National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan 430070, Hubei, China; Hubei Key Laboratory of Agricultural Bioinformatics and Hubei Engineering Technology Research Center of Agricultural Big Data, College of Informatics, Huazhong Agricultural University, Wuhan 430070, China.
Hubei Key Laboratory of Agricultural Bioinformatics and Hubei Engineering Technology Research Center of Agricultural Big Data, College of Informatics, Huazhong Agricultural University, Wuhan 430070, China.
Plant Commun. 2024 Oct 14;5(10):101038. doi: 10.1016/j.xplc.2024.101038. Epub 2024 Jul 11.
Comparative metabolomics plays a crucial role in investigating gene function, exploring metabolite evolution, and accelerating crop genetic improvement. However, a systematic platform for intra- and cross-species comparison of metabolites is currently lacking. Here, we report the Plant Comparative Metabolome Database (PCMD; http://yanglab.hzau.edu.cn/PCMD), a multilevel comparison database based on predicted metabolic profiles of 530 plant species. The PCMD serves as a platform for comparing metabolite characteristics at various levels, including species, metabolites, pathways, and biological taxonomy. The database also provides a number of user-friendly online tools, such as species comparison, metabolite enrichment, and ID conversion, enabling users to perform comparisons and enrichment analyses of metabolites across different species. In addition, the PCMD establishes a unified system based on existing metabolite-related databases by standardizing metabolite numbering. The PCMD is the most species-rich comparative plant metabolomics database currently available, and a case study demonstrates its ability to provide new insights into plant metabolic diversity.
比较代谢组学在研究基因功能、探索代谢物进化以及加速作物遗传改良方面发挥着关键作用。然而，目前缺乏用于种内和种间代谢物比较的系统平台。在这里，我们报告了植物比较代谢组数据库（PCMD；http://yanglab.hzau.edu.cn/PCMD），这是一个基于 530 种植物预测代谢图谱的多层次比较数据库。PCMD 可作为在不同水平上比较代谢物特征的平台，包括物种、代谢物、途径和生物分类学。该数据库还提供了一些用户友好的在线工具，如物种比较、代谢物富集和 ID 转换，使用户能够在不同物种之间进行代谢物的比较和富集分析。此外，PCMD 通过标准化代谢物编号，在现有的代谢物相关数据库基础上建立了一个统一的系统。PCMD 是目前物种最丰富的比较植物代谢组学数据库，案例研究表明它能够为植物代谢多样性提供新的见解。
