Dataset Information

Enrichment of sweat-derived extracellular vesicles of human and bacterial origin for biomarker identification

ABSTRACT: In the present study, we investigated whether sweat-derived extracellular vesicles (EVs) can be used as a source of potential protein biomarkers of human and bacterial origin. We compared protein composition of total sweat, EV-enriched sweat (after ExoEasy) and sweat samples collected with the use of alginate skin patches. We identified 1209 unique human proteins in EV-enriched sweat, of which approximately 20% were present in every individual sample investigated. Besides human proteins, sweat EV samples contained 1594 proteins of bacterial origin. Bacterial protein profiles in EV-enriched sweat were characterized by high interindividual variability, that reflected differences in total sweat composition. Alginate-based sweat patch accumulated about 30% of human proteins from those identified in sweat-derived EVs, but only 5% proteins of bacterial origin. In conclusion, we showed that sweat-derived EVs provide a rich source of potential biomarkers of human and bacterial origin and that commercially available alginate skin patches could be used for collection of human sweat EVs with very little impact of bacterial vesicles.

INSTRUMENT(S): Orbitrap Fusion Lumos

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Sweat

SUBMITTER: Anatoliy Samoylenko

LAB HEAD: Seppo Vainio

PROVIDER: PXD045589 | Pride | 2024-01-26

REPOSITORIES: Pride

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			Action	DRS
	checksum.txt	Txt
	lumos220602-10_2544-3_R-14-AG.raw	Raw
	lumos220602-12_2544-4_R-15-AG.raw	Raw
	lumos220602-14_2544-5_R-AG.raw	Raw
	lumos220602-16_2544-6_R-26-AG.raw	Raw

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Enrichment of sweat-derived extracellular vesicles of human and bacterial origin for biomarker identification.

Zhyvolozhnyi Artem A Samoylenko Anatoliy A Bart Geneviève G Kaisanlahti Anna A Hekkala Jenni J Makieieva Olha O Pratiwi Feby F Miinalainen Ilkka I Kaakinen Mika M Bergman Ulrich U Singh Prateek P Nurmi Tuomas T Khosrowbadi Elham E Abdelrady Eslam E Kellokumpu Sakari S Kosamo Susanna S Reunanen Justus J Röning Juha J Hiltunen Jussi J Vainio Seppo J SJ

Nanotheranostics 20240101 1

Sweat contains biomarkers for real-time non-invasive health monitoring, but only a few relevant analytes are currently used in clinical practice. In the present study, we investigated whether sweat-derived extracellular vesicles (EVs) can be used as a source of potential protein biomarkers of human and bacterial origin. <b>Methods:</b> By using ExoView platform, electron microscopy, nanoparticle tracking analysis and Western blotting we characterized EVs in the sweat of eight volunteers performi ...[more]

PMID: 38164498

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Project description:Circulating extracellular vesicles (EVs) contain molecular footprints - lipids, proteins, metabolites, RNA, and DNA - from their cell of origin and may provide non-invasive access for detection, characterization, and monitoring of diseases. Consequently, EV-associated RNA and proteins have gained widespread interest in developing liquid-biopsy assays for cancer. Yet, an integrative proteo-transcriptomic landscape of EVs and a direct comparison with their cell of origin remains relatively unexplored. Here, we report that EVs enrich for distinct molecular cargo and their proteo-transcriptome does not linearly correlate with their cell of origin. Our sub-cellular compartment analyses revealed that EV enrich 2-6 times more cytoskeletal and extracellular proteins, while their donor cells cargo 3-10 times more nuclear and mitochondrial proteins. EVs predominantly enrich (40-60%) for small RNA between ~15-200 nucleotides, which include miRNAs, siRNAs, tRNA, 5S rRNAs, and snRNAs, associated with cell differentiation, development, and Wnt signaling signatures. Finally, our integrated proteo-transcriptomic analyses reveal that EVs are enriched with specific small RNAs (RNY3, vtRNA, and MIRLET-7) and their complementary proteins (YBX1, IGF2BP2, SRSF1/2). These analyses suggest that RNA-protein complexes may constitute a functional interaction network inside EVs to protect and regulate access to EV-RNA. To ensure that our analyses are unbiased and independent of the cell of origin, EV isolation methods, site of experimentation, site of data generation, and methodologies applied for RNAseq and mass spectrometry, we have generated and curated comprehensive datasets of proteomics and transcriptomics from a total of 12 cancer cell lines, their EVs, and prostate cancer patientsÕ serum EVs (A detailed description is provided in Fig. 1). These combined analyses demonstrated that irrespective of the cell of origin and other aforementioned conditions, EVs enrich for distinct RNA and protein signatures that do not linearly correlate with their cell of origin.