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Comparative proteomics analysis of two oat varieties at different developmental stages

ABSTRACT: This study explored the molecular mechanisms underlying oat grain development in two oat varieties, Bannister and Bilby, with a focus on lipid biosynthesis.

INSTRUMENT(S):

ORGANISM(S): Avena Sativa

TISSUE(S): Seed

SUBMITTER: Darren Lau

LAB HEAD: Peter Hoffmann

PROVIDER: PXD058633 | Pride | 2025-04-04

REPOSITORIES: Pride

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			Action	DRS
	20240102_Bannister_12DAP1_AT18_ISG260_45mins_12.timeseries.data	Other
	20240102_Bannister_12DAP1_AT18_ISG260_45mins_12.wiff	Wiff
	20240102_Bannister_12DAP1_AT18_ISG260_45mins_12.wiff.scan	Wiff
	20240102_Bannister_12DAP1_AT18_ISG260_45mins_12.wiff2	Wiff
	20240102_Bannister_12DAP2_AT18_ISG260_45mins_13.timeseries.data	Other

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Project description:For proteomic analysis, ADSCs from four independent donors were analyzed (n = 4 biological replicates per condition, OM vs. SM). Cell pellets were lysed in 5% sodium de-oxycholate buffer containing TCEP and CAA, supplemented with protease and phospha-tase inhibitors, followed by sonication and incubation at 60 °C. Protein concentration was determined by BCA assay, and 25 µg of protein was processed with a modified FASP pro-tocol employing 30 kDa filters. After trypsin/LysC digestion, peptides were purified on Waters HLB plates, eluted with 70% acetonitrile/0.1% TFA, dried, and stored at −80 °C. Background: Adipose-derived mesenchymal stem/stromal cells (ADSCs) are gaining recognition in regenerative medicine thanks to their potential for adipogenic, osteogenic, and chondrogenic differentiation, as well as their immunomodulatory properties. How-ever, ADSC-based therapies focus either on differentiation for tissue replacements or on counteracting the unrestrained inflammation to prevent tissue destruction and initiate re-generation. Here, we aim to examine the immunomodulatory potential of osteogenically differentiated ADSCs by analyzing their proteomic profile. Methods: using the LC-MS/MS technique, we created the proteomic profile of differentiated and undifferentiated ADSCs, and compared them with the Reactome database. The transcriptomic analysis was also performed and compared to the proteomic profile. Results: the comparison of proteomic (499 up-regulated; 355 down-regulated) and transcriptomic (212 up-regulated; 232 down-regulated) profiles showed 60,1% concordance – both proteins and transcripts showed the same trend. Significantly upregulated proteins in differentiating ADSCs (−log₁₀ p >5 and >10) were grouped into four categories: propensity for osteogenic differen-tiation; immunomodulation/immune/inflammatory response; cell senescence; cell cycle regulation. Among those proteins, thirteen were reported to play some role in processes such as immunomodulation, inflammatory signaling, transplant rejection, or graft-versus-host disease. Conclusions: we observed that differentiating ADSCs might still exert immunomodulatory effects, which could be used in the treatment of e.g., GvHD.

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Comparative proteomics analysis of two oat varieties at different developmental stages

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