# YBX1 Modulated Corneal Neovascularization Induced by Alkali Burn via m5C-Dependent Regulation of the STAT3/HIF-1α/VEGFA Axis

**Authors:** Zixian Yang, Yulin Yan, Qian Deng, Yuelan Gao, Jiewen Mao, Lan Ke, Shanshan Wan, Yanning Yang

PMC · DOI: 10.1167/iovs.67.2.42 · Investigative Ophthalmology & Visual Science · 2026-02-23

## TL;DR

This study reveals how the protein YBX1 contributes to corneal neovascularization after alkali burns and suggests inhibiting YBX1 as a potential treatment.

## Contribution

The paper identifies a novel epitranscriptomic mechanism involving YBX1 and m5C modification in corneal neovascularization.

## Key findings

- YBX1 promotes corneal neovascularization by stabilizing m5C-modified STAT3 and VEGFA mRNAs.
- Inhibiting YBX1 with Soyasaponin II reduces neovascularization and inflammation in mice.
- YBX1 activates the JAK1/STAT3/HIF-1α pathway, which is crucial for neovascularization.

## Abstract

Effective management of corneal neovascularization (CoNV) remains challenging, and the role of epitranscriptomic regulation, particularly N5-methylcytosine (m5C) modification, in this process remain incompletely defined. This study investigated the function and mechanism of the RNA-binding protein YBX1 in CoNV following alkali burn (AB).

An AB-induced CoNV model was generated using C57BL/6 mice. In vitro, human umbilical vein endothelial cells (HUVECs) underwent hypoxia/reoxygenation (H/R). Multi-omics approaches including transcriptome sequencing, RNA immunoprecipitation sequencing, and m5C methylated RNA immunoprecipitation sequencing were used to identify YBX1 targets and their modification status. Functional assays assessed angiogenesis, apoptosis, and reactive oxygen species (ROS). The therapeutic potential of the YBX1 inhibitor Soyasaponin II (SII) was evaluated in vivo.

YBX1 was upregulated following AB and H/R. YBX1 knockdown suppressed HUVEC migration, tube formation, and ROS production, while promoting apoptosis; these effects were rescued by HIF-1α overexpression. Mechanistically, YBX1 activated the JAK1/STAT3 pathway and recognizes m5C-modified sequences on STAT3 and VEGFA mRNAs, enhancing their stability. In vivo, subconjunctival injection of SII attenuated CoNV, reduced inflammation, and modulated macrophage polarization.

Our study unveils a novel epitranscriptomic mechanism in which YBX1 drives CoNV by regulating the stability of m5C-modified STAT3 and VEGFA mRNAs, thereby activating the JAK1/STAT3/HIF-1α axis. Inhibition of YBX1 with SII effectively counteracts this pathway, highlighting YBX1 as an attractive candidate for intervention against sight-threatening CoNV.

## Linked entities

- **Genes:** YBX1 (Y-box binding protein 1) [NCBI Gene 4904], STAT3 (signal transducer and activator of transcription 3) [NCBI Gene 6774], HIF1A (hypoxia inducible factor 1 subunit alpha) [NCBI Gene 3091], VEGFA (vascular endothelial growth factor A) [NCBI Gene 7422], JAK1 (Janus kinase 1) [NCBI Gene 3716]
- **Proteins:** YBX1 (Y-box binding protein 1), STAT3 (signal transducer and activator of transcription 3), HIF1A (hypoxia inducible factor 1 subunit alpha), VEGFA (vascular endothelial growth factor A), JAK1 (Janus kinase 1)
- **Chemicals:** Soyasaponin II (PubChem CID 443614)
- **Diseases:** corneal neovascularization (MONDO:0006713)
- **Species:** Mus musculus (taxon 10090), Homo sapiens (taxon 9606)

