Comparative Analysis of Extracellular Vesicle Isolation From Equine Serum and Plasma Using Two Isolation Methods With Structural and Proteomic Validation.
Abstract: Extracellular vesicles (EVs) are promising biomarkers and mediators of intercellular communication, but their isolation from equine biofluids remains challenging. This study compared two isolation workflows-size-exclusion chromatography (SEC) and differential ultracentrifugation followed by SEC (UC + SEC)-to evaluate their efficiency, reproducibility, and the proteomic composition of EVs derived from equine serum and plasma. Blood from six healthy horses was processed to obtain platelet-free plasma and serum. EVs were isolated using SEC or UC + SEC and characterized by transmission electron microscopy, nanoparticle tracking analysis, and mass spectrometry-based proteomics with functional enrichment analysis. SEC provided higher reproducibility, greater protein yield, and a simpler workflow than UC + SEC. Serum combined with SEC yielded the most consistent proteomic profiles, with strong detection of typical EV markers and the largest overlap among replicates. Vesicles displayed the expected morphology and size distribution, with a predominant population between 100 and 200 nm. Plasma-derived EVs were enriched in proteins related to translation, chaperone activity, and proteasome function, while serum-derived EVs contained proteins involved in immune processes, cytoskeletal organization, adhesion, and hemostasis. Both the isolation method and biological matrix significantly influenced EV yield and proteome composition. SEC applied to serum provided a reproducible and high-quality EV preparation suitable for biomarker discovery. As this was a methodological comparison in healthy animals, diagnostic test performance metrics (sensitivity, specificity, PPV/NPV) were outside the scope of the study; our goal was to quantify upstream analytical determinants (matrix and isolation workflow) that influence reproducibility and discovery-phase proteomic readouts.
© 2026 The Author(s). The FASEB Journal published by Wiley Periodicals LLC on behalf of Federation of American Societies for Experimental Biology.
Publication Date: 2026-01-19 PubMed ID: 41549528PubMed Central: PMC12813514DOI: 10.1096/fj.202504053RGoogle Scholar: Lookup
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Summary
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Extracellular vesicles (EVs) were isolated from horse serum and plasma using two different methods to determine which provides better yield, reproducibility, and protein profiling. The study found that size-exclusion chromatography alone on serum samples yielded the most consistent and high-quality EV preparations.
Background and Purpose
- Extracellular vesicles (EVs) are small particles secreted by cells that carry proteins and other molecules, playing important roles in cell communication and serving as potential biomarkers for diseases.
- Isolation of EVs from equine (horse) biofluids like serum and plasma is difficult due to the complex composition of these fluids.
- This study aimed to compare two common EV isolation workflows—size-exclusion chromatography (SEC) alone and differential ultracentrifugation followed by SEC (UC + SEC)—to evaluate which provides better efficiency, reproducibility, and proteomic profiles in horses.
- Understanding the best method helps facilitate biomarker discovery in equine medicine by ensuring reliable EV isolation.
Methods
- Blood samples were collected from six healthy horses.
- The samples were processed to obtain platelet-free plasma and serum.
- EVs were isolated using either:
- Size-exclusion chromatography (SEC) alone
- Differential ultracentrifugation followed by SEC (UC + SEC)
- Several characterization techniques were applied:
- Transmission Electron Microscopy (TEM) to visualize the vesicles’ morphology
- Nanoparticle tracking analysis (NTA) to measure size distribution and concentration
- Mass spectrometry-based proteomics with functional enrichment analysis to detail protein composition
Key Findings
- Isolation Method Efficiency and Reproducibility:
- SEC alone was more reproducible and simpler. It yielded greater amounts of protein compared to UC + SEC.
- UC + SEC was less consistent, more complex, and resulted in lower protein yield.
- Biological Matrix Impact:
- Serum combined with SEC produced the most consistent proteomic profiles across replicates.
- Serum EV preparations showed strong detection of typical EV marker proteins and a high overlap of protein identities between samples.
- Plasma EVs and serum EVs differed in protein composition, reflecting distinct biological functions and processes.
- EV Morphology and Size:
- Both isolation methods yielded vesicles exhibiting expected morphology typical for EVs under electron microscopy.
- Size distributions were predominantly in the 100–200 nm range, consistent across methods and matrices.
- Proteomic Differences:
- Plasma-derived EVs were enriched with proteins linked to:
- Translation machinery
- Chaperone activity
- Proteasome functions (protein degradation)
- Serum-derived EVs contained proteins related to:
- Immune processes
- Cytoskeleton organization
- Cell adhesion
- Hemostasis (blood clotting)
- Plasma-derived EVs were enriched with proteins linked to:
Conclusions and Implications
- Both the choice of biofluid (serum vs plasma) and the isolation method significantly impact EV yield and proteomic content.
- SEC applied to serum samples offers a reproducible, simpler, and higher-quality approach for isolating EVs suitable for downstream proteomic analyses and biomarker discovery in horses.
- The study focused on methodological comparison rather than diagnostic performance metrics, providing foundational knowledge for future studies that might evaluate clinically relevant EV biomarkers.
- This optimized isolation workflow can aid research into veterinary diagnostics and improve understanding of equine diseases through EV analysis.
Cite This Article
APA
Milczek-Haduch D, Żmigrodzka M, Kiełbik P, Świderska B, Olędzki J, Witkowska-Piłaszewicz O.
(2026).
Comparative Analysis of Extracellular Vesicle Isolation From Equine Serum and Plasma Using Two Isolation Methods With Structural and Proteomic Validation.
FASEB J, 40(2), e71472.
https://doi.org/10.1096/fj.202504053R Publication
Researcher Affiliations
- Department of Large Animals Diseases and Clinic, Institute of Veterinary Medicine, Warsaw University of Life Sciences, Warsaw, Poland.
- Department of Morphological Sciences, Institute of Veterinary Medicine, Warsaw University of Life Sciences, Warsaw, Poland.
- Department of Pathology and Veterinary Diagnostic, Institute of Veterinary Medicine, Warsaw University of Life Sciences, Warsaw, Poland.
- Department of Large Animals Diseases and Clinic, Institute of Veterinary Medicine, Warsaw University of Life Sciences, Warsaw, Poland.
- Mass Spectrometry Laboratory, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland.
- Mass Spectrometry Laboratory, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland.
- Department of Large Animals Diseases and Clinic, Institute of Veterinary Medicine, Warsaw University of Life Sciences, Warsaw, Poland.
MeSH Terms
- Animals
- Horses / blood
- Extracellular Vesicles / metabolism
- Extracellular Vesicles / ultrastructure
- Proteomics / methods
- Plasma / metabolism
- Plasma / chemistry
- Proteome / metabolism
- Chromatography, Gel / methods
- Biomarkers / blood
- Ultracentrifugation / methods
- Serum / metabolism
- Serum / chemistry
Grant Funding
- 2022/47/D/NZ7/01814 / Narodowe Centrum Nauki (NCN)
- the Science Development Fund of The Warsaw Univeristy of Life Sciences-SGGW
Conflict of Interest Statement
The authors declare no conflicts of interest.
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