# SIX3 as a Regulator of Development and Disease

**Authors:** Ana Beatriz Matos, Laura Jesus Castro, Torcato Martins

PMC · DOI: 10.3390/jdb14010013 · Journal of Developmental Biology · 2026-03-06

## TL;DR

This review explores the SIX3 and SIX6 subfamily of transcription factors, their roles in development, and their links to diseases like cancer and diabetes.

## Contribution

The paper provides a comprehensive overview of the SIX3–SIX6 subfamily's regulatory roles and their implications in disease mechanisms.

## Key findings

- SIX3 can act as a tumor suppressor or a marker of poor prognosis in various cancers.
- SIX3 and SIX2 are involved in pancreatic β-cell identity and stability.
- Downregulation of SIX2 and SIX3 disrupts β-cell homeostasis and contributes to type 2 diabetes.

## Abstract

Transcriptional regulation is pivotal for developmental processes and cell fate specification in homeostasis. One particularly relevant group of transcription factors is the sine oculis homeobox (SIX) family, which is involved in a wide range of molecular processes from development to tissue maintenance. Within this family, distinct subfamilies exhibit specific DNA-binding preferences and can function as transcriptional activators or repressors. In this review, we focus on the Optix/SIX3–SIX6 subfamily and discuss their roles as transcriptional regulators, as well as the consequences of their deregulation for neuronal and ocular development and for the maintenance of tissue homeostasis. We further examine how SIX3 can act either as a tumour suppressor or as a marker of poor prognosis in different cancer types. Moreover, we summarize recent findings on the role of SIX3 in pancreatic β cells and highlight emerging evidence that SIX2 also contributes to β-cell identity and regulatory stability. Downregulation of SIX2 and SIX3 alters gene regulatory programs associated with β-cell homeostasis and contributes to type 2 diabetes. As accumulating evidence links members of the SIX family to cancer and metabolic disease, it is crucial to characterize how these transcription factors regulate cell identity, with important implications for disease mechanisms and therapeutic strategies.

## Linked entities

- **Genes:** SIX3 (SIX homeobox 3) [NCBI Gene 6496], SIX6 (SIX homeobox 6) [NCBI Gene 4990], SIX2 (SIX homeobox 2) [NCBI Gene 10736]
- **Diseases:** cancer (MONDO:0004992), type 2 diabetes (MONDO:0005148)