## Full-text entities

- **Genes:** Nop2 (NOP2 nucleolar protein) [NCBI Gene 110109] {aka 120kDa, A530002O17, Nol1}, Actb (actin, beta) [NCBI Gene 11461] {aka Actx, E430023M04Rik, beta-actin}, Sts (steroid sulfatase) [NCBI Gene 20905] {aka ArsC}, Stat3 (signal transducer and activator of transcription 3) [NCBI Gene 20848] {aka 1110034C02Rik, Aprf}, YBX1 (Y-box binding protein 1) [NCBI Gene 4904] {aka BP-8, CBF-A, CSDA2, CSDB, DBPB, EFI-A}, Alyref (Aly/REF export factor) [NCBI Gene 21681] {aka Aly, Ref1, Ref1-I, Refbp1, Tho4, Thoc4}, Ang (angiogenin, ribonuclease, RNase A family, 5) [NCBI Gene 11727] {aka Ang1, Rnase5, Rnase5a}, HIF1A (hypoxia inducible factor 1 subunit alpha) [NCBI Gene 3091] {aka HIF-1-alpha, HIF-1A, HIF-1alpha, HIF1, HIF1-ALPHA, MOP1}, Mmp9 (matrix metallopeptidase 9) [NCBI Gene 17395] {aka B/MMP9, Clg4b, Gel B, MMP-9, pro-MMP-9}, Casp1 (caspase 1) [NCBI Gene 12362] {aka ICE, Il1bc}, Pecam1 (platelet/endothelial cell adhesion molecule 1) [NCBI Gene 18613] {aka Cd31, PECAM-1, Pecam}, Il6 (interleukin 6) [NCBI Gene 16193] {aka Il-6}, Cd163 (CD163 antigen) [NCBI Gene 93671] {aka CD163v2, CD163v3}, Bcl2l1 (BCL2-like 1) [NCBI Gene 12048] {aka Bcl(X)L, Bcl-XL, Bcl2l, BclX, bcl-x, bcl2-L-1}, Cxcl15 (C-X-C motif chemokine ligand 15) [NCBI Gene 20309] {aka Il8, Scyb15, lungkine, weche}, VEGFA (vascular endothelial growth factor A) [NCBI Gene 7422] {aka L-VEGF, MVCD1, VEGF, VPF}, Ybx1 (Y box protein 1) [NCBI Gene 22608] {aka 1700102N10Rik, EF1A, MSY1, Nsep1, YB-1, dbpB}, Jak1 (Janus kinase 1) [NCBI Gene 16451] {aka BAP004, C130039L05Rik}, Dntt (deoxynucleotidyltransferase, terminal) [NCBI Gene 21673] {aka Tdt}, Nsun2 (NOL1/NOP2/Sun domain family member 2) [NCBI Gene 28114] {aka D13Wsu123e, Misu}, STAT3 (signal transducer and activator of transcription 3) [NCBI Gene 6774] {aka ADMIO, ADMIO1, APRF, HIES}, Tnf (tumor necrosis factor) [NCBI Gene 21926] {aka DIF, TNF-a, TNF-alpha, TNFSF2, TNFalpha, Tnfa}, Parp1 (poly (ADP-ribose) polymerase family, member 1) [NCBI Gene 11545] {aka 5830444G22Rik, ARTD1, Adprp, Adprt1, PARP, PPOL}, Il1b (interleukin 1 beta) [NCBI Gene 16176] {aka IL-1beta, Il-1b}, Bax (BCL2-associated X protein) [NCBI Gene 12028], Cd86 (CD86 antigen) [NCBI Gene 12524] {aka B7, B7-2, B7.2, B70, CLS1, Cd28l2}, Casp3 (caspase 3) [NCBI Gene 12367] {aka A830040C14Rik, AC-3, CASP-3, CC3, CPP-32, CPP32}, Arnt (aryl hydrocarbon receptor nuclear translocator) [NCBI Gene 11863] {aka D3Ertd557e, Drnt, ESTM42, Hif1b, bHLHe2, mKIAA4051}, Kdr (kinase insert domain protein receptor) [NCBI Gene 16542] {aka 6130401C07, Flk-1, Flk1, Krd-1, Ly73, VEGFR-2}, Tie1 (tyrosine kinase with immunoglobulin-like and EGF-like domains 1) [NCBI Gene 21846] {aka D430008P04Rik, TIE, tie-1}, JAK1 (Janus kinase 1) [NCBI Gene 3716] {aka