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DNA methylation reprogramming of functional elements during mammalian embryonic development

DNA methylation plays important roles during development. However, the DNA methylation reprogramming of functional elements has not been fully investigated during mammalian embryonic development. Herein, using our modified MethylC-Seq library generation method and published post-bisulphite adapter-t...

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Detalles Bibliográficos
Autores principales: Li, Congru, Fan, Yong, Li, Guoqiang, Xu, Xiaocui, Duan, Jialei, Li, Rong, Kang, Xiangjin, Ma, Xin, Chen, Xuepeng, Ke, Yuwen, Yan, Jie, Lian, Ying, Liu, Ping, Zhao, Yue, Zhao, Hongcui, Chen, Yaoyong, Yu, Yang, Liu, Jiang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6079081/
https://www.ncbi.nlm.nih.gov/pubmed/30109120
http://dx.doi.org/10.1038/s41421-018-0039-9
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author Li, Congru
Fan, Yong
Li, Guoqiang
Xu, Xiaocui
Duan, Jialei
Li, Rong
Kang, Xiangjin
Ma, Xin
Chen, Xuepeng
Ke, Yuwen
Yan, Jie
Lian, Ying
Liu, Ping
Zhao, Yue
Zhao, Hongcui
Chen, Yaoyong
Yu, Yang
Liu, Jiang
author_facet Li, Congru
Fan, Yong
Li, Guoqiang
Xu, Xiaocui
Duan, Jialei
Li, Rong
Kang, Xiangjin
Ma, Xin
Chen, Xuepeng
Ke, Yuwen
Yan, Jie
Lian, Ying
Liu, Ping
Zhao, Yue
Zhao, Hongcui
Chen, Yaoyong
Yu, Yang
Liu, Jiang
author_sort Li, Congru
collection PubMed
description DNA methylation plays important roles during development. However, the DNA methylation reprogramming of functional elements has not been fully investigated during mammalian embryonic development. Herein, using our modified MethylC-Seq library generation method and published post-bisulphite adapter-tagging (PBAT) method, we generated genome-wide DNA methylomes of human gametes and early embryos at single-base resolution and compared them with mouse methylomes. We showed that the dynamics of DNA methylation in functional elements are conserved between humans and mice during early embryogenesis, except for satellite repeats. We further found that oocyte-specific hypomethylated promoters usually exhibit low CpG densities. Genes with oocyte-specific hypomethylated promoters generally show oocyte-specific hypomethylated genic and intergenic regions, and these hypomethylated regions contribute to the hypomethylation pattern of mammalian oocytes. Furthermore, hypomethylated genic regions with low CG densities correlate with gene silencing in oocytes, whereas hypomethylated genic regions with high CG densities correspond to high gene expression. We further show that methylation reprogramming of enhancers during early embryogenesis is highly associated with the development of almost all human organs. Our data support the hypothesis that DNA methylation plays important roles during mammalian development.
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spelling pubmed-60790812018-08-14 DNA methylation reprogramming of functional elements during mammalian embryonic development Li, Congru Fan, Yong Li, Guoqiang Xu, Xiaocui Duan, Jialei Li, Rong Kang, Xiangjin Ma, Xin Chen, Xuepeng Ke, Yuwen Yan, Jie Lian, Ying Liu, Ping Zhao, Yue Zhao, Hongcui Chen, Yaoyong Yu, Yang Liu, Jiang Cell Discov Article DNA methylation plays important roles during development. However, the DNA methylation reprogramming of functional elements has not been fully investigated during mammalian embryonic development. Herein, using our modified MethylC-Seq library generation method and published post-bisulphite adapter-tagging (PBAT) method, we generated genome-wide DNA methylomes of human gametes and early embryos at single-base resolution and compared them with mouse methylomes. We showed that the dynamics of DNA methylation in functional elements are conserved between humans and mice during early embryogenesis, except for satellite repeats. We further found that oocyte-specific hypomethylated promoters usually exhibit low CpG densities. Genes with oocyte-specific hypomethylated promoters generally show oocyte-specific hypomethylated genic and intergenic regions, and these hypomethylated regions contribute to the hypomethylation pattern of mammalian oocytes. Furthermore, hypomethylated genic regions with low CG densities correlate with gene silencing in oocytes, whereas hypomethylated genic regions with high CG densities correspond to high gene expression. We further show that methylation reprogramming of enhancers during early embryogenesis is highly associated with the development of almost all human organs. Our data support the hypothesis that DNA methylation plays important roles during mammalian development. Nature Publishing Group UK 2018-08-07 /pmc/articles/PMC6079081/ /pubmed/30109120 http://dx.doi.org/10.1038/s41421-018-0039-9 Text en © The Author(s) 2018 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Li, Congru
Fan, Yong
Li, Guoqiang
Xu, Xiaocui
Duan, Jialei
Li, Rong
Kang, Xiangjin
Ma, Xin
Chen, Xuepeng
Ke, Yuwen
Yan, Jie
Lian, Ying
Liu, Ping
Zhao, Yue
Zhao, Hongcui
Chen, Yaoyong
Yu, Yang
Liu, Jiang
DNA methylation reprogramming of functional elements during mammalian embryonic development
title DNA methylation reprogramming of functional elements during mammalian embryonic development
title_full DNA methylation reprogramming of functional elements during mammalian embryonic development
title_fullStr DNA methylation reprogramming of functional elements during mammalian embryonic development
title_full_unstemmed DNA methylation reprogramming of functional elements during mammalian embryonic development
title_short DNA methylation reprogramming of functional elements during mammalian embryonic development
title_sort dna methylation reprogramming of functional elements during mammalian embryonic development
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6079081/
https://www.ncbi.nlm.nih.gov/pubmed/30109120
http://dx.doi.org/10.1038/s41421-018-0039-9
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