Selective Chemical Labeling and Sequencing of 5-Hydroxymethylcytosine in DNA at Single-Base Resolution

5-Hydroxymethylcytosine (5hmC), the oxidative product of 5-methylcytosine (5mC) catalyzed by ten-eleven translocation enzymes, plays an important role in many biological processes as an epigenetic mediator. Prior studies have shown that 5hmC can be selectively labeled with chemically modified glucos...

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Autores principales:	Xiaogang Li, Xinxin Shi, Yin Gong, Wenting Guo, Yuanrui Liu, Chunwei Peng, Yingchun Xu
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	5-hydroxymethylcytosine single-base resolution chemical labeling cost-effective AID/APOBEC family Genetics QH426-470
Acceso en línea:	https://doaj.org/article/82025f80662f4ab5b10c2f6e4ccf937c
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spelling	oai:doaj.org-article:82025f80662f4ab5b10c2f6e4ccf937c2021-11-17T07:04:13ZSelective Chemical Labeling and Sequencing of 5-Hydroxymethylcytosine in DNA at Single-Base Resolution1664-802110.3389/fgene.2021.749211https://doaj.org/article/82025f80662f4ab5b10c2f6e4ccf937c2021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fgene.2021.749211/fullhttps://doaj.org/toc/1664-80215-Hydroxymethylcytosine (5hmC), the oxidative product of 5-methylcytosine (5mC) catalyzed by ten-eleven translocation enzymes, plays an important role in many biological processes as an epigenetic mediator. Prior studies have shown that 5hmC can be selectively labeled with chemically modified glucose moieties and enriched using click chemistry with biotin affinity approaches. Besides, DNA deaminases of the AID/APOBEC family can discriminate modified 5hmC bases from cytosine (C) or 5mC. Herein, we developed a method based on embryonic stem cell (ESC) whole-genome analysis, which could enrich 5hmC-containing DNA by selective chemical labeling and locate 5hmC sites at single-base resolution with enzyme-based deamination. The combination experimental design is an extension of previous methods, and we hope that this cost-effective single-base resolution 5hmC sequencing method could be used to promote the mechanism and diagnosis research of 5hmC.Xiaogang LiXiaogang LiXiaogang LiXinxin ShiYin GongWenting GuoYuanrui LiuChunwei PengYingchun XuYingchun XuFrontiers Media S.A.article5-hydroxymethylcytosinesingle-base resolutionchemical labelingcost-effectiveAID/APOBEC familyGeneticsQH426-470ENFrontiers in Genetics, Vol 12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	5-hydroxymethylcytosine single-base resolution chemical labeling cost-effective AID/APOBEC family Genetics QH426-470
spellingShingle	5-hydroxymethylcytosine single-base resolution chemical labeling cost-effective AID/APOBEC family Genetics QH426-470 Xiaogang Li Xiaogang Li Xiaogang Li Xinxin Shi Yin Gong Wenting Guo Yuanrui Liu Chunwei Peng Yingchun Xu Yingchun Xu Selective Chemical Labeling and Sequencing of 5-Hydroxymethylcytosine in DNA at Single-Base Resolution
description	5-Hydroxymethylcytosine (5hmC), the oxidative product of 5-methylcytosine (5mC) catalyzed by ten-eleven translocation enzymes, plays an important role in many biological processes as an epigenetic mediator. Prior studies have shown that 5hmC can be selectively labeled with chemically modified glucose moieties and enriched using click chemistry with biotin affinity approaches. Besides, DNA deaminases of the AID/APOBEC family can discriminate modified 5hmC bases from cytosine (C) or 5mC. Herein, we developed a method based on embryonic stem cell (ESC) whole-genome analysis, which could enrich 5hmC-containing DNA by selective chemical labeling and locate 5hmC sites at single-base resolution with enzyme-based deamination. The combination experimental design is an extension of previous methods, and we hope that this cost-effective single-base resolution 5hmC sequencing method could be used to promote the mechanism and diagnosis research of 5hmC.
format	article
author	Xiaogang Li Xiaogang Li Xiaogang Li Xinxin Shi Yin Gong Wenting Guo Yuanrui Liu Chunwei Peng Yingchun Xu Yingchun Xu
author_facet	Xiaogang Li Xiaogang Li Xiaogang Li Xinxin Shi Yin Gong Wenting Guo Yuanrui Liu Chunwei Peng Yingchun Xu Yingchun Xu
author_sort	Xiaogang Li
title	Selective Chemical Labeling and Sequencing of 5-Hydroxymethylcytosine in DNA at Single-Base Resolution
title_short	Selective Chemical Labeling and Sequencing of 5-Hydroxymethylcytosine in DNA at Single-Base Resolution
title_full	Selective Chemical Labeling and Sequencing of 5-Hydroxymethylcytosine in DNA at Single-Base Resolution
title_fullStr	Selective Chemical Labeling and Sequencing of 5-Hydroxymethylcytosine in DNA at Single-Base Resolution
title_full_unstemmed	Selective Chemical Labeling and Sequencing of 5-Hydroxymethylcytosine in DNA at Single-Base Resolution
title_sort	selective chemical labeling and sequencing of 5-hydroxymethylcytosine in dna at single-base resolution
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/82025f80662f4ab5b10c2f6e4ccf937c
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Selective Chemical Labeling and Sequencing of 5-Hydroxymethylcytosine in DNA at Single-Base Resolution

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