# Exploring extracellular vesicle MicroRNAs in Usher syndrome type 1B: Tear-Derived EVs as potential indicators of retinal health

**Authors:** Sander Bervoets, Lonneke Duijkers, Hedwig M. Velde, Zelia Corradi, Edwin M. van Oosten, Nuria Suárez-Herrera, Alejandro Garanto, Miguel A. Moreno-Pelayo, Ronald J.E. Pennings, Rob W.J. Collin, Irene Vázquez-Domínguez

PMC · DOI: 10.1007/s00018-025-06025-9 · 2026-01-13

## TL;DR

This study explores tear-derived extracellular vesicles as non-invasive biomarkers for retinal health in Usher syndrome type 1B, identifying specific microRNAs linked to retinal function.

## Contribution

The study identifies tear-derived EV miRNA signatures as potential non-invasive biomarkers for retinal degeneration in USH1B.

## Key findings

- Tear-derived EVs showed higher miRNA load and diversity compared to RPE-derived EVs.
- Specific miRNAs like hsa-miR-200a-3p and hsa-miR-194-5p were upregulated in patient tear EVs.
- Downregulated miRNAs in patient RPE-derived EVs were linked to retinal structure and function pathways.

## Abstract

Usher syndrome type 1B (USH1B) is a rare inherited disorder characterized by congenital deafness and progressive retinitis pigmentosa, caused by biallelic pathogenic variants in the MYO7A gene. We explored extracellular vesicles (EVs) from two sources: human tears and iPSC-derived RPE cells from USH1B patients and controls. Tear EVs were assessed as a non-invasive biomarker source, while RPE-derived EVs provided insights into disease mechanisms in a controlled, cell-type-specific context. Although RPE differentiation was successful and MYO7A expression levels were similar between patients and controls, Myosin VIIA was not detected by western blot in the patient-derived cells. We examined the EV cargo by small non-coding RNAs (sncRNAs) sequencing from iPSC-RPE apical site and tears to identify molecular signatures of retinal degeneration. Tear EVs showed higher load and diversity of miRNAs than RPE-derived EVs, reflecting a broader ocular origin. Comparative analysis revealed shared retinal sncRNAs (hsa-miR-204, hsa-miR-211, hsa-miR-181a-5p) and group-specific differences. Notably, when comparing to controls, hsa-miR-200a-3p and hsa-miR-194-5p were upregulated in patient tear EVs, while let-7i/c-5p and hsa-miR-320a/b, were downregulated in-patient RPE-derived EVs. Pathway analysis linked these sncRNAs to retinal structure and function, including cytoskeletal remodeling and junctional integrity. Our findings highlight the potential of tear EVs as a non-invasive source of biomarkers that capture retinal molecular alterations in USH1B, with applications for diagnosis, monitoring, and therapeutic development. Although this is a pilot study focused on uncovering promising biomarkers rather than establishing definitive cause–effect mechanisms, it provides a foundation for future research with larger cohorts to validate and expand these findings.

The online version contains supplementary material available at 10.1007/s00018-025-06025-9.

## Linked entities

- **Genes:** MYO7A (myosin VIIA) [NCBI Gene 4647]
- **Proteins:** MYO7A (myosin VIIA)
- **Diseases:** Usher syndrome type 1B (MONDO:0700087), retinitis pigmentosa (MONDO:0008377)

