Dataset Information

A compendium of bona fide reference markers of plant-derived extracellular vesicles and their degree of phylogenetic conservation

ABSTRACT: Although the field of plant-derived EVs (PDEVs) is experimenting an exponential growth, rigorous characterization complying with MISEV guidelines has not been yet implemented due to the lack of bona fide reference markers. In this work, we have paved the way for the standardization of PDEV markers, providing the most profound proteomic data so far from apoplastic washing fluid-derived EVs, as genuine extracellular vesicles from plant tissue, of two reference plant species: Arabidopsis thaliana (Arath-EVs) and Brassica oleracea (Braol-EVs). Additionally, we have conducted an exhaustive analysis of the EV proteomic data available so far from any plant species, evaluating current potential markers, together with those found in our proteomic analyses. Our results provide evidence supporting the potential use of the following families as PDEV markers: fasciclin-like arabinogalactan proteins (FLAs), patellins, germin-like proteins, aquaporins, heat shock 70 proteins, 14-3-3 like proteins, Rab proteins, and vacuolar-type ATPase complex subunits. Next, we analyzed the presence of orthologues and their degree of conservation throughout the plant kingdom, as well as in human and mouse species. Their degree of conservation was compared with that of current EV markers used in animal-derived EVs: CD63, CD81 and CD9. Among the protein families with potential to be used as PDEV markers, 3 were found to be plant-specific: FLAs, patellins and germin-like proteins. Among these, fasciclin-like arabinogalactan (FLA) proteins, in particular FLA1, FLA2 and FLA8, were recurrently identified in EVs from different plant sources showing great abundance and thus arise as a novel family of plant-specific GPI-anchored PDEV markers. Furthermore, FLAs stand as ideal PDEV markers since they have orthologues across the different plant subdivisions and display a similar phylogenetic distribution in plants to that of currently used markers in animals.

INSTRUMENT(S):

ORGANISM(S): Brassica Oleracea Var. Oleracea Arabidopsis Thaliana (mouse-ear Cress)

SUBMITTER: Fernando de la Cuesta Marina

LAB HEAD: Fernando de la Cuesta

PROVIDER: PXD058098 | Pride | 2025-09-15

REPOSITORIES: Pride

ACCESS DATA

Dataset's files

Source:

			Action	DRS
	AWF_Arath_runs.7z	Other
	ArathLYSISfirststep_and_FPsolubleprotein.7z	Other
	Braol_runs.7z	Other
	PelletVSAWF_runs.7z	Other
	Supplementary_data_table_1.xlsx	Xlsx

Items per page:

1 - 5 of 10

Publications

A Compendium of Bona Fide Reference Markers for Genuine Plant Extracellular Vesicles and Their Degree of Phylogenetic Conservation.

Rodríguez de Lope Miriam M MM Sánchez-Pajares Ibone R IR Herranz Estela E López-Vázquez Cristina M CM González-Moro Ainara A Rivera-Tenorio Alan A González-Sanz Carlos C Sacristán Soledad S Chicano-Gálvez Eduardo E de la Cuesta Fernando F

Journal of extracellular vesicles 20250901 9

Although the field of plant EVs (PEVs) is experiencing exponential growth, rigorous characterisation complying with MISEV guidelines has not been yet implemented due to the lack of bona fide reference markers. In this work, we have paved the way for the standardisation of PEV markers, providing the most profound proteomic data so far from apoplastic washing fluid-EVs, a sample enriched in genuine extracellular vesicles from plant tissue of two reference plant species: Arabidopsis thaliana (Arath ...[more]

PMID: 40903814

Similar Datasets

Project description:Microglia is emerging as a key player in the progression of neurodegenerative diseases. In pediatric neurodegenerative diseases like mucopolysaccharidosis type III (MPSIII), the progressive accumulation of abnormal glycosaminoglycans (GAGs) induces a severe neuroinflammation by triggering a microglial production of pro-inflammatory cytokines and chemokines via TLR4-dependent pathway.We have already shown the essential role of microglia in the development of neuroinflammation but the extent of its contribution in the neuropathology of MPSIII still remains unclear. Microglia interacts with other cells in the CNS via several mechanisms, including extracellular vesicle (EV) release. Although EVs have been shown to be implicated in the pathogenesis of adult neurodegenerative diseases, no reports have addressed the proteins and small RNAs profile of EVs released by microglia in the context of MPS and the effect of these EVs on neuronal functions. Here, we isolated EVs sub-populations from conditioned media of the murine BV-2 microglial cell line treated with GAG purified from urines of MPSIII patients and from age-matched unaffected children. By label-free quantitative proteomic using LC-MS/MS, we showed that MPS III-EVs are enriched in proteins involved in the inflammatory response and more specifically in neuroinflammation. On the other hand, proteins involved in axonal guidance, myelination or synaptogenesis were less abundant in MPSIII-EVs. RNA sequencing analysis revealed that MPSIII-EVs are highly enriched in 4 miRNAs - miR-155-5p, miR-146a-5p, miR-221-3p and miR-100-5p, also involved in neuroinflammation and neurodevelopment pathways. Moreover, we showed by immunofluorescence on primary cortical neurons isolated from wild type pups that MPSIII microglia-EVs reduce neurites total area, impair dendritic arborization, with a higher number of immature dendritic spines and also cause an increase in soma swelling, thus inducing a phenotype close to that observed in MPSIII brain mice. Theses findings uncover that MPSIII microglia-EVs can deliver a specific molecular message to surrounding naive cells and thus propagate neuroinflammation and deprive neurons of neurodevelopmental molecules.This work is the first report on the content of EVs released by MPSIII microglia and reveals a disease-associated signature, providing a framework for future studies on biomarkers to evaluate efficiency of emerging therapies.