Liu Zhao-Yu, Xing Jian-Feng, Chen Wei, Luan Mei-Wei, Xie Rui, Huang Jing, Xie Shang-Qian, Xiao Chuan-Le
1Hainan Key Laboratory for Biology of Tropical Ornamental Plant Germplasm, Institute of Tropical Agriculture and Forestry, Hainan University, 570228 Haikou, China.
2State Key Laboratory of Ophthalmology, Zhongshan Ophthalmic Center, Sun Yat-sen University, 510060 Guangzhou, China.
Hortic Res. 2019 Jun 15;6:78. doi: 10.1038/s41438-019-0160-4. eCollection 2019.
Eukaryotic DNA methylation has been receiving increasing attention for its crucial epigenetic regulatory function. The recently developed single-molecule real-time (SMRT) sequencing technology provides an efficient way to detect DNA N6-methyladenine (6mA) and N4-methylcytosine (4mC) modifications at a single-nucleotide resolution. The family Rosaceae contains horticultural plants with a wide range of economic importance. However, little is currently known regarding the genome-wide distribution patterns and functions of 6mA and 4mC modifications in the Rosaceae. In this study, we present an integrated DNA 6mA and 4mC modification database for the Rosaceae (MDR, http://mdr.xieslab.org). MDR, the first repository for displaying and storing DNA 6mA and 4mC methylomes from SMRT sequencing data sets for Rosaceae, includes meta and statistical information, methylation densities, Gene Ontology enrichment analyses, and genome search and browse for methylated sites in NCBI. MDR provides important information regarding DNA 6mA and 4mC methylation and may help users better understand epigenetic modifications in the family Rosaceae.
真核生物DNA甲基化因其关键的表观遗传调控功能而受到越来越多的关注。最近开发的单分子实时（SMRT）测序技术提供了一种在单核苷酸分辨率下检测DNA N6-甲基腺嘌呤（6mA）和N4-甲基胞嘧啶（4mC）修饰的有效方法。蔷薇科包含具有广泛经济重要性的园艺植物。然而，目前对于蔷薇科中6mA和4mC修饰的全基因组分布模式和功能知之甚少。在本研究中，我们展示了一个针对蔷薇科的综合DNA 6mA和4mC修饰数据库（MDR，http://mdr.xieslab.org）。MDR是首个用于展示和存储来自蔷薇科SMRT测序数据集的DNA 6mA和4mC甲基化组的数据库，包括元数据和统计信息、甲基化密度、基因本体富集分析，以及在NCBI中对甲基化位点的基因组搜索和浏览。MDR提供了有关DNA 6mA和4mC甲基化的重要信息，并可能帮助用户更好地理解蔷薇科中的表观遗传修饰。
