# Unveiling ZNF124 as a novel determinant in neurodegeneration: orchestration of photoreceptor homeostasis through MSX2 transcriptional regulation

**Authors:** Yeming Yang, Xiaoyan Jiang, Shujin Li, Kuanxiang Sun, Rong Zou, Can Chen, Yi Shi, Wenjing Liu, Periasamy Sundaresan, Lulin Huang, Lin Zhang, Zhenglin Yang, Xianjun Zhu

PMC · DOI: 10.1038/s41419-026-08487-6 · Cell Death & Disease · 2026-02-19

## TL;DR

This study identifies ZNF124 as a new gene linked to retinitis pigmentosa, a degenerative eye disease, by showing how it regulates MSX2 to maintain retinal health.

## Contribution

The paper discovers ZNF124 as a novel RP-associated gene and reveals a new transcriptional regulatory axis involving ZNF124 and MSX2 in retinal homeostasis.

## Key findings

- A homozygous splicing variant in ZNF124 was found in an RP family and linked to retinal degeneration.
- ZNF124 regulates MSX2 by binding to its promoter, and MSX2 deletion causes retinal thinning.
- ZNF124 maintains retinal function by controlling genes like Rs1, Pde6g, and Pdc through Msx2.

## Abstract

Retinitis pigmentosa (RP), affecting more than 20 million people worldwide, refers to a group of inherited retinal dystrophies characterized by progressive photoreceptor degeneration and vision loss. However, the underlying genetic causes of substantial RP cases remain unidentified. In this report, we identified a novel homozygous splicing variant, c.219-1delG, which introduced skipping of exon 4 of the ZNF124 gene in a large RP pedigree by whole-exome sequencing analysis. To elucidate the pathogenesis of the mutation, we generated a retina-specific knockout mouse model of ZNF124 murine homologous gene Gm20541, which manifested RP-like phenotypes characterized by reduced electroretinogram response and progressive retinal degeneration. Integrated analysis using CUT&Tag, ChIP-exo, and RNA-seq data further revealed that ZNF124 regulated MSX2 expression through binding its promoter region. Moreover, deletion of Msx2in the retina led to thinning of retina owing to progressive degeneration of rod cells. Integrated analysis of RNA-seq data from both Gm20541 and Msx2 mutant retinas indicated that ZNF124 is essential for maintaining normal retinal function by regulating Msx2 transcription, which in turn controls the expression of murine homologues of retinal dystrophy genes Rs1, Pde6g, and Pdc. Taken together, our study identified a novel mechanism of transcriptional regulation for retinal homeostasis via ZNF124-MSX2 axis and ZNF124 as a novel candidate gene for RP.

## Linked entities

- **Genes:** ZNF124 (zinc finger protein 124) [NCBI Gene 7678], MSX2 (msh homeobox 2) [NCBI Gene 4488], Gm20541 (predicted gene 20541) [NCBI Gene 102637111], RS1 (retinoschisin 1) [NCBI Gene 6247], PDE6G (phosphodiesterase 6G) [NCBI Gene 5148], PDC (phosducin) [NCBI Gene 5132]
- **Diseases:** Retinitis pigmentosa (MONDO:0008377), RP (MONDO:0008377)
- **Species:** Mus musculus (taxon 10090)

