AraENCODE: A comprehensive epigenomic database of Arabidopsis thaliana

作者：Zhenji Wang, Minghao Liu, Fuming Lai, Qiangqiang Fu, Liang Xie, Yaping Fang, Qiangwei Zhou, Guoliang Li · 发表于：Molecular Plant · 年份：2023 · DOI：10.1016/j.molp.2023.06.005 · 被引用次数：13 · 研究领域：Plant Molecular Biology Research、Plant nutrient uptake and metabolism、Plant Gene Expression Analysis

Arabidopsis thaliana is an important model organism in plant biology and genetics. The genome of Arabidopsis ecotype Columbia-0 has been sequenced and completely annotated (Cheng et al., 2017Cheng C.-Y. Krishnakumar V. Chan A.P. Thibaud-Nissen F. Schobel S. Town C.D. Araport11: a complete reannotation of the Arabidopsis thaliana reference genome.Plant J. 2017; 89: 789-804https://doi.org/10.1111/tpj.13415Crossref PubMed Scopus (544) Google Scholar), which facilitates the genomics research of plants. Over the past two decades, advances in the gene regulation studies have elucidated a spectrum of epigenetic molecular phenomena, including DNA methylation, histone modification, chromatin accessibility, and chromatin interaction, which collectively form an additional layer of information based on DNA sequence (Law and Jacobsen, 2010Law J.A. Jacobsen S.E. Establishing, maintaining and modifying DNA methylation patterns in plants and animals.Nat. Rev. Genet. 2010; 11: 204-220https://doi.org/10.1038/nrg2719Crossref PubMed Scopus (2666) Google Scholar). The epigenome landscape has been characterized in Arabidopsis as more high-throughput analyses were developed (Zhao et al., 2022Zhao L. Zhou Q. He L. Deng L. Lozano-Duran R. Li G. Zhu J.-K. DNA methylation underpins the epigenomic landscape regulating genome transcription in Arabidopsis.Genome Biol. 2022; 23: 197https://doi.org/10.1186/s13059-022-02768-xCrossref PubMed Scopus (6) Google Scholar). Without a doubt, in-depth studies of gen...