Karavani,Simha Yagel,Smadar Eventov-Friedman,Howard Cedar,Yehudit Bergman,Yuval Gielchinsky +8 more
TL;DR: It is demonstrated that DNA methylation can accurately predict gestational age and thus may serve as a good clinical predictor.
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DNA methylation estimation using methylation-sensitive restriction enzyme bisulfite sequencing (MREBS)
Giancarlo Bonora,Liudmilla Rubbi,Marco Morselli,Feiyang Ma,Constantinos Chronis,Kathrin Plath,Matteo Pellegrini +6 more
TL;DR: This newly developed technique combines the sequencing cost of RRBS and DNA methylation estimates on a portion of the genome similar to WGBS, making it ideal for large-scale projects of mammalian genomes.
Journal ArticleDOI
Validation of a DNA methylation microarray for 285,000 CpG sites in the mouse genome
Carlos A. García-Prieto,Damiana Álvarez-Errico,Eva Musulen,Alberto Bueno-Costa,Berta N Vazquez,Alejandro Vaquero,Manel Esteller +6 more
TL;DR: It is shown that the profiled mouse DNA methylation microarray provides reliable values among technical replicates; matched results from fresh frozen versus formalin-fixed samples; detects hemimethylated X-chromosome and imprinted CpG sites; and is able to determine CpGs methylation changes in mouse cell lines treated with a DNA demethylating agent or upon genetic disruption of a DNA methyltransferase.
Journal ArticleDOI
Cranial irradiation inhibits hippocampal neurogenesis via DNMT1 and DNMT3A
TL;DR: DNMT1 and DNMT3A may be involved in the pathogenesis of whole-brain radiation-induced neurogenesis impairment, and western blot analysis demonstrated lower expression levels of DNA methyltransferases following radiation treatment compared with that in the non-irradiated control.
Journal ArticleDOI
Gestational high-fat diet impaired demethylation of Pparα and induced obesity of offspring.
Hai-Yan Pang,Dandan Ling,Yi Cheng,Rubab Akbar,Lu-Yang Jin,Jun Ren,Hai-Yan Wu,Bin Chen,Yin Zhou,Hong Zhu,Yu-Zhong Zhou,He-Feng Huang,He-Feng Huang,Jian-Zhong Sheng +13 more
TL;DR: In this article, the effects of gestational and/or postpartum high-fat diets (HFDs) on obesity in offspring were investigated in a mouse model of HFD exposure that included gestation, lactation and post-weaning periods.
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