# Reactivation of the silenced BASP1 gene suppresses oncogenic WNT signaling in human colorectal cancer cells

**Authors:** Leonie I. Weber, Lea E. Timpen, Anna-Sophia Egger-Hörschinger, Philemon Schöpf, Nesin D. Ayhan, David Demmel, Madlen Hotze, Yang Zhang, Mahdi Mehrabi, Kane Puglisi, Eduard Stefan, Nassim Ghaffari-Tabrizi-Wizsy, José M. Ramos-Pittol, Marcel Kwiatkowski, Markus Hartl

PMC · DOI: 10.1073/pnas.2524159123 · 2026-03-05

## TL;DR

Reactivating the BASP1 gene in colorectal cancer cells suppresses harmful WNT and MYC signaling, reducing tumor growth and promoting normal cell behavior.

## Contribution

Demonstrates that reactivating the silenced BASP1 gene can suppress oncogenic WNT and MYC signaling in colorectal cancer cells.

## Key findings

- BASP1 reactivation leads to repression of WNT signaling and downregulation of MYC in colorectal cancer cells.
- BASP1 interacts with β-catenin and binds to the MYC promoter to suppress its expression.
- Inhibiting TNIK, a WNT-associated kinase, also represses MYC, offering new therapeutic strategies.

## Abstract

Due to its pleiotropic functions in gene regulation, chromatin remodeling, and metabolism, MYC family members have a fundamental impact on cell growth control and proliferation. Aberrant activation of MYC provokes derailed cell signaling and malignant cell transformation in most human tumors. Therefore, genetic or pharmacological MYC inhibition represents a rational therapeutic approach. We have achieved this in colorectal cancer cells by genetically inducing transcriptional activation of BASP1 whose protein product interferes with MYC activity. This leads to suppression of tumor formation accompanied by WNT signaling repression and transcriptional downregulation of the effector target MYC. Furthermore, blocking WNT-associated protein kinase TNIK using a small molecule also results in transcriptional MYC repression, thereby expanding the tool repertoire to inhibit this oncogenic transcription factor.

Starting from human colon cancer cells showing aberrant WNT/β-catenin/TCF signaling, hyperactivated MYC, and silenced BASP1, we generated stable cell lines overexpressing BASP1, either ectopically, or by reactivating the dormant BASP1 promoter using a lentiviral CRISPR-based system. BASP1 encodes a neuronal signaling protein and transcriptional corepressor, from which tumor-suppressive functions have been described in avian cell systems and in multiple human cancer cell types. Proteome and transcriptome analyses revealed activation of several tumor and metastasis suppressors in BASP1-expressing cells, which also show strong repression of the transformed phenotype in terms of contact inhibition, anchorage-independent growth, and tumor formation. Cells with reactivated BASP1 display a flat and differentiated morphology with enhanced migratory potential, accompanied by expression of multiple genes implicated in actin polymerization, focal adhesion, and neuronal migration. Furthermore, MYC protein expression is substantially repressed due to BASP1-mediated transcriptional MYC downregulation involving BASP1 interaction with β-catenin and binding to the MYC promoter. Upon BASP1 activation, multiple key proteins of the canonical WNT signaling pathway become suppressed. One of these BASP1 targets is the protein kinase TNIK catalyzing phosphorylation of TCF7L2, the latter required for transcriptional MYC activation. Results obtained with a preclinical TNIK inhibitor in human colorectal cancer cells show efficient abrogation of MYC expression and consequently impaired dimerization with its interaction partner MAX. The antagonistic BASP1 effect on MYC and the MYC dependency on TNIK could enhance the development of strategies to interfere with oncogenic functions of the cancer driver MYC.

## Linked entities

- **Genes:** BASP1 (brain abundant membrane attached signal protein 1) [NCBI Gene 10409], MYC (MYC proto-oncogene, bHLH transcription factor) [NCBI Gene 4609], TCF7L2 (transcription factor 7 like 2) [NCBI Gene 6934], TNIK (TRAF2 and NCK interacting kinase) [NCBI Gene 23043]
- **Proteins:** ctnnb1.S (catenin beta 1 S homeolog), MAX (MYC associated transcriptional regulator X)
- **Diseases:** colorectal cancer (MONDO:0005575)

