Lin Zhongyuan, Shu Jiantao, Qin Yu, Cao Dingding, Deng Jiao, Yang Pingfang
Marine and Agricultural Biotechnology Laboratory, College of Geography and Oceanography, Minjiang University, Fuzhou 350108, China.
State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan 430026, China.
Proteomes. 2025 Jan 15;13(1):4. doi: 10.3390/proteomes13010004.
is an aquatic plant with a high ornamental value due to its flower. Despite the release of several versions of the lotus genome, its annotation remains inefficient, which makes it difficult to obtain a more comprehensive knowledge when -omic studies are applied to understand the different biological processes. Focusing on the petaloid of the lotus flower, we conducted a comparative proteomic analysis among five major floral organs. The proteogenomic strategy was applied to analyze the mass spectrometry data in order to dig out novel proteoforms that are involved in the petaloids of the lotus flower. The results revealed that a total of 4863 proteins corresponding to novel genes were identified, with 227 containing single amino acid variants (SAAVs), and 72 originating from alternative splicing (AS) genes. In addition, a range of post-translational modifications (PTMs) events were also identified in lotus. Through functional annotation and homology analysis with 24 closely related plant species, we identified five candidate proteins associated with floral organ development, which were not identified by ordinary proteomic analysis. This study not only provides new insights into understanding the mechanism of petaloids in lotus but is also helpful in identifying new proteoforms to improve the annotation of the lotus genome.
是一种因其花朵而具有高观赏价值的水生植物。尽管已发布了多个版本的莲花基因组，但其注释效率仍然低下，这使得在应用组学研究来理解不同生物过程时难以获得更全面的认识。聚焦于莲花的花瓣状结构，我们对五个主要花器官进行了比较蛋白质组学分析。应用蛋白质基因组学策略分析质谱数据，以挖掘参与莲花花瓣状结构的新蛋白质形式。结果显示，共鉴定出4863个对应新基因的蛋白质，其中227个含有单氨基酸变体（SAAV），72个源自可变剪接（AS）基因。此外，在莲花中还鉴定出一系列翻译后修饰（PTM）事件。通过与24个近缘植物物种进行功能注释和同源性分析，我们鉴定出五个与花器官发育相关的候选蛋白质，这些蛋白质在普通蛋白质组学分析中未被鉴定出来。本研究不仅为理解莲花花瓣状结构的机制提供了新见解，也有助于鉴定新的蛋白质形式以改进莲花基因组的注释。
