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MetabolomicsAn Integrated Biochemical, Proteomics, and Metabolomics Approach for Supporting Medicinal Value of Panax ginseng Fruits (GC-MS assay)
Panax ginseng roots are well known for their medicinal properties and have been used in Korean and Chinese traditional medicines for 1000s of years. However, the medicinal value of P. ginseng fruits remain poorly characterized. Using gas chromatography-time of flight mass spectrometry (GC-TOF MS), 6...
2016-11-18 | MTBLS350 | MetaboLights
ProteomicsDatasets for comprehensive DIA-MS proteomics of root basal nodes elucidates mechanisms of salinity tolerance in rice
Global climate change and environmental pollution have imposed severe challenges on global food security by exacerbating abiotic stresses such as salinity. Rice, in particular, is susceptible to high soil salinity which not only restricts rice growth but also limits its yield and tolerance to other ...
ORGANISM(S): Oryza sativa (Rice) 
2026-09-14 | PXD068619 | Pride
Oryza sativa Salinity stress Dia-ms Root basal node Proteomics 
ProteomicsLabel-free Quantitative Proteomics Approach to Unravel the Jerusalem artichoke (Helianthus tuberosus L.) Tuber
The present research investigates a ‘medicinal’ plant Jerusalem artichoke (abbreviated as JA) (Helianthus tuberosus L.) tuber proteome with an aim to unravel its proteome using a high-throughput proteomics technique. Although JA has been historically know to the Native Americans, it was brought back...
ORGANISM(S): Helianthus tuberosus 
2022-02-21 | PXD030744 | Pride
Type 2 diabetes mellitus Solid-phase extraction Jerusalem artichoke Lc-ms/ms 
ProteomicsIntegrated analyses of shotgun proteomics and metabolomics reveal its association with rise of secondary metabolites of warm water imbibition soybean seeds
For production of soy-foods or supplements, imbibition of soybean seeds in the water is required step for generation of tofu, soy-milk, and other soy-products. With an aim to get new insight into effects of different imbibition temperature (4, 25, and 55℃), this study conducted integrated proteomics...
ORGANISM(S): Glycine max 
2020-09-25 | PXD014152 | Pride
Perseus Imbibition Basic ph reversed phase Tandem mass tag Shotgun proteomics Maxquant Soybean seed Filter-aided sample preparation Isoflavone 
ProteomicsCytosolic and plasma membrane proteome analysis of rice leaves in response to MSP1 treatment
MSP1 is a Magnaporthe oryzae secreted protein that elicits defense responses in rice. However, the molecular mechanism of MSP1 action is largely elusive. Here, we employed a TMT-based quantitative proteomic analysis of cytoplasmic as well as plasma membrane proteins to decipher the MSP1 induced sign...
ORGANISM(S): Oryza sativa (Rice) 
2019-08-30 | PXD014758 | Pride
Msp1 Rice Tmt Plasma membrane Plant-pathogen interaction Pamp 
ProteomicsProteome datasets for root‑preferential OsPUB36 modulates ROS levels and regulates root development
Root development is tightly regulated by spatial gradients of reactive oxygen species (ROS), which coordinate transitions from cell division to elongation and differentiation. Through phylogenetic meta-analysis, we identified a root-preferential subclass of class III PUB E3 ubiquitin ligases (OsPUB3...
ORGANISM(S): Oryza sativa (Rice) 
2026-10-07 | PXD067944 | Pride
Tandem mass tags Ros homeostasis Rice root E3 ubiquitin ligase Lc-ms/ms 
ProteomicsIntegrated phosphoproteome, ubiquitinome, and acetylome analyses uncovering the post-translational modifications crosstalk during MSP1-induced signaling in rice
Magnaporthe oryzae snodprot1 homologous protein (MSP1) has been shown to act as a pathogen-associated molecular pattern (PAMPs) and trigger PAMP-triggered immunity (PTI) response involving programmed cell death and expression of various defense-related genes in rice. The involvement of several post-...
ORGANISM(S): Oryza sativa (Rice) 
2023-07-21 | PXD039997 | Pride
Msp1 Signaling Post-translational modifications Rice 
ProteomicsProteomic profiling for elucidating the molecular mechanism in early seed development in rice
Understanding the molecular mechanisms underlying early seed development is important for improving grain yield and quality in crop plants. To investigate the molecular mechanisms that occur during early seed development, we performed comparative label-free quantitative proteomic analysis on develop...
ORGANISM(S): Oryza sativa (Rice) 
2023-12-05 | PXD043162 | Pride
Rice Early seed development Ctp synthase Proteomic profiling Mcm proteins Protein stability 
ProteomicsSimple Strategy of Integrating the Micro-centrifugation-based Extraction and 4-Hexylphenylazosulfonate for the Preparation of Plant Microsomal Proteins for Bottom-Up Proteomics
The preparation of high-quality microsomal proteins (MPs) is of critical importance to high-throughput microsomal proteomics. The isolation of MPs for proteomic analysis has to date relied on Ultracentrifugation-based methods (UBMs), however, these methods are labor-intensive, time-consuming, and un...
ORGANISM(S): Oryza sativa subsp. japonica (Rice) 
2021-09-29 | PXD025132 | Pride
Rice leaves Perseus Label-free quantitative proteomics Ultracentrifugation Micro-centrifugation Azo Maxquant Microsomal membrane extraction Plasma membrane Sds 
ProteomicsComparison of in-solution digestion, FASP, S-trap, and SP3-based sample preparation for bottom-up proteomic study in plant tissues
Efficient and reproducible sample preparation remains a major challenge in bottom-up plant proteomics because plant tissues require extensive solubilization and careful removal of salts, detergents, and metabolite derived impurities before liquid chromatography tandem mass spectrometry analysis. The...
ORGANISM(S): Oryza sativa (Rice) 
2026-10-07 | PXD071817 | Pride
Rice In-solution digestion Dia 4d-dia Sp3 Fasp S-trap Bottom-up proteomics Dda 
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