## Full-text entities

- **Genes:** JUND (JunD proto-oncogene, AP-1 transcription factor subunit) [NCBI Gene 3727] {aka AP-1}, STK4 (serine/threonine kinase 4) [NCBI Gene 6789] {aka KRS2, MST1, YSK3}, WNT3A (Wnt family member 3A) [NCBI Gene 89780], TRAF2 (TNF receptor associated factor 2) [NCBI Gene 7186] {aka MGC:45012, RNF117, TRAP, TRAP3}, EP300 (EP300 lysine acetyltransferase) [NCBI Gene 2033] {aka KAT3B, MKHK2, RSTS2, p300}, TCF4 (transcription factor 4) [NCBI Gene 6925] {aka CDG2T, E2-2, FCD2, FECD3, ITF-2, ITF2}, MYCN (MYCN proto-oncogene, bHLH transcription factor) [NCBI Gene 4613] {aka FGLDS1, MODED, MPAPA, MYCNsORF, MYCNsPEP, N-myc}, RB1 (RB transcriptional corepressor 1) [NCBI Gene 5925] {aka OSRC, PPP1R130, RB, p105-Rb, p110-RB1, pRb}, MKI67 (marker of proliferation Ki-67) [NCBI Gene 4288] {aka KIA, MIB-, MIB-1, PPP1R105}, WT1 (WT1 transcription factor) [NCBI Gene 7490] {aka AWT1, GUD, NPHS4, WAGR, WIT-2, WT-1}, HSF1 (heat shock transcription factor 1) [NCBI Gene 3297] {aka HSTF1}, KISS1 (KiSS-1 metastasis suppressor) [NCBI Gene 3814] {aka HH13, KiSS-1}, MYC (MYC proto-oncogene, bHLH transcription factor) [NCBI Gene 4609] {aka MRTL, MYCC, bHLHe39, c-Myc}, FOS (Fos proto-oncogene, AP-1 transcription factor subunit) [NCBI Gene 2353] {aka AP-1, C-FOS, p55}, JUN (Jun proto-oncogene, AP-1 transcription factor subunit) [NCBI Gene 3725] {aka AP-1, AP1, c-Jun, cJUN, p39}, TNIK (TRAF2 and NCK interacting kinase) [NCBI Gene 23043] {aka MAP4K7, MRT54}, CALM1 (calmodulin 1) [NCBI Gene 801] {aka CALML2, CAM2, CAM3, CAMB, CAMC, CAMI}, BASP1 (brain abundant membrane attached signal protein 1) [NCBI Gene 10409] {aka CAP-23, CAP23, NAP-22, NAP22}, TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}, HNF4A (hepatocyte nuclear factor 4 alpha) [NCBI Gene 3172] {aka FRTS4, HNF4, HNF4a7, HNF4a8, HNF4a9, HNF4alpha}, RUNX2 (RUNX family transcription factor 2) [NCBI Gene 860] {aka AML3, CBF-alpha-1, CBFA1, CCD, CCD1, CLCD}, TCF7L2 (transcription factor 7 like 2) [NCBI Gene 6934] {aka TCF-4, TCF4}, TRIM28 (tripartite motif containing 28) [NCBI Gene 10155] {aka KAP1, PPP1R157, RNF96, TF1B, TIF1B, TIF1beta}, MAP4K4 (mitogen-activated protein kinase kinase kinase kinase 4) [NCBI Gene 9448] {aka FLH21957, HEL-S-31, HGK, MEKKK4, NIK}, MTA1 (metastasis associated 1) [NCBI Gene 9112], E2F1 (E2F transcription factor 1) [NCBI Gene 1869] {aka E2F-1, RBAP1, RBBP3, RBP3}, CTNNB1 (catenin beta 1) [NCBI Gene 1499] {aka CTNNB, EVR7, MRD19, NEDSDV, armadillo}, HDAC9 (histone deacetylase 9) [NCBI Gene 9734] {aka HD7, HD7b, HD9, HDAC, HDAC7B, HDAC9B}, CREBBP (CREB binding lysine acetyltransferase) [NCBI Gene 1387] {aka CBP, KAT3A, MKHK1, RSTS, RSTS1}, PHB2 (prohibitin 2) [NCBI Gene 11331] {aka BAP, BCAP37, Bap37, PNAS-141, REA, hBAP}, SP1 (Sp1 transcription factor) [NCBI Gene 6667], PROX1 (prospero homeobox 1) [NCBI Gene 5629], MAPK1 (mitogen-activated protein kinase 1) [NCBI Gene 5594] {aka ERK, ERK-2, ERK2, ERT1, MAPK2, NS13}, PHB1 (prohibitin 1) [NCBI Gene 5245] {aka BAP32, HEL-215, HEL-S-54e, PHB}, CCND1 (cyclin D1) [NCBI Gene 595] {aka BCL1, D11S287E, PRAD1, U21B31}, VCL (vinculin) [NCBI Gene 7414] {aka CMD1W, CMH15, HEL114, MV, MVCL, VINC}, GAPDH (glyceraldehyde-3-phosphate dehydrogenase) [NCBI Gene 2597] {aka G3PD, GAPD, HEL-S-162eP}, RELA (RELA proto-oncogene, NF-kB subunit) [NCBI Gene 5970] {aka AIF3BL3, CMCU, NFKB3, p65}
