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Extracellular vesicle miR-93-5p cargo regulates glomerular endothelial cell damage in Alport syndrome
Charmi Dedhia, Valentina Villani, Xiaogang Hou, Paolo Neviani, Geremy Clair, Mohammadreza Kasravi, Cristina Grange, Paolo Cravedi, Paola Aguiari, Velia Alcala, Giuseppe Orlando, Xue-Ying Song, Jonathan E. Zuckerman, Roger E. De Filippo, Stefano Da Sacco, Sargis Sedrakyan, Benedetta Bussolati, Laura Perin
Charmi Dedhia, Valentina Villani, Xiaogang Hou, Paolo Neviani, Geremy Clair, Mohammadreza Kasravi, Cristina Grange, Paolo Cravedi, Paola Aguiari, Velia Alcala, Giuseppe Orlando, Xue-Ying Song, Jonathan E. Zuckerman, Roger E. De Filippo, Stefano Da Sacco, Sargis Sedrakyan, Benedetta Bussolati, Laura Perin
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Research Article Cell biology Nephrology

Extracellular vesicle miR-93-5p cargo regulates glomerular endothelial cell damage in Alport syndrome

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Abstract

Modulation of miRNA expression in glomerular cells is associated with renal disease. Here, we investigated the role of miR-93-5p in mitigating glomerular damage in Alport syndrome and whether the disease-modifying activity of extracellular vesicles from human amniotic fluid stem cells (hAFSC-EVs) is mediated by their miR-93-5p cargo. We identified downregulation of miR-93-5p specifically in glomerular endothelial cells in Alport syndrome along disease progression. Silencing of miR-93-5p in hAFSC-EVs changed the transcriptomic and proteomic profile, regulating EV disease-modifying activity. Compared with naive hAFSC-EVs, silenced hAFSC-EVs did not rescue glomerular endothelial function in vitro and did not restore kidney function in vivo. We established that hAFSC-EVs regulate VEGFR1 and VEGFR2 signaling by miR-93-5p cargo transfer, highlighting that miR-93-5p can restore glomerular endothelial cell biology. Spatial transcriptomics analysis of hAFSC-EV–injected kidneys showed that these EVs can reverse pathways altered during disease progression by stimulating proregenerative processes, specifically in the glomerulus, by regulating miR-93-5p targets. Alteration of glomerular endothelial cell transcriptomics and miR-93-5p targets was also confirmed in biopsies of patients with Alport syndrome using spatial molecular imaging. We demonstrated the critical role of miR-93-5p in glomerular endothelial cells and the capability of hAFSC-EVs to regulate miR-93-5p and its targets in Alport syndrome.

Authors

Charmi Dedhia, Valentina Villani, Xiaogang Hou, Paolo Neviani, Geremy Clair, Mohammadreza Kasravi, Cristina Grange, Paolo Cravedi, Paola Aguiari, Velia Alcala, Giuseppe Orlando, Xue-Ying Song, Jonathan E. Zuckerman, Roger E. De Filippo, Stefano Da Sacco, Sargis Sedrakyan, Benedetta Bussolati, Laura Perin

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Figure 4

Spatial maps of kidney of AS mice injected with EVs.

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Spatial maps of kidney of AS mice injected with EVs.
(A–D) ST integrated...
(A–D) ST integrated analysis of WT mice at 4 months old (4m), 2mAS, 5mAS, and hAFSC-EV injected at 2.5m and sacrificed at 5mAS (treated 5mAS), identified 9 clusters by unsupervised clustering as shown in the spatial map for each sample. (E–H) UMAP of spots from the integration of samples in A–D, showing the cluster identification per sample (I) Pie chart displaying the distribution of dots across clusters of the integrated samples. Total dots = 12,453. (J) Graph displaying the distribution of samples across clusters. Number of spots (x axis) of each sample (magenta, WT; yellow, 2mAS; gray, 5mAS; brown, treated at 2m and sacrificed at 5mAS) per cluster identified (y axis). (K) Heatmap showing fold change (FC) in gene expression of miR-93 target genes in glomeruli: 5mAS vs. WT and treated 5mAS vs. 5mAS showing a significant shift in gene expression following EV injection. Heatmap shows log2FC calculated relative to the first condition listed in each comparison: 5mAS vs. WT and treated 5mAS vs. 5mAS. Color intensity reflects the magnitude of differential expression relative to the indicated reference condition. log2FC > 0 or log2FC < 0; P < 0.05. Yellow, upregulated;blue, downregulated. PT-S1, -S2, -S3, proximal tubule segments 1, 2, and 3; DCT, distal convoluted tubule; CCD, cortical collecting duct; OMCD, outer medullary collecting duct; LOH, loop of Henle; TAL, thick ascending limb; DTL, descending thin limb; ATL, ascending thin limb; CD, collecting duct. Significance was assessed using differential expression determined by DESeq2 (adj. P < 0.05).

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