Biology subjects

Salviano-Silva, A.

Publications and source records attributed to Salviano-Silva, A..

4 recordsLinked to original sources

bioRxiv2026

Multi-omics characterization of extracellular vesicles derived from virus-positive Merkel cell carcinoma cells

Merkel cell carcinoma (MCC) is a highly aggressive skin cancer, with approximately 80% of cases driven by Merkel cell polyomavirus (MCPyV). Although extracellular vesicles (EVs) are increasingly recognized as mediators of intercellular communication within the tumor microenvironment, their molecular cargo in MCPyV-positive MCC has not been comprehensively characterized. Here, we performed a multi-omics characterization of EVs released by two MCPyV-positive MCC cell lines. EVs were isolated by differential ultracentrifugation and characterized by nanoparticle tracking analysis, imaging flow cytometry, cryo-electron microscopy, and immunoblotting, demonstrating a heterogeneous population of small and large EVs. Proteomic and transcriptomic analyses revealed that MCC-derived EVs possess distinct protein, mRNA, and miRNA cargo compared with their parental cells, with enrichment of molecules associated with gene expression, RNA processing, intracellular signaling, and vesicle-mediated transport. Despite differences in the molecular composition of EVs derived from WaGa and MKL-1 cells, functional enrichment analyses revealed highly similar biological pathways. To investigate whether the viral oncoprotein small T antigen (sT) contributes to EV cargo composition, EVs from inducible sT knockdown cells were analyzed. Loss of sT was associated with modest changes in the EV proteome and mRNA cargo, whereas the overall EV-associated miRNA profile remained largely unchanged. Collectively, these findings provide the first comprehensive molecular characterization of EVs released by MCPyV-positive MCC cells and establish a foundation for investigating the contribution of EV-mediated communication to MCC biology and tumor-microenvironment interactions.

molecular biology↗

bioRxiv2025

High-Purity Enrichment of Extracellular Vesicles from Diverse Sources by Conventional and Image-Based Fluorescence Activated Cell Sorters for Robust Downstream Applications

Selective enrichment of extracellular vesicle (EV) subpopulations from the heterogeneous EV pool is essential for understanding their characteristic biological functions and exploiting their potential as diagnostic and prognostic biomarkers. However, isolation of specific EV-subsets remains challenging. Fluorescence-Activated Cell Sorting (FACS) has emerged as promising technique for EV subpopulations enrichment, despite limitations associated to their small size. Although FACS-based EV sorting has been reported, a broadly applicable and systematically validated workflow is still lacking. Here, we describe and validate an optimized workflow for the sorting and analysis of EVs derived from diverse species, tissues, blood and cell culture systems. Using two advanced flow cytometric cell sorters, the BD FACSAria Fusion, and the BD FACSDiscover S8, we systematically evaluated key technical parameters, including nozzle size, sample dilutions, and sorting mode. The optimized workflow enabled efficient enrichment of differently labelled EV populations of interest, achieving near-100% purity, including rare subsets representing less than 10% of the total EV pool, while maintaining compatibility with downstream analyses. Sorted EV populations were characterized by high-sensitivity imaging flow cytometry, transmission electron microscopy, and liquid chromatography-tandem mass spectrometry. This workflow provides a robust framework for EV subset isolation and characterization, supporting both fundamental EV research and translational biomarker applications.

cell biology↗

bioRxiv2025

In pemphigus, cell detachment, but not autoantibody binding, induces cell-wide, long-lasting transcriptomic and proteomic changes

Desmoglein 1 (DSG1) and desmoglein 3 (DSG3) are adhesion molecules that maintain intercellular connections between epidermal, hair follicle, and mucosal keratinocytes. Autoantibodies (AAbs) targeting these molecules ultimately lead to the blister formation characteristic of pemphigus vulgaris (PV) or pemphigus foliaceus (PF). To investigate the molecular events following autoantibody binding up to 48 hours, we quantified transcriptome and proteome dynamics during split formation in a human skin organ culture (HSOC) model for PV and in a 2D cell-culture model for PV and endemic PF. Treatment of the cells in 2D culture with PX43, a single-chain variable fragment targeting DSG1/3, or with endemic PF anti-DSG1 IgG yielded neither a significant transcriptome nor a proteome response over time relative to the respective IgG controls. When treating the HSOC model with mouse antibody AK23 (targeting DSG3) or with PX43, only the latter induced split formation. In the absence of split formation, no differentially regulated pathways were detected at the transcriptomic level. Split formation, observed as early as 5 hours post-injection, was associated with significant and sustained upregulation of IFN{gamma} and TNF-related genes, mediated by upstream NF{kappa}B, MAPK, and JAK-STAT pathways. The gene expression changes, corroborated by proteomics data, were strongly correlated with early wounding and keratinocyte detachment, as well as the transcriptome profile in the skin from PV patients, while inversely associated with keratinocyte differentiation and cell stretching. The co-occurrence of well-wide and long-lasting transcriptome and proteome responses with split formation suggests that PF-IgG and PV-related AAbs neither induce downstream transcriptome nor proteome changes directly. Rather, these changes appear to be secondary effects resulting from reduced adhesion and mechanical-stress-induced split formation of keratinocytes in vitro and most likely in patient skin in vivo.

immunology↗

bioRxiv2023

Epigenetic neural glioblastoma enhances synaptic integration and predicts therapeutic vulnerability

Neural-tumor interactions drive glioma growth as evidenced in preclinical models, but clinical validation is nascent. We present an epigenetically defined neural signature of glioblastoma that independently affects patients survival. We use reference signatures of neural cells to deconvolve tumor DNA and classify samples into low- or high-neural tumors. High-neural glioblastomas exhibit hypomethylated CpG sites and upregulation of genes associated with synaptic integration. Single-cell transcriptomic analysis reveals high abundance of stem cell-like malignant cells classified as oligodendrocyte precursor and neural precursor cell-like in high-neural glioblastoma. High-neural glioblastoma cells engender neuron-to-glioma synapse formation in vitro and in vivo and show an unfavorable survival after xenografting. In patients, a high-neural signature associates with decreased survival as well as increased functional connectivity and can be detected via DNA analytes and brain-derived neurotrophic factor in plasma. Our study presents an epigenetically defined malignant neural signature in high-grade gliomas that is prognostically relevant.

neuroscience↗