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Biomolecules
Volume 16
Issue 6
10.3390/biom16060865
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This is an early access version, the complete PDF, HTML, and XML versions will be available soon.
Article

Decoding the Apical–Basal Surfaceome of Colon Epithelial Cells via Side-Selective Biotinylation

by
Katalin Kuffa
1,2,†,
Tamás Langó
2,†,
András Czirók
3,
Júlia Tárnoki-Zách
3,
Szilvia Bősze
4,5,
Loretta László
2,
Virág Vas
2,
Zoltán Szabó
2,6,* and
Gábor E. Tusnády
2,7,*
1
Doctoral School of Biology, Institute of Biology, ELTE Eötvös Loránd University, Pázmány P. stny. 1/C, H-1117 Budapest, Hungary
2
Institute of Molecular Life Sciences, Research Centre for Natural Sciences, HUN-REN, Magyar Tudósok krt 2, H-1117 Budapest, Hungary
3
Department of Biological Physics, Eötvös Loránd University, Pázmány P. stny. 1/A, H-1117 Budapest, Hungary
4
HUN-REN-ELTE Research Group of Peptide Chemistry, Hungarian Research Network, Eötvös Loránd University, Pázmány P. stny. 1/A, H-1117 Budapest, Hungary
5
Department of Genetics, Cell- and Immunobiology, Faculty of Science, Semmelweis University, Nagyvárad tér 4, H-1089 Budapest, Hungary
6
Department of Medical Chemistry, Albert Szent-Györgyi Medical School, University of Szeged, H-6725 Szeged, Hungary
7
Department of Bioinformatics, Semmelweis University, Tűzoltó u. 7, H-1094 Budapest, Hungary
*
Authors to whom correspondence should be addressed.
†
These authors have contributed equally to the work.
Biomolecules 2026, 16(6), 865; https://doi.org/10.3390/biom16060865 (registering DOI)
Submission received: 17 April 2026 / Revised: 8 June 2026 / Accepted: 10 June 2026 / Published: 12 June 2026
(This article belongs to the Section Biomacromolecules: Proteins, Nucleic Acids and Carbohydrates)
Versions Notes

Abstract

Colorectal cancer (CRC) is the third most common malignancy worldwide. Detailed characterization of cell surface proteins (CSPs) is essential for the identification of prognostic biomarkers and the development of novel therapeutic strategies. Cancer progression and epithelial cell polarity influence the expression levels and subcellular localization of these proteins. However, quantitative information on the distribution of CSPs between the apical and basolateral membranes remains limited, particularly in CRC cells. Here, we developed a rapid, high-throughput method based on the enrichment of biotinylated peptides and proteins from the apical and basolateral surfaces of polarized CRC epithelial cells (HT29 and HCT116), followed by LC-MS/MS analysis. This approach enables the simultaneous identification of the side-specific distribution of ~1200 CSPs. In addition, almost 500 potential N-glycosylation sites with the canonical consensus sequence of these proteins were identified, which may serve as targets for future site-specific glycosylation analyses. To evaluate the sensitivity of the method, we altered the surface proteome by generating TKS4-knockout cells and identified several surface markers whose expression levels differed significantly from those of wild-type cells. Overall, our findings provide new insights into the role of CSPs in CRC cells and gene-edited models, particularly in the context of TKS4-dependent epithelial-to-mesenchymal transition (EMT)-like phenotypes that model cancer metastasis.
Keywords: colorectal cancer; cell surface proteins; cell polarity; apical–basolateral sides; tight junction; biotinylation; N-glycosylation; quantitative mass spectrometry colorectal cancer; cell surface proteins; cell polarity; apical–basolateral sides; tight junction; biotinylation; N-glycosylation; quantitative mass spectrometry

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MDPI and ACS Style

Kuffa, K.; Langó, T.; Czirók, A.; Tárnoki-Zách, J.; Bősze, S.; László, L.; Vas, V.; Szabó, Z.; Tusnády, G.E. Decoding the Apical–Basal Surfaceome of Colon Epithelial Cells via Side-Selective Biotinylation. Biomolecules 2026, 16, 865. https://doi.org/10.3390/biom16060865

AMA Style

Kuffa K, Langó T, Czirók A, Tárnoki-Zách J, Bősze S, László L, Vas V, Szabó Z, Tusnády GE. Decoding the Apical–Basal Surfaceome of Colon Epithelial Cells via Side-Selective Biotinylation. Biomolecules. 2026; 16(6):865. https://doi.org/10.3390/biom16060865

Chicago/Turabian Style

Kuffa, Katalin, Tamás Langó, András Czirók, Júlia Tárnoki-Zách, Szilvia Bősze, Loretta László, Virág Vas, Zoltán Szabó, and Gábor E. Tusnády. 2026. "Decoding the Apical–Basal Surfaceome of Colon Epithelial Cells via Side-Selective Biotinylation" Biomolecules 16, no. 6: 865. https://doi.org/10.3390/biom16060865

APA Style

Kuffa, K., Langó, T., Czirók, A., Tárnoki-Zách, J., Bősze, S., László, L., Vas, V., Szabó, Z., & Tusnády, G. E. (2026). Decoding the Apical–Basal Surfaceome of Colon Epithelial Cells via Side-Selective Biotinylation. Biomolecules, 16(6), 865. https://doi.org/10.3390/biom16060865

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