机构：[1]Rice Research Institute, Guangdong Academy of Agricultural Sciences, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Guangzhou, 510640, China [2]State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of State Forestry Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China [3]Microbiology and Metabolic Engineering Key Laboratory of Sichuan Province, College of Life Science, Sichuan University, Chengdu, Sichuan, 610041, China [4]Frontiers Science Center for Disease-related Molecular Network, Laboratory of Omics Technology and Bioinformatics, West China Hospital, Sichuan University, Chengdu, Sichuan, 610041, China 四川大学华西医院[5]Epigenetics Laboratory, Max Planck Institute for Heart and Lung Research & Cardiopulmonary Institute (CPI). Parkstr.1 61231 Bad Nauheim Germany [6]Guangdong Provincial Key Laboratory of Silviculture, Protection and Utilization/Guangdong Academy of Forestry, Guangzhou, Guangdong 510520, China [7]Research Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou, China [8]Precision Medicine Center, Precision Medicine Key Laboratory of Sichuan Province, West China Hospital, Sichuan University, Chengdu, Sichuan, 610041, China 四川大学华西医院[9]Sun Yat-sen University Cancer Center, State Key Laboratory Oncology in South China, Collaborative Innovation Center of Cancer Medicine, 510060, Guangzhou, China [10]Guangxi Key Laboratory of Images and Graphics Intelligent Processing, Guilin University of Electronics Technology, Guilin, 541004, China [11]Guangdong Provincial Key Laboratory of Crop Genetic Improvement, Crops Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, China
The scope and function of RNA modifications in model plant systems have been extensively studied, resulting in the identification of an increasing number of novel RNA modifications in recent years. Researchers have gradually revealed that RNA modifications, especially N6-methyladenosine (m6A), which is one of the most abundant and commonly studied RNA modifications in plants, have important roles in physiological and pathological processes. These modifications alter the structure of RNA, which affects its molecular complementarity and binding to specific proteins, thereby resulting in various of physiological effects. The increasing interest in plant RNA modifications has necessitated research into RNA modifications and associated datasets. However, there is a lack of a convenient and integrated database with comprehensive annotations and intuitive visualization of plant RNA modifications. Here, we developed the Plant RNA Modification Database (PRMD; http://bioinformatics.sc.cn/PRMD and http://rnainformatics.org.cn/PRMD) to facilitate RNA modification research. This database contains information regarding 20 plant species and provides an intuitive interface for displaying information. Moreover, PRMD offers multiple tools, including RMlevelDiff, RMplantVar, RNAmodNet and Blast (for functional analyses), and mRNAbrowse, RNAlollipop, JBrowse and Integrative Genomics Viewer (for displaying data). Furthermore, PRMD is freely available, making it useful for the rapid development and promotion of research on plant RNA modifications. Graphical Abstract
基金：
Project of Collaborative Innovation Center of GDAAS
[XTXM202203]; National Natural Science Foundation
of China [32270698, 81902872, 32271535]; Guangdong
Key Laboratory of New Technology in Rice Breeding
[2020B1212060047]; Seed Industry Revitalization Project of Special Fund for Rural Revitalization Strategy in Guangdong Province [2022NJS00004]; Special Foundation for
Introduction of Scientific Talents of GDAAS [R2021YJXD001]; National Key Research and Development Program of China [2021YFD2201205]; Basic Research Fund of
CAF [CAFYBB2020SZ002]. Funding for open access charge:
The Project of Collaborative Innovation Center of GDAAS
[XTXM202203]; National Natural Science Foundation of
China [32270698].
第一作者机构：[2]State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of State Forestry Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China [3]Microbiology and Metabolic Engineering Key Laboratory of Sichuan Province, College of Life Science, Sichuan University, Chengdu, Sichuan, 610041, China
共同第一作者：
通讯作者：
推荐引用方式(GB/T 7714)：
Xiaoqiang Lang,Chunyan Yu,Mengyuan Shen,et al.PRMD: an integrated database for plant RNA modifications[J].NUCLEIC ACIDS RESEARCH.2024,52(D1):D1597-D1613.doi:10.1093/nar/gkad851.
APA：
Xiaoqiang Lang,Chunyan Yu,Mengyuan Shen,Lei Gu,Qian Qian...&Qi Liu.(2024).PRMD: an integrated database for plant RNA modifications.NUCLEIC ACIDS RESEARCH,52,(D1)
MLA：
Xiaoqiang Lang,et al."PRMD: an integrated database for plant RNA modifications".NUCLEIC ACIDS RESEARCH 52..D1(2024):D1597-D1613
生物学