Bisulfite-free and Base-resolution Analysis of 5-formylcytosine at Whole-genome Scale

Active DNA demethylation in mammals involves TET-mediated oxidation of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC) and 5-carboxycytosine (5caC). However, genome-wide detection of 5fC at single-base resolution remains challenging. Here we present a bisulfite-free...

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Autores principales: Xia, Bo, Han, Dali, Lu, Xingyu, Sun, Zhaozhu, Zhou, Ankun, Yin, Qiangzong, Zeng, Hu, Liu, Menghao, Jiang, Xiang, Xie, Wei, He, Chuan, Yi, Chengqi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: 2015
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4626315/
https://www.ncbi.nlm.nih.gov/pubmed/26344045
http://dx.doi.org/10.1038/nmeth.3569
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author Xia, Bo
Han, Dali
Lu, Xingyu
Sun, Zhaozhu
Zhou, Ankun
Yin, Qiangzong
Zeng, Hu
Liu, Menghao
Jiang, Xiang
Xie, Wei
He, Chuan
Yi, Chengqi
author_facet Xia, Bo
Han, Dali
Lu, Xingyu
Sun, Zhaozhu
Zhou, Ankun
Yin, Qiangzong
Zeng, Hu
Liu, Menghao
Jiang, Xiang
Xie, Wei
He, Chuan
Yi, Chengqi
author_sort Xia, Bo
collection PubMed
description Active DNA demethylation in mammals involves TET-mediated oxidation of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC) and 5-carboxycytosine (5caC). However, genome-wide detection of 5fC at single-base resolution remains challenging. Here we present a bisulfite-free method for whole-genome analysis of 5fC, based on selective chemical labeling of 5fC and subsequent C-to-T transition during PCR. Base-resolution 5fC maps reveal limited overlap with 5hmC, with 5fC-marked regions more active than 5hmC-marked ones.
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spelling pubmed-46263152016-05-01 Bisulfite-free and Base-resolution Analysis of 5-formylcytosine at Whole-genome Scale Xia, Bo Han, Dali Lu, Xingyu Sun, Zhaozhu Zhou, Ankun Yin, Qiangzong Zeng, Hu Liu, Menghao Jiang, Xiang Xie, Wei He, Chuan Yi, Chengqi Nat Methods Article Active DNA demethylation in mammals involves TET-mediated oxidation of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC) and 5-carboxycytosine (5caC). However, genome-wide detection of 5fC at single-base resolution remains challenging. Here we present a bisulfite-free method for whole-genome analysis of 5fC, based on selective chemical labeling of 5fC and subsequent C-to-T transition during PCR. Base-resolution 5fC maps reveal limited overlap with 5hmC, with 5fC-marked regions more active than 5hmC-marked ones. 2015-09-07 2015-11 /pmc/articles/PMC4626315/ /pubmed/26344045 http://dx.doi.org/10.1038/nmeth.3569 Text en http://www.nature.com/authors/editorial_policies/license.html#terms Users may view, print, copy, and download text and data-mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use:http://www.nature.com/authors/editorial_policies/license.html#terms
spellingShingle Article
Xia, Bo
Han, Dali
Lu, Xingyu
Sun, Zhaozhu
Zhou, Ankun
Yin, Qiangzong
Zeng, Hu
Liu, Menghao
Jiang, Xiang
Xie, Wei
He, Chuan
Yi, Chengqi
Bisulfite-free and Base-resolution Analysis of 5-formylcytosine at Whole-genome Scale
title Bisulfite-free and Base-resolution Analysis of 5-formylcytosine at Whole-genome Scale
title_full Bisulfite-free and Base-resolution Analysis of 5-formylcytosine at Whole-genome Scale
title_fullStr Bisulfite-free and Base-resolution Analysis of 5-formylcytosine at Whole-genome Scale
title_full_unstemmed Bisulfite-free and Base-resolution Analysis of 5-formylcytosine at Whole-genome Scale
title_short Bisulfite-free and Base-resolution Analysis of 5-formylcytosine at Whole-genome Scale
title_sort bisulfite-free and base-resolution analysis of 5-formylcytosine at whole-genome scale
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4626315/
https://www.ncbi.nlm.nih.gov/pubmed/26344045
http://dx.doi.org/10.1038/nmeth.3569
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