Comparative Analysis of the Composition of Exosome-Like Nanoparticles from Dried and Fresh Portulaca oleracea L.

Study Overview:This study employed metabolomics, lipidomics, and proteomics to investigate the impact of drying treatment on the molecular composition of exosome-like nanoparticlesderived from Portulaca oleracea L (PELNs) .Sample and Experimental Design:The experimental design included two groups: Fresh PELNs (F-PELNs) and Dried PELNs (D-PELNs), with 3 biological replicates per group.Data Acquisition Methods:Metabolomics: Analyses were performed using an ACQUITY UPLC I-Class HF system (Waters, USA) coupled to a Q Exactive (QE) Plus mass spectrometer (Thermo Fisher Scientific, USA). Chromatographic separation was achieved using an ACQUITY UPLC HSS T3 column (100 mm × 2.1 mm, 1.8 μm) with data acquired in both positive and negative ionization modes.Lipidomics：Analyses were performed using a Vanquish UHPLC system (Thermo Fisher Scientific, USA) equipped with a du-al-channel pump, vacuum degasser, auto-sampler, and column oven, coupled to a QE Plus mass spectrometer (Thermo Fisher Scientific, USA). Chromatographic separation was achieved using an ACQUITY UPLC BEH C18 column (100 × 2.1 mm, 1.7 μm) with data acquired in both positive and negative ionization modes.Proteomics: Protein samples were digested with trypsin] and analyzed by nanoLC-MS/MS. Mass spectrometry data were acquired in Data-Dependent Acquisition (DDA) mode.Data Processing:Raw mass spectrometry data from metabolomics and lipidomics were processed using Progenesis QI software and Lipidsearch for peak picking, alignment, and metabolite/lipid identification. Proteomics data were processed and quantified using MaxQuant software. Data Content:This dataset contains:Raw mass spectrometry files (.raw) for metabolomics and lipidomics.Raw data files(.raw) for proteomics.Data Quality:Quality control (QC) samples were interspersed throughout the data acquisition sequence. For metabolomics and lipidomics, the relative standard deviations (RSDs) for the retention times and peak intensities of internal standards in the QC samples were all below 15%, demonstrating good stability and reproducibility of the analytical run.License and Potential Reuse:This dataset is licensed under [CC-BY 4.0]. These data provide a comprehensive multi-omics resource for understanding the molecular changes in PELNs induced by drying, suitable for subsequent integrative analysis, biomarker discovery, or as a reference dataset for methodological comparisons.