## Full-text entities

- **Genes:** Grk1 (G protein-coupled receptor kinase 1) [NCBI Gene 24013] {aka Gprk1, Rhok, Rk}, Msx2 (msh homeobox 2) [NCBI Gene 17702] {aka Hox-8, Hox8, Hox8.1}, Cnga1 (cyclic nucleotide gated channel alpha 1) [NCBI Gene 12788] {aka Cncg}, Gfap (glial fibrillary acidic protein) [NCBI Gene 14580], Pou4f2 (POU domain, class 4, transcription factor 2) [NCBI Gene 18997] {aka Brn-3.2, Brn-3b, Brn3b, Pou4f-rs1, mBrn3-3R}, Atoh7 (atonal bHLH transcription factor 7) [NCBI Gene 53404] {aka Math5, bHLHa13}, ALB (albumin) [NCBI Gene 280717], Rho (rhodopsin) [NCBI Gene 212541] {aka Noerg1, Opn2, Ops, RP4}, Gja1 (gap junction protein, alpha 1) [NCBI Gene 14609] {aka Cnx43, Cx43, Cx43alpha1, Cxnk1, Gja-1, Npm1}, Pdc (phosducin) [NCBI Gene 20028] {aka Rpr-1, Rpr1}, Prph2 (peripherin 2) [NCBI Gene 19133] {aka AOFMD, AVMD, Nmf193, PRPH, RP7, Rd-2}, Bmp4 (bone morphogenetic protein 4) [NCBI Gene 12159] {aka Bmp-4, Bmp2b, Bmp2b-1, Bmp2b1}, MSX2 (msh homeobox 2) [NCBI Gene 4488] {aka CRS2, FPP, HOX8, MSH, PFM, PFM1}, Ush2a (usherin) [NCBI Gene 22283] {aka A930011D15Rik, A930037M10Rik, Gm676, Gm983, Mush2a, Ushrn}, Crb1 (crumbs family member 1, photoreceptor morphogenesis associated) [NCBI Gene 170788] {aka 7530426H14Rik, A930008G09Rik, CRB1-A, CRB1-A2, CRB1-B, CRB1-C}, PRL (prolactin) [NCBI Gene 5617] {aka GHA1, pPRL}, GAPDH (glyceraldehyde-3-phosphate dehydrogenase) [NCBI Gene 2597] {aka G3PD, GAPD, HEL-S-162eP}, Gapdh (glyceraldehyde-3-phosphate dehydrogenase) [NCBI Gene 14433] {aka Gapd}, Vegfa (vascular endothelial growth factor A) [NCBI Gene 22339] {aka L-VEGF, Vegf, Vpf}, Pde6g (phosphodiesterase 6G, cGMP-specific, rod, gamma) [NCBI Gene 18588] {aka Pdeg, p3AT}, Gm20541 (predicted gene 20541) [NCBI Gene 102637111], Pde6b (phosphodiesterase 6B, cGMP, rod receptor, beta polypeptide) [NCBI Gene 18587] {aka Pdeb, r, rd, rd-1, rd1, rd10}, Dntt (deoxynucleotidyltransferase, terminal) [NCBI Gene 21673] {aka Tdt}, Reep6 (receptor accessory protein 6) [NCBI Gene 70335] {aka 0610011M24Rik, Dp1l1}, Rgs9bp (regulator of G-protein signalling 9 binding protein) [NCBI Gene 243923] {aka R9AP, Rgs9-1bp}, Gnat1 (G protein subunit alpha transducin 1) [NCBI Gene 14685] {aka Gnat-1, Hg1f, Ird1, Ird2, Tralpha, irdc}, Six3 (sine oculis-related homeobox 3) [NCBI Gene 20473] {aka E130112M24Rik, Six3a, Six3alpha, Six3b, Six3beta}, VEGFA (vascular endothelial growth factor A) [NCBI Gene 7422] {aka L-VEGF, MVCD1, VEGF, VPF}, Gm14322 (predicted gene 14322) [NCBI Gene 626802], ZNF124 (zinc finger protein 124) [NCBI Gene 7678] {aka HZF-16, HZF16, ZK7}, Prkca (protein kinase C, alpha) [NCBI Gene 18750] {aka Pkca}, Pou4f1 (POU domain, class 4, transcription factor 1) [NCBI Gene 18996] {aka Brn-3, Brn-3.0, Brn3, Brn3.0, Brn3a, E130119J07Rik}, Wls (wntless WNT ligand secretion mediator) [NCBI Gene 68151] {aka 5031439A09Rik, EVI, Gpr177}, Rs1 (retinoschisis (X-linked, juvenile) 1 (human)) [NCBI Gene 20147] {aka Rs1h, Xlrs1, tmgc1}
- **Diseases:** rd8 (MESH:D012162), retinitis pigmentosa 12 (MESH:C563999), cornea opacity (MESH:C563921), aphakia (MESH:D001035), photoreceptors (MESH:D012173), inherited retinal dystrophies (MESH:D058499), leukemia (MESH:D007938), abnormalities (MESH:D000014), iris hyperplasia (MESH:D006965), DWC (MESH:D003616), ONL (MESH:C538223), OS (MESH:C537538), optic abnormalities (MESH:C537669), LCA8 (OMIM:613835), retinal abnormalities (MESH:D012164), constriction of peripheral visual field (MESH:D010523), developmental anomalies (MESH:C566440), neuronal injury (MESH:D009410), atrophy (MESH:D001284), cornea edema (MESH:D004487), macular degeneration (MESH:D008268), degeneration of retina layers (MESH:D007625), microphthalmia (MESH:D008850), degeneration of rod cells (MESH:D000071700), Eye defects (MESH:D005124), growth retardation (MESH:D006130), Usher syndrome type II (MESH:D052245), impaired visual function (MESH:D014786), night blindness (MESH:D009755), optic nerve aplasia (MESH:C563493), hypoplasia (MESH:D000080344), neurodegeneration (MESH:D019636), oligodactyly (MESH:C535688), cone cell degeneration (MESH:C566719), X-linked retinoschisis (MESH:D041441), medulloblastomas (MESH:D008527), blindness (MESH:D001766), HNSCC (MESH:D000077195), hereditary degenerative diseases (MESH:D030342), tumorigenesis (MESH:D063646), RP (MESH:D012174), rod dysfunction (MESH:D017696), hair loss (MESH:D000505)
- **Chemicals:** AlexaFluor 488 (MESH:C000711379), hematoxylin (MESH:D006416), penicillin (MESH:D010406), H&amp;E (MESH:D006371), oxybuprocaine hydrochloride (MESH:C005298), Alexa Fluor-594 (-), Neo (MESH:D009355), DAPI (MESH:C007293), glucose (MESH:D005947), PBS (MESH:D007854), eosin (MESH:D004801), glutaraldehyde (MESH:D005976), agarose (MESH:D012685), sucrose (MESH:D013395), paraformaldehyde (MESH:C003043), chloroform (MESH:D002725), CO2 (MESH:D002245), pentobarbital (MESH:D010424), streptomycin (MESH:D013307), Triton X-100 (MESH:D017830), 5N (MESH:C005072), PNA (MESH:D020135), tropicamide (MESH:D014331), xylazine (MESH:D014991), EDTA (MESH:D004492), phenylephrine (MESH:D010656), phosphate (MESH:D010710), paraffin (MESH:D010232), MgCl2 (MESH:D015636), SDS (MESH:D012967), isoamyl alcohol (MESH:C029683), TRIzol (MESH:C411644), phenol (MESH:D019800)
- **Species:** Homo sapiens (human, species) [taxon 9606], Danio rerio (leopard danio, species) [taxon 7955], Cercopithecidae (monkey, family) [taxon 9527], Mus musculus (house mouse, species) [taxon 10090]
- **Mutations:** c.219-1 G > -, c.219-1delG, c.219-1delG, p.S73fs20*
- **Cell lines:** HEK293T — Homo sapiens (Human), Transformed cell line (CVCL_0063), 129S4 — Mus musculus (Mouse), Embryonic stem cell (CVCL_C319)

## Full text

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## Figures

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Source: https://tomesphere.com/paper/PMC12949019