Small RNA Landscape of Platelet Dust: Platelet-Derived Extracellular Vesicles from Patients with Non-Small-Cell Lung Cancer

Antunes-Ferreira, Mafalda; Glogovitis, Ilias; Fortunato, Diogo; D’Ambrosi, Silvia; Saborit, Mariona Colom; Yahubyan, Galina; Baev, Vesselin; Hackenberg, Michael; Zarovni, Natasa; Wurdinger, Thomas; Koppers-Lalic, Danijela

doi:10.3390/ncrna11030038

Open AccessFeature PaperArticle

Small RNA Landscape of Platelet Dust: Platelet-Derived Extracellular Vesicles from Patients with Non-Small-Cell Lung Cancer

by

Mafalda Antunes-Ferreira

^1,†

,

Ilias Glogovitis

^1,2,†

,

Diogo Fortunato

^1,3

,

Silvia D’Ambrosi

¹,

Mariona Colom Saborit

¹,

Galina Yahubyan

²,

Vesselin Baev

²

,

Michael Hackenberg

^4,5,6,7,

Natasa Zarovni

^3,8

,

Thomas Wurdinger

¹

and

Danijela Koppers-Lalic

^1,9,*

¹

Cancer Center Amsterdam, Amsterdam University Medical Centers, 1081 HV Amsterdam, The Netherlands

²

Department of Molecular Biology, University of Plovdiv, Tzar Assen 24, 4000 Plovdiv, Bulgaria

³

Exosomics SpA, 53100 Siena, Italy

⁴

Genetics Department, Faculty of Science, Universidad de Granada, Campus de Fuentenueva s/n, 18071 Granada, Spain

⁵

Bioinformatics Laboratory, Biomedical Research Centre (CIBM), Biotechnology Institute, PTS, 18100 Granada, Spain

⁶

Excellence Research Unit “Modeling Nature” (MNat), University of Granada, 18100 Granada, Spain

⁷

Instituto de Investigación Biosanitaria ibs.GRANADA, University Hospitals of Granada, University of Granada, Conocimiento s/n, 18100 Granada, Spain

⁸

RoseBio Srl, 25124 Brescia, Italy

⁹

Leiden University Medical Center, Mathematical Institute, Leiden University, 2333 CA Leiden, The Netherlands

^*

Author to whom correspondence should be addressed.

^†

These authors contributed equally to this work.

Non-Coding RNA 2025, 11(3), 38; https://doi.org/10.3390/ncrna11030038

Submission received: 30 January 2025 / Revised: 22 April 2025 / Accepted: 27 April 2025 / Published: 7 May 2025

(This article belongs to the Special Issue Extracellular Vesicles and ncRNA)

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Abstract

Background: Platelet-derived Extracellular Vesicles, or “Platelet Dust” (PD), are reported as the most-abundant extracellular vesicles in plasma. However, the PD molecular content, especially the small RNA profile, is still poorly characterized. This study aims to characterize PD and other extracellular vesicles (EVs) in patients with non-small-cell lung cancer (NSCLC), focusing on their small RNA signatures and diagnostic potential. Methods: The EVs were isolated directly from the plasma of healthy donors and patients with NSCLC using the surface markers CD9, CD63, CD81 (overall EVs), and CD61 (PD). Small RNA sequencing was then performed to comprehensively profile the miRNAs. Results: Our analysis revealed distinct small RNA profiles in the EVs and the PD from the patients with NSCLC. The EVs (CD9-, CD63-, and CD81-positive) showed the enrichment of four miRNAs and the depletion of ten miRNAs, while the PD (CD61-positive) exhibited a more complex profile, with nineteen miRNAs enriched and nine miRNAs depleted in the patients with NSCLC compared to those of the healthy controls. Conclusions: This exploratory study enhances our understanding of miRNA composition within different plasma vesicle populations, shedding light on the biology of plasma vesicles and their contents. Furthermore, utilizing an extracellular vesicle isolation method with potential clinical applicability offers the prospect of improved cancer characterization and detection by selecting the most informative subpopulation of plasma vesicles.

Keywords: plasma vesicles; platelet-derived vesicles; platelet dust; extracellular vesicles (EVs); small RNA sequencing; non-small-cell lung cancer (NSCLC); microRNA; immunocapture

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MDPI and ACS Style

Antunes-Ferreira, M.; Glogovitis, I.; Fortunato, D.; D’Ambrosi, S.; Saborit, M.C.; Yahubyan, G.; Baev, V.; Hackenberg, M.; Zarovni, N.; Wurdinger, T.; et al. Small RNA Landscape of Platelet Dust: Platelet-Derived Extracellular Vesicles from Patients with Non-Small-Cell Lung Cancer. Non-Coding RNA 2025, 11, 38. https://doi.org/10.3390/ncrna11030038

AMA Style

Antunes-Ferreira M, Glogovitis I, Fortunato D, D’Ambrosi S, Saborit MC, Yahubyan G, Baev V, Hackenberg M, Zarovni N, Wurdinger T, et al. Small RNA Landscape of Platelet Dust: Platelet-Derived Extracellular Vesicles from Patients with Non-Small-Cell Lung Cancer. Non-Coding RNA. 2025; 11(3):38. https://doi.org/10.3390/ncrna11030038

Chicago/Turabian Style

Antunes-Ferreira, Mafalda, Ilias Glogovitis, Diogo Fortunato, Silvia D’Ambrosi, Mariona Colom Saborit, Galina Yahubyan, Vesselin Baev, Michael Hackenberg, Natasa Zarovni, Thomas Wurdinger, and et al. 2025. "Small RNA Landscape of Platelet Dust: Platelet-Derived Extracellular Vesicles from Patients with Non-Small-Cell Lung Cancer" Non-Coding RNA 11, no. 3: 38. https://doi.org/10.3390/ncrna11030038

APA Style

Antunes-Ferreira, M., Glogovitis, I., Fortunato, D., D’Ambrosi, S., Saborit, M. C., Yahubyan, G., Baev, V., Hackenberg, M., Zarovni, N., Wurdinger, T., & Koppers-Lalic, D. (2025). Small RNA Landscape of Platelet Dust: Platelet-Derived Extracellular Vesicles from Patients with Non-Small-Cell Lung Cancer. Non-Coding RNA, 11(3), 38. https://doi.org/10.3390/ncrna11030038

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Small RNA Landscape of Platelet Dust: Platelet-Derived Extracellular Vesicles from Patients with Non-Small-Cell Lung Cancer

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