Data-driven dynamic modelling identifies polyploidisation as key process in cell cycle progression upon DNA damage

Burgers, E. J.; Heldring, M. M.; Wijaya, L. S.; Danilyuk, T. Y.; Su, J.; Molenaar, S. J.; Bouwman, P.; Le Devedec, S. E.; Van de Water, B.; Beltman, J. B.

doi:10.1101/2025.08.14.670293

bioRxiv · 10.1101/2025.08.14.670293

Data-driven dynamic modelling identifies polyploidisation as key process in cell cycle progression upon DNA damage

Burgers, E. J.·Heldring, M. M.·Wijaya, L. S.·Danilyuk, T. Y.·Su, J.·Molenaar, S. J.·Bouwman, P.·Le Devedec, S. E.·Van de Water, B.·Beltman, J. B.

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Abstract

Chemotherapeutic agents often cause DNA damage in order to kill fast-dividing cancer cells or disrupt their proliferation. Therefore, understanding the interplay between DNA damage and cell cycle progression is highly relevant for understanding cancer cell behaviour. An important regulator is transcription factor p53, primarily known for its function to maintain genomic stability, regulate transient and permanent cell cycle arrest and apoptosis. Activated p53 transcriptionally regulates the expression of many proteins, among which are MDM2, p21 and BTG2. MDM2 functions as a direct inhibitor of p53 by targeting it for ubiquitination. The proteins p21 and BTG2 are known for their regulatory function in G1 and G2 cell cycle arrest. Using HepG2-FUCCI cells, we showed that exposure to cisplatin or etoposide caused a temporary G2 arrest. To study the link between protein expression and cell cycle arrest, we developed a mathematical model in which we integrated a previously established model for the protein expression dynamics of p53, MDM2, p21 and BTG2 with a cell cycle model. This allowed us to determine the importance of p21 and BTG2 in their stimulation of G1 and G2 cell cycle arrest. We found that the protein dynamics could predict the G2 cell cycle arrest in exposed cells, but only in combination with endoreplication, i.e., the alternation of S and G phases without mitosis, resulting in polyploid cells. Our model predicted that the majority of cells endoreplicate upon exposure to high concentrations of cisplatin and most concentrations of etoposide, which we validated with additional time-lapse imaging data in which we could track individual cells. In conclusion, polyploidisation is a generic response of HepG2 cells after treatment with DNA-damaging compounds.

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Burgers, E. J., Heldring, M. M., Wijaya, L. S., Danilyuk, T. Y., Su, J., Molenaar, S. J., Bouwman, P., Le Devedec, S. E., Van de Water, B., Beltman, J. B.. 2025-08-19. Data-driven dynamic modelling identifies polyploidisation as key process in cell cycle progression upon DNA damage. https://doi.org/10.1101/2025.08.14.670293

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