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Nonequilibrium Remodeling of Collagen IV Networks in Silico

Billie Meadowcroft1,2,3,4, Valerio Sorichetti1, Eryk Ratajczyk4,5,6, Fernanda Pérez-Verdugo1, Nargess Khalilgharibi2,3, Yanlan Mao2,3, Ivan Palaia1,7, and Anđela Šarić1,*

  • *Contact author: andela.saric@ist.ac.at
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PRX Life 3, 033019 – Published 5 September, 2025

DOI: https://doi.org/10.1103/gdd5-rnh7

Abstract

Collagen IV is one of the main components of the basement membrane, a layer of material that lines the majority of tissues in multicellular organisms. Collagen IV molecules assemble into networks, providing stiffness and elasticity to tissues and informing cell and organ shape, especially during development. In this work, we develop two coarse-grained models for collagen IV molecules that retain biochemical bond specificity and coarse grain at different length scales. Through molecular-dynamics simulations, we test the assembly and mechanics of the resulting networks and measure their response to strain in terms of stress, microscopic alignment, and bond dynamics. Within the basement membrane, collagen IV networks rearrange by molecule turnover, which affects tissue organization and can be linked with enzyme activity. Here we explore network rearrangements via bond remodeling, the process of breaking and remaking of bonds between network molecules. We then investigate the effects of active (enzymatic) bond remodeling. We find that this nonequilibrium remodeling allows a network to keep its integrity under strain, while relaxing fully over a variety of timescales, a dynamic response that is unavailable to networks undergoing equilibrium remodeling.

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PRX Life 3, 033019– Published 5 September, 2025
  • Received 11 October 2024
  • Accepted 28 April 2025
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