## Full-text entities

- **Genes:** CD81 (CD81 molecule) [NCBI Gene 975] {aka CVID6, S5.7, TAPA1, TSPAN28}, ZEB1 (zinc finger E-box binding homeobox 1) [NCBI Gene 6935] {aka AREB6, BZP, DELTAEF1, FECD6, NIL2A, PPCD3}, IGF1R (insulin like growth factor 1 receptor) [NCBI Gene 3480] {aka CD221, IGFIR, IGFR, JTK13}, ITGB1 (integrin subunit beta 1) [NCBI Gene 3688] {aka CD29, FNRB, GPIIA, MDF2, MSK12, VLA-BETA}, USH1G (USH1 protein network component sans) [NCBI Gene 124590] {aka ANKS4A, SANS}, AGO1 (argonaute RISC component 1) [NCBI Gene 26523] {aka EIF2C, EIF2C1, GERP95, NEDLBAS, Q99, hAgo1}, PXN (paxillin) [NCBI Gene 5829], CDH23 (cadherin related 23) [NCBI Gene 64072] {aka CDHR23, PITA5, USH1D}, MIR4448 (microRNA 4448) [NCBI Gene 100616127], CLRN1 (clarin 1) [NCBI Gene 7401] {aka RP61, USH3, USH3A}, HMGA2 (high mobility group AT-hook 2) [NCBI Gene 8091] {aka BABL, HMGI-C, HMGIC, LIPO, SRS5, STQTL9}, GUSB (glucuronidase beta) [NCBI Gene 2990] {aka BG, MPS7}, ATP6V1F (ATPase H+ transporting V1 subunit F) [NCBI Gene 9296] {aka ATP6S14, VATF, Vma7}, PRPF31 (pre-mRNA processing factor 31) [NCBI Gene 26121] {aka NY-BR-99, PRP31, RP11, SNRNP61}, TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}, MIR122 (microRNA 122) [NCBI Gene 406906] {aka MIR122A, MIRN122, MIRN122A, hsa-mir-122, miRNA122, miRNA122A}, MIR29A (microRNA 29a) [NCBI Gene 407021] {aka MIRN29, MIRN29A, hsa-mir-29, hsa-mir-29a, miRNA29A, mir-29a}, CD9 (CD9 molecule) [NCBI Gene 928] {aka BTCC-1, DRAP-27, MIC3, MRP-1, TSPAN-29, TSPAN29}, VCL (vinculin) [NCBI Gene 7414] {aka CMD1W, CMH15, HEL114, MV, MVCL, VINC}, VEGFA (vascular endothelial growth factor A) [NCBI Gene 7422] {aka L-VEGF, MVCD1, VEGF, VPF}, MDM4 (MDM4 regulator of p53) [NCBI Gene 4194] {aka BMFS6, HDMX, MDMX, MRP1}, CELF1 (CUGBP Elav-like family member 1) [NCBI Gene 10658] {aka BRUNOL2, CUG-BP, CUGBP, CUGBP1, EDEN-BP, NAB50}, TJP1 (tight junction protein 1) [NCBI Gene 7082] {aka ZO-1}, MERTK (MER proto-oncogene, tyrosine kinase) [NCBI Gene 10461] {aka MER, RP38, Tyro12, c-Eyk, c-mer}, MYO7A (myosin VIIA) [NCBI Gene 4647] {aka DFNA11, DFNB2, MYOVIIA, MYU7A, NSRD2, USH1B}, USH2A (usherin) [NCBI Gene 7399] {aka RP39, US2, USH2, dJ1111A8.1}, ALB (albumin) [NCBI Gene 213] {aka FDAHT, HSA, PRO0883, PRO0903, PRO1341}, EZR (ezrin) [NCBI Gene 7430] {aka CVIL, CVL, HEL-S-105, VIL2}, COX6B1 (cytochrome c oxidase subunit 6B1) [NCBI Gene 1340] {aka COX6B, COXG, COXVIb1, MC4DN7}, MYH14 (myosin heavy chain 14) [NCBI Gene 79784] {aka DFNA4, DFNA4A, FP17425, MHC16, MYH17, NMHC II-C}, MYC (MYC proto-oncogene, bHLH transcription factor) [NCBI Gene 4609] {aka MRTL, MYCC, bHLHe39, c-Myc}, USH1C (USH1 protein network component harmonin) [NCBI Gene 10083] {aka AIE-75, DFNB18, DFNB18A, NY-CO-37, NY-CO-38, PDZ-45}, SOX17 (SRY-box transcription factor 17) [NCBI Gene 64321] {aka PPH7, VUR3}, CD63 (CD63 molecule) [NCBI Gene 967] {aka AD1, HOP-26, ME491, MLA1, OMA81H, Pltgp40}, MIR204 (microRNA 204) [NCBI Gene 406987] {aka MIRN204, RDICC, miRNA204, mir-204}, OPN1SW (opsin 1, short wave sensitive) [NCBI Gene 611] {aka BCP, BOP, CBT}, RPE65 (retinoid isomerohydrolase RPE65) [NCBI Gene 6121] {aka BCO3, LCA2, RP20, mRPE65, p63, rd12}, MIR211 (microRNA 211) [NCBI Gene 406993] {aka MIRN211, mir-211}, TGFB1 (transforming growth factor beta 1) [NCBI Gene 7040] {aka CAEND1, CED, DPD1, IBDIMDE, LAP, TGF-beta1}
- **Diseases:** congenital deafness (MESH:D003638), vestibular dysfunction (MESH:D015837), vestibular areflexia (MESH:D000071699), diabetic retinopathy (MESH:D003930), Retinal Disease (MESH:D012164), deaf-blindness (MESH:D054062), RP (MESH:D012174), inflammation (MESH:D007249), Dysfunction of (MESH:D006331), RPE (MESH:C536309), retinal degeneration (MESH:D012162), vision impairment (MESH:D014786), sensorineural hearing loss (MESH:D006319), liver injury (MESH:D017093), retinal dystrophies (MESH:D058499), USH (MESH:D052245), USH1B (MESH:C536485), hearing loss (MESH:D034381), dryness (MESH:D014987), inherited disorder (MESH:D030342)
- **Chemicals:** Tween 20 (MESH:D011136), Triton X-100 (MESH:D017830), paraformaldehyde (MESH:C003043), NP-40 (MESH:C010615), EDTA (MESH:D004492), CO2 (MESH:D002245), oligonucleotides (MESH:D009841), PBS (MESH:D007854), water (MESH:D014867), NaCl (MESH:D012965), lipids (MESH:D008055), SDS (MESH:D012967), phenol red (MESH:D010637), heparin (MESH:D006493), nitrogen (MESH:D009584), PT (MESH:D010984), DAPI (MESH:C007293), sodium deoxycholate (MESH:D003840), PEG (MESH:D011092), ReLeSR (-)
- **Species:** Homo sapiens (human, species) [taxon 9606]
- **Mutations:** p.Lys1255Rfs*8, p.Gln821*, p.Gln1798*, c.2461 C > T, c.4805G > A, c.3719G > A, c.5581 C > T, p.Arg1861*, c.3109-2 A > G, p.Glu1170Lys, c.5392 C > T, c.3764del
- **Cell lines:** RPE — Homo sapiens (Human), Spontaneously immortalized cell line (CVCL_IQ82), S2 — Drosophila melanogaster (Fruit fly), Spontaneously immortalized cell line (CVCL_Z232), ARPE-19 — Homo sapiens (Human), Spontaneously immortalized cell line (CVCL_0145), HEK-293T — Homo sapiens (Human), Transformed cell line (CVCL_0063), hiPSC — Gallus gallus (Chicken), Induced pluripotent stem cell (CVCL_YE48)

## Figures

6 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12858694/full.md

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Source: https://tomesphere.com/paper/PMC12858694