CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal.
BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal.
Methods Mol Biol. 2023;2581:367-383. doi: 10.1007/978-1-0716-2784-6_26.
Plant sumoylation research has seen significant advances in recent years, particularly since high-throughput proteomic strategies have enabled the discovery of more than one thousand SUMO targets. In the present chapter, we update the previously reported SUMO (small ubiquitin-related modifier) gene network (SGN) to its v4 iteration. SGN is a curated assembly of Arabidopsis thaliana genes that have been functionally associated with sumoylation, from SUMO pathway components to targets and interactors. The enclosed tutorial helps interpret and manage these datasets and details bioinformatic tools that can be used for in silico-based hypothesis generation. The latter include tools for sumoylation site prediction, comparative genomics, and gene network analysis.
近年来，植物类泛素化研究取得了重大进展，尤其是高通量蛋白质组学策略的应用，使得超过一千个 SUMO 靶标被发现。在本章中，我们对之前报道的 SUMO（小泛素相关修饰物）基因网络（SGN）进行了更新，达到了其 v4 迭代版本。SGN 是一个经过精心整理的拟南芥基因集合，这些基因与 SUMO 途径的组成部分、靶标和相互作用因子等泛素化功能相关。随附的教程可帮助解释和管理这些数据集，并详细介绍可用于基于计算机的假设生成的生物信息学工具。后者包括用于 SUMO 修饰位点预测、比较基因组学和基因网络分析的工具。
