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Dynamics and biological relevance of epigenetic N^(6)-methyladenine DNA modification in eukaryotic cells

Chinese Chemical Letters 2022年第5期33卷 2253-2258页

作者： Yuwei Sheng Meijuan Zhou Changjun You Xiaoxia Dai State Key Laboratory of Chemo/Biosensing and Chemometrics College of Chemistry and Chemical EngineeringMolecular Science and Biomedicine LaboratoryHunan Provincial Key Laboratory of Biomacromolecular Chemical BiologyHunan UniversityChangsha 410082China

DNA methylation represents a major type of DNA modifications that play key roles in diverse biological processes.With the recent development of highly selective and sensitive bioanalytical techniques,N^(6)-methyladenine(6mA)has been characterized as an important internal DNA modification dynamically occurring in multiple eukaryotes including humans.Increasing evidence has indicated that 6mA may act as a novel epigenetic modification involved in regulation of development,stress response and diseases such as cancer and neurodegenerative disorders.We review herein the recent advances in the detection and functional studies of 6mA modification,with special emphasis on its biological consequences and human health relevance as well as its dynamic regulation by various types of methyltransferases,demethylases and 6mA-binding proteins.It can be envisaged that further chemical and biological studies of 6mA modification will lead to a better understanding about its potentially important roles in normal and pathological biological processes.

关键词： DNA modification N^(6)-Methyladenine epigenetic mark Methyltransferase Demethylase

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Accessible chromatin regions and their functional interrelations with gene transcription and epigenetic modifications in sorghum genome

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Plant Communications 2021年第1期2卷 96-108页

作者： Chao Zhou Zhu Yuan Xueping Ma Huilan Yang Ping Wang Lanlan Zheng Yonghong Zhang Xiaoyun Liu Key Laboratory of Three Gorges Regional Plant Genetics and Germplasm Enhancement(CTGU) Biotechnology Research CenterYichang Key Laboratory of Omics-Based Breeding for Chinese MedicinesChina Three Gorges UniversityYichang 443002China Laboratory of Medicinal Plants Institute of Basic Medical SciencesSchool of Basic MedicineBiomedical Research InstituteHubei Key Laboratory of Embryonic Stem Cell ResearchHubei University of MedicineShiyan 442000China Institute for Interdisciplinary Research Jianghan UniversityWuhan 430056China Hubei Key Laboratory of Wudang Local Chinese Medicine Research Hubei University of MedicineShiyan 442000China

Accessible chromatin regions(ACRs)provide physical scaffolds to recruit transcriptional co-regulators and displace their nearby nucleosomes in multiple plant species.Characterization of ACRs and investigation of their biological effects in Sorghum bicolor has lagged behind.Regulation of gene expression relies on the transcriptional co-regulators that are recruited to ACRs to affect epigenomic modifications of surrounding nucleosomes.In this study,we employed transposase-accessible chromatin sequencing to identify ACRs and decipher how the presence of ACRs affects gene expression and epigenetic signatures in the Sorghum genome.As a result,21077 ACRs,which are mapped to 22.9%of genes and 2.7%of repeats,were identified.The profiling of ACRs on gene structures reveals a narrow and sharp peak around the transcription start site,with relatively weak and broad signals covering the entire gene body and an explicit but wide peak from the transcription termination site to its downstream regions.We discovered that the correlations between gene expression levels and profiled ACR densities are dependent on the positions of ACRs.The occurrence of genic ACRs cumulatively enhances the transcriptional activity of intergenic ACR-associated genes.In addition,an intricate crosstalk among ACRs,gene expression,and epigenetic marks has been unveiled by integrating multiple-omics analyses of whole-genome bisulfite sequencing,6mA immunoprecipitation followed by sequencing,RNA sequencing,chromatin immunoprecipitation sequencing,and DNase I hypersensitive sites sequencing datasets.Our study provides a genome-wide landscape of ACRs in sorghum,decrypts their interrelations with various epigenetic marks,and sheds new light on their roles in transcriptional regulation.

关键词： Sorghum bicolor accessible chromatin regions transcriptional regulation epigenetic mark

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