National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, No. 1, Shizishan Street, Hongshan District, Wuhan 430070, China.
State Key Laboratory of Cotton Biology, Key Laboratory of Biological and Genetic Breeding of Cotton, The Ministry of Agriculture, Institute of Cotton Research, Chinese Academy of Agricultural Science, Anyang 455000, China.
Int J Mol Sci. 2022 May 25;23(11):5923. doi: 10.3390/ijms23115923.
RNA-binding proteins (RBPs) form complex interactions with RNA to regulate the cell's activities including cell development and disease resistance. RNA-binding proteome (RBPome) aims to profile and characterize the RNAs and proteins that interact with each other to carry out biological functions. Generally, RNA-centric and protein-centric ribonomic approaches have been successfully developed to profile RBPome in different organisms including plants and animals. Further, more and more novel methods that were firstly devised and applied in mammalians have shown great potential to unravel RBPome in plants such as RNA-interactome capture (RIC) and orthogonal organic phase separation (OOPS). Despise the development of various robust and state-of-the-art ribonomics techniques, genome-wide RBP identifications and characterizations in plants are relatively fewer than those in other eukaryotes, indicating that ribonomics techniques have great opportunities in unraveling and characterizing the RNA-protein interactions in plant species. Here, we review all the available approaches for analyzing RBPs in living organisms. Additionally, we summarize the transcriptome-wide approaches to characterize both the coding and non-coding RBPs in plants and the promising use of RBPome for booming agriculture.
RNA 结合蛋白 (RBPs) 与 RNA 形成复杂的相互作用，调节细胞的活动，包括细胞发育和疾病抗性。RNA 结合蛋白组学 (RBPome) 旨在描绘和描述相互作用以执行生物功能的 RNA 和蛋白质。通常，已经成功开发了以 RNA 为中心和以蛋白质为中心的核糖体组学方法来描绘包括植物和动物在内的不同生物体中的 RBPome。此外，越来越多的最初在哺乳动物中设计和应用的新方法显示出在植物中揭示 RBPome 的巨大潜力，例如 RNA 相互作用捕获 (RIC) 和正交有机相分离 (OOPS)。尽管各种强大和最先进的核糖体组学技术得到了发展，但植物中全基因组 RBP 的鉴定和描述相对较少，这表明核糖体组学技术在揭示和描述植物物种中的 RNA-蛋白质相互作用方面具有很大的机会。在这里，我们回顾了所有可用于分析活生物体中 RBPs 的方法。此外，我们总结了在植物中全面描绘编码和非编码 RBPs 的转录组学方法，以及 RBPome 在蓬勃发展的农业中的有希望的用途。
