Momo John, Islam Khushbu, Biswas Souparna, Rawoof Abdul, Ahmad Ilyas, Ramchiary Nirala
School of Life Science, Jawaharlal Nehru University, New Delhi, 110067 India.
Department of Biological Sciences and Biodiscovery Institute, University of North Texas, Denton, TX USA.
Physiol Mol Biol Plants. 2025 Mar;31(3):453-475. doi: 10.1007/s12298-025-01581-7. Epub 2025 Apr 9.
Global omics offer extensive insights into the diversity of essential biomolecules across various plant developmental stages. Despite advancements in high-throughput technologies, the integrated analysis of global omics such as proteomics, transcriptomics, and metabolomics, is yet to be fully explored in fruits of species. In this study, we used an integrated omics approach to identify proteins involved in fruit development, and metabolite biosynthesis in the placenta and pericarp tissues of two contrasting genotypes belonging to ghost chili () and . The mass spectrometry analysis identified a total of 4,473 and 2,012 proteins from the pericarp and placenta tissues of fruits. We observed expression of developmental stage-specific proteins, such as kinases, transferases, ion transporters, F-box proteins, and transcription factors that were enriched in the biosynthesis of primary and secondary metabolites. The abundance of these proteins corresponded with RNAseq data. Key proteins related to capsaicinoids biosynthesis, such as Acyltransferase 3, 3-oxoacyl-[acyl-carrier protein], 4-coumaroyl co-A ligase, and 3-ketoacyl-coA synthase 3, were identified in placenta of highly pungent ghost chili, along with J-domain proteins and transcription factors such as MYB101, MYB 14-like, bHLH112, NAC, and Cyt p450 CYP82D47, suggesting their role in capsaicinoids and secondary metabolites biosynthesis. Further, we observed a correlation of the expression of genes and proteins with the abundance of primary and secondary metabolites, such as carbohydrates, alcohols, fatty acids, phenolics, glycerides, polyamines, and amino acids. Our findings provide a novel multiomics resources for future functional studies, with potential applications in breeding programs.
The online version contains supplementary material available at 10.1007/s12298-025-01581-7.
全球组学为深入了解各种植物发育阶段必需生物分子的多样性提供了广泛的见解。尽管高通量技术取得了进展，但蛋白质组学、转录组学和代谢组学等全球组学的综合分析在该物种的果实中尚未得到充分探索。在本研究中，我们采用综合组学方法，鉴定参与两种不同基因型（鬼椒和）果实发育以及胎座和果皮组织中代谢物生物合成的蛋白质。质谱分析从果实的果皮和胎座组织中总共鉴定出4473种和2012种蛋白质。我们观察到发育阶段特异性蛋白质的表达，如激酶、转移酶、离子转运蛋白、F-box蛋白和转录因子，这些蛋白质在初级和次级代谢物的生物合成中富集。这些蛋白质的丰度与RNAseq数据相对应。在高辣度鬼椒的胎座中鉴定出与辣椒素生物合成相关的关键蛋白质，如酰基转移酶3、3-氧代酰基-[酰基载体蛋白]、4-香豆酰辅酶A连接酶和3-酮酰基辅酶A合酶3，以及J结构域蛋白和转录因子，如MYB101、MYB 14样、bHLH112、NAC和细胞色素P450 CYP82D47，表明它们在辣椒素和次级代谢物生物合成中的作用。此外，我们观察到基因和蛋白质的表达与初级和次级代谢物的丰度之间存在相关性，这些代谢物包括碳水化合物、醇类、脂肪酸、酚类、甘油酯、多胺和氨基酸。我们的研究结果为未来的功能研究提供了一种新的多组学资源，在育种计划中具有潜在应用价值。
在线版本包含可在10.1007/s12298-025-01581-7获取的补充材料。