## Full-text entities

- **Genes:** Ccnd1 (cyclin D1) [NCBI Gene 12443] {aka CycD1, Cyl-1, PRAD1, bcl-1, cD1}, six3a (SIX homeobox 3a) [NCBI Gene 30635] {aka six3, six3.1, wu:fc10a08}, RHO (rhodopsin) [NCBI Gene 6010] {aka CSNBAD1, OPN2, RP4}, GHRL (ghrelin and obestatin prepropeptide) [NCBI Gene 51738] {aka MTLRP}, SIX2 (SIX homeobox 2) [NCBI Gene 10736], TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}, AURKB (aurora kinase B) [NCBI Gene 9212] {aka AIK2, AIM-1, AIM1, ARK-2, ARK2, AurB}, wnt8b (wingless-type MMTV integration site family, member 8b) [NCBI Gene 30144] {aka wnt-8b}, MYOG (myogenin) [NCBI Gene 4656] {aka MYF4, bHLHc3, myf-4}, EGFR (epidermal growth factor receptor) [NCBI Gene 1956] {aka ERBB, ERBB1, ERRP, HER1, NISBD2, NNCIS}, ATP1A1 (ATPase Na+/K+ transporting subunit alpha 1) [NCBI Gene 476] {aka CMT2DD, HOMGSMR2}, GMNN (geminin DNA replication inhibitor) [NCBI Gene 51053] {aka Gem, MGORS6}, WNT8B (Wnt family member 8B) [NCBI Gene 7479], WNT1 (Wnt family member 1) [NCBI Gene 7471] {aka BMND16, INT1, OI15}, SIX3 (SIX homeobox 3) [NCBI Gene 6496] {aka HPE2}, wnt1 (wingless-type MMTV integration site family, member 1) [NCBI Gene 30128] {aka WNT-1, int-1, sb:eu647, zgc:194464, zgc:194478}, Rax (retina and anterior neural fold homeobox) [NCBI Gene 19434] {aka 7530406A22Rik, E130303K03Rik, Rx, ey-1, ey1}, SIX5 (SIX homeobox 5) [NCBI Gene 147912] {aka BOR2, DMAHP}, ZNF263 (zinc finger protein 263) [NCBI Gene 10127] {aka FPM315, ZKSCAN12, ZSCAN44}, MTA1 (metastasis associated 1) [NCBI Gene 9112], disco (disconnected) [NCBI Gene 32579] {aka CG9908, Dmel\CG9908, disc}, SHH (sonic hedgehog signaling molecule) [NCBI Gene 6469] {aka HHG1, HLP3, HPE3, MCOPCB5, SMMCI, ShhNC}, pax6a (paired box 6a) [NCBI Gene 30567] {aka PAXZF-A, Pax6.1, cb280, fc20e07, pax-a, pax6}, MIR4306 (microRNA 4306) [NCBI Gene 100422861] {aka mir-4306}, Six3 (sine oculis-related homeobox 3) [NCBI Gene 20473] {aka E130112M24Rik, Six3a, Six3alpha, Six3b, Six3beta}, NEUROD1 (neuronal differentiation 1) [NCBI Gene 4760] {aka BETA2, BHF-1, MODY6, NEUROD, T2D, bHLHa3}, TLE5 (TLE family member 5, transcriptional modulator) [NCBI Gene 166] {aka AES, AES-1, AES-2, ESP1, GRG, GRG5}, salm (spalt major) [NCBI Gene 34569] {aka 3602, B1164, CG6464, Dmel\CG6464, SAL, SAL[M]}, SIX4 (SIX homeobox 4) [NCBI Gene 51804] {aka AREC3}, KDM1A (lysine demethylase 1A) [NCBI Gene 23028] {aka AIMAH3, AOF2, BHC110, CPRF, KDM1, LSD1}, AURKA (aurora kinase A) [NCBI Gene 6790] {aka AIK, ARK1, AURA, BTAK, PPP1R47, STK15}, INS (insulin) [NCBI Gene 3630] {aka IDDM, IDDM1, IDDM2, ILPR, IRDN, MODY10}, CTNNB1 (catenin beta 1) [NCBI Gene 1499] {aka CTNNB, EVR7, MRD19, NEDSDV, armadillo}, shha (sonic hedgehog signaling molecule a) [NCBI Gene 30269] {aka ShhNC, fc83d08, shh, syu, vhh-1, vhh1}, MAFB (MAF bZIP transcription factor B) [NCBI Gene 9935] {aka DURS3, KRML, MCTO}, SOX2 (SRY-box transcription factor 2) [NCBI Gene 6657] {aka ANOP3, MCOPS3}, TLE1 (TLE family member 1, transcriptional corepressor) [NCBI Gene 7088] {aka ESG, ESG1, GRG1, TLE-1}, six1b (SIX homeobox 1b) [NCBI Gene 404627] {aka six1, zgc:77345}, MTA3 (metastasis associated 1 family member 3) [NCBI Gene 57504], Foxg1 (forkhead box G1) [NCBI Gene 15228] {aka 2900064B05Rik, BF-1, Bf1, Hfh9, Hfhbf1}, PAX6 (paired box 6) [NCBI Gene 5080] {aka AN, AN1, AN2, ASGD5, D11S812E, FVH1}, ins (preproinsulin) [NCBI Gene 30262] {aka zgc:109842}, ey (eyeless) [NCBI Gene 43812] {aka CG1464, DPax-6, Dmel\CG1464, EYEL, Ey/Pax6, OK107}, SIX6 (SIX homeobox 6) [NCBI Gene 4990] {aka MCOPCT2, ODRMD, OPTX2, Six9}, eya (eyes absent) [NCBI Gene 33916] {aka 24582246, BcDNA:LD16029, CG9554, CLI, CLIFT, Clift}, six3b (SIX homeobox 3b) [NCBI Gene 30636] {aka SIX3, cb347, six3.2, six6}, NPNT (nephronectin) [NCBI Gene 255743] {aka EGFL6L, POEM}, Six6 (sine oculis-related homeobox 6) [NCBI Gene 20476] {aka Optx2, Six9}, six1a (SIX homeobox 1a) [NCBI Gene 494168] {aka six1b, six2, zgc:92332}, Cdkn1b (cyclin dependent kinase inhibitor 1B) [NCBI Gene 12576] {aka Kip1, p27, p27Kip1}, Gnrh1 (gonadotropin releasing hormone 1) [NCBI Gene 14714] {aka Gnrh, Gnrh2, LHRH, Lhrh1, Lnrh, hpg}, DPP4 (dipeptidyl peptidase 4) [NCBI Gene 1803] {aka ADABP, ADCP2, CD26, DPPIV, TP103}, tcf3a (transcription factor 3a) [NCBI Gene 30310] {aka e12, tcf3, zfe12, zgc:113926}, dpp (decapentaplegic) [NCBI Gene 33432] {aka BMP, Bmp, CG9885, DPP-C, Dm-DPP, DmDPP}, Optix (optix) [NCBI Gene 44108] {aka CG18455, D-Six3, Dmel\CG18455, Dsix3, Six3, anon-WO0153538.79}
- **Diseases:** tumorigenic (MESH:D002471), esophageal cancer (MESH:D004938), astrocytoma (MESH:D001254), aprosencephaly (MESH:D000757), congenital brain malformation (MESH:D020785), Neurodevelopmental and Degenerative Eye Diseases (MESH:D019636), infertility (MESH:D007246), esophageal squamous cell carcinoma (MESH:D000077277), diabetes (MESH:D003920), atelencephaly (MESH:C536767), congenital malformations (OMIM:163000), impaired insulin secretion (MESH:D007333), injury to (MESH:D014947), beta-cell dysfunction (MESH:D007340), congenital eye malformations (MESH:D005124), T2D (MESH:D003924), optic nerve hypoplasia (MESH:D000080344), metastasis (MESH:D009362), anophthalmia (MESH:D000853), microphthalmia (MESH:D008850), breast cancer (MESH:D001943), craniofacial anomalies (MESH:D019465), beta-cell failure (MESH:D051437), congenital defects (MESH:D000013), glaucomatous degeneration (MESH:D009410), HPE (MESH:D016142), forebrain malformations (MESH:C566067), metabolic disease (MESH:D008659), blindness (MESH:D001766), glioma (MESH:D005910), POAG (MESH:D005902), lung adenocarcinoma (MESH:D000077192), aggressive (MESH:D010554), cancer (MESH:D009369), neuro-ocular pathologies (MESH:C000722495), optic neuropathy (MESH:D009901), glioblastoma (MESH:D005909)
- **Chemicals:** Ca2+ (-), glucose (MESH:D005947), glycemia (MESH:D001786)
- **Species:** Homo sapiens (human, species) [taxon 9606], Xenopus laevis (African clawed frog, species) [taxon 8355], Drosophila melanogaster (fruit fly, species) [taxon 7227], Mus musculus (house mouse, species) [taxon 10090], Danio rerio (leopard danio, species) [taxon 7955]
- **Mutations:** V92G, Asn141His, R257P, V250A, H173P

## Full text

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## Figures

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## References

82 references — full list in the complete paper: https://tomesphere.com/paper/PMC13026914/full.md

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Source: https://tomesphere.com/paper/PMC13026914