AIIDE, JAK1A, JAK1B, JTK3}, Blnk (B cell linker) [NCBI Gene 17060] {aka BASH, Bca, Ly-57, Ly57, Lyw-57, SLP-65}, Bcl2 (B cell leukemia/lymphoma 2) [NCBI Gene 12043] {aka Bcl-2, C430015F12Rik, D630044D05Rik, D830018M01Rik}, Hif1a (hypoxia inducible factor 1, alpha subunit) [NCBI Gene 15251] {aka HIF-1-alpha, HIF1-alpha, HIF1alpha, MOP1, bHLHe78}, Nlrp3 (NLR family, pyrin domain containing 3) [NCBI Gene 216799] {aka AGTAVPRL, AII/AVP, Cias1, FCAS, FCU, MWS}, Vegfa (vascular endothelial growth factor A) [NCBI Gene 22339] {aka L-VEGF, Vegf, Vpf}
- **Diseases:** Hypoxic (MESH:D002534), corneal edema (MESH:D015715), Corneal opacity (MESH:D003318), cataract (MESH:D002386), tumorigenesis (MESH:D063646), ocular injury (MESH:D005131), glaucoma (MESH:D005901), cornea perforation (MESH:D065306), H (MESH:D000848), H/R (MESH:D000860), burn (MESH:D002056), blindness (MESH:D001766), ocular infections (MESH:D015817), tumor metastasis (MESH:D009362), Inflammation (MESH:D007249), retinal neovascular disorders (MESH:D015861), SII (MESH:C537730), CoNV (MESH:D016510), vision loss (MESH:D014786), R (MESH:C580424), Lentiviral Infection (MESH:D007239), edema (MESH:D004487), cytotoxicity (MESH:D064420), AB (MESH:D006934)
- **Chemicals:** CO2 (MESH:D002245), citrate (MESH:D019343), phenol (MESH:D019800), CCK-8 (MESH:D012844), TBS (MESH:D013725), TRIzol (MESH:C411644), DCFH-DA (MESH:C029569), PFA (MESH:C003043), Alkali (MESH:D000468), polybrene (MESH:D006583), chloroform (MESH:D002725), SDS (MESH:D012967), PVDF (MESH:C024865), oligonucleotides (MESH:D009841), PBS (MESH:D007854), Eosin (MESH:D004801), 3,3'-diaminobenzidine (MESH:D015100), ROS (MESH:D017382), poly(A) (MESH:D011061), SII (MESH:C106126), NaOH (MESH:D012972), DAPI (MESH:C007293), DMSO (MESH:D004121), glucose (MESH:D005947), H&amp;E (MESH:D006371), crystal violet (MESH:D005840), Paraffin (MESH:D010232), H2O2 (MESH:D006861), 2',7'-DCFH-DA (-), Hematoxylin (MESH:D006416), Puromycin (MESH:D011691), penicillin (MESH:D010406), O2 (MESH:D010100), Actinomycin D (MESH:D003609), N2 (MESH:D009584), ZnCl2 (MESH:C016837), pentobarbital sodium (MESH:D010424), streptomycin (MESH:D013307), IP (MESH:C041508), Triton X-100 (MESH:D017830)
- **Species:** Mus musculus (house mouse, species) [taxon 10090], Homo sapiens (human, species) [taxon 9606]
- **Mutations:** S0033S
- **Cell lines:** C57BL/6 — Mus musculus (Mouse), Transformed cell line (CVCL_C0MU)

## Full text

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## Figures

11 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12934531/full.md

## References

50 references — full list in the complete paper: https://tomesphere.com/paper/PMC12934531/full.md

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Source: https://tomesphere.com/paper/PMC12934531