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bioRxiv · 10.1101/2025.05.23.655849

A Global Thermodynamic-Kinetic Model Capturing the Hallmarks of Liquid-Liquid Phase Separation and Amyloid Aggregation

Bhandari, K.·Sun, Y.·Tang, H.·Ke, P. C.·Ding, F.
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Abstract

Aberrant aggregation of proteins into amyloid fibrils is associated with numerous neurodegenerative, systemic and metabolic diseases. Amyloidogenic proteins undergo spontaneous liquid-liquid phase separation (LLPS), rapidly forming protein-rich condensates prior to fibrillization. However, the exact effects of LLPS on amyloid aggregation remain unclear as contrasting fibrillization-promotion, inhibition and even biphasic effects have been reported in the literature. In this study, we integrate LLPS-induced heterogeneity of protein concentrations into a thermodynamic-kinetic model of amyloid aggregation. We adopt the phase transition theory and introduce protein condensates as an additional protein state alongside non-interacting monomers, oligomers and fibrils. Oligomerization and fibrillization can occur both in the protein-rich condensates and the protein-poor solution. This model allows us to derive the time evolution of different states - monomers, condensates, oligomers, and fibrils - spanning a wide range of concentrations, and determine how model parameters related to LLPS, fibrillization, and oligomerization influence fibrillization kinetics. Using this global model, we resolve the seemingly contradictory effects of LLPS on fibrillization. We expect the developed thermodynamic-kinetic model of LLPS, and amyloid aggregation will help advance our understanding, modulation, and mitigation of pathological aggregation processes in amyloid diseases. TOC O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=62 SRC="FIGDIR/small/655849v1_ufig1.gif" ALT="Figure 1"> View larger version (13K): org.highwire.dtl.DTLVardef@12eeb58org.highwire.dtl.DTLVardef@15cee66org.highwire.dtl.DTLVardef@278c10org.highwire.dtl.DTLVardef@5c8d4a_HPS_FORMAT_FIGEXP M_FIG C_FIG

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Bhandari, K., Sun, Y., Tang, H., Ke, P. C., Ding, F.. 2025-05-27. A Global Thermodynamic-Kinetic Model Capturing the Hallmarks of Liquid-Liquid Phase Separation and Amyloid Aggregation. https://doi.org/10.1101/2025.05.23.655849

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