- **Diseases:** leukemia, lymphoma, or carcinoma (MESH:D015459), Malignant (MESH:D009369), acute and chronic lymphocytic leukemia (MESH:D015451), pancreatic cancer (MESH:D010190), myelogenous leukemia (MESH:D007951), cervical cancer (MESH:D002583), prostate cancer (MESH:D011471), glioma (MESH:D005910), melanoma (MESH:D008545), colorectal adenocarcinoma (MESH:D003110), head and neck squamous cell carcinoma (MESH:D000077195), neuroblastoma (MESH:D009447), acute myeloid leukemia (MESH:D015470), oncogenesis (MESH:D063646), gastric cancer (MESH:D013274), lung adenocarcinoma (MESH:D000077192), tumor suppressors (OMIM:601308), leukemia (MESH:D007938), Colon Cancer (MESH:D015179), tumorigenic (MESH:D002471), Dukes C (OMIM:211750), thyroid cancer (MESH:D013964), metastasis (MESH:D009362), breast cancer (MESH:D001943), CAM (MESH:D015433)
- **Chemicals:** PNAS (MESH:D020135), agar (MESH:D000362), EDTA (MESH:D004492), lactate (MESH:D019344), aminoquinoline (MESH:D000634), dox (MESH:D004318), SDS (MESH:D012967), benzimidazole (MESH:C031000), water (MESH:D014867), urea (MESH:D014508), G418 (MESH:C010680), silicon (MESH:D012825), GSH (-), poly(A)+ (MESH:D011061), formaldehyde (MESH:D005557), DMSO (MESH:D004121), sepharose (MESH:D012685), lipid (MESH:D008055), glutathione (MESH:D005978), CO2 (MESH:D002245)
- **Species:** Mycoplasma (genus) [taxon 2093], Homo sapiens (human, species) [taxon 9606], Gallus gallus (bantam, species) [taxon 9031]
- **Mutations:** serine/threonine, rs6983267, G > T
- **Cell lines:** HTB-22 — Mus musculus (Mouse), Hybridoma (CVCL_A8FQ), HEK293T — Homo sapiens (Human), Transformed cell line (CVCL_0063), CCL-227 — Mus musculus (Mouse), Undefined cell line type (CVCL_M023), CRL-3216 — Homo sapiens (Human), Turner syndrome, Transformed cell line (CVCL_9M67), Tol2 — Hypophthalmichthys molitrix (Silver carp), Spontaneously immortalized cell line (CVCL_W140), embryonic kidney — Homo sapiens (Human), Human papillomavirus-related endocervical adenocarcinoma, Cancer cell line (CVCL_M624), K562 — Homo sapiens (Human), Blast phase chronic myelogenous leukemia, BCR-ABL1 positive, Cancer cell line (CVCL_0004), MCF7 — Homo sapiens (Human), Invasive breast carcinoma of no special type, Cancer cell line (CVCL_0031), ECM550 — Homo sapiens (Human), Finite cell line (CVCL_ZR68), 293 — Homo sapiens (Human), Transformed cell line (CVCL_0045), MP12 — Mus musculus (Mouse), Hybridoma (CVCL_A0RL), SW480-Bi — Homo sapiens (Human), Ataxia telangiectasia syndrome, Finite cell line (CVCL_1G63), SW620 — Homo sapiens (Human), Colon adenocarcinoma, Cancer cell line (CVCL_0547), SW480 — Homo sapiens (Human), Colon adenocarcinoma, Cancer cell line (CVCL_0546), MAX-L — Mus musculus (Mouse), Hybridoma (CVCL_KH35)

## Figures

5 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12974518/full.md

---
Source: https://tomesphere.com/paper/PMC12974518