Liquid-liquid separation of aqueous solutions: A molecular dynamics study

Significance of liquid-liquid phase separation (LLPS)-related genes in breast cancer: a multi-omics analysis

Currently, the role of liquid-liquid phase separation (LLPS) in cancer has been preliminarily explained. However, the significance of LLPS in breast cancer is unclear. In this study, single cell sequencing datasets GSE188600 and GSE198745 for breast cancer were downloaded from the GEO database. Transcriptome sequencing data for breast cancer were downloaded from UCSC database. We divided breast cancer cells into high-LLPS group and low-LLPS group by down dimension clustering analysis of single-cell sequencing data set, and obtained differentially expressed genes between the two groups. Subsequently, weighted co-expression network analysis (WGCNA) was performed on transcriptome sequencing data, and the module genes most associated with LLPS were obtained. COX regression and Lasso regression were performed and the prognostic model was constructed. Subsequently, survival analysis, principal component analysis, clinical correlation analysis, and nomogram construction were used to evaluate the significance of the prognostic model. Finally, cell experiments were used to verify the function of the model's key gene, PGAM1. We constructed a LLPS-related prognosis model consisting of nine genes: POLR3GL, PLAT, NDRG1, HMGB3, HSPH1, PSMD7, PDCD2, NONO and PGAM1. By calculating LLPS-related risk scores, breast cancer patients could be divided into high-risk and low-risk groups, with the high-risk group having a significantly worse prognosis. Cell experiments showed that the activity, proliferation, invasion and healing ability of breast cancer cell lines were significantly decreased after knockdown of the key gene PGAM1 in the model. Our study provides a new idea for prognostic stratification of breast cancer and provides a novel marker: PGAM1.

Detecting Liquid-Liquid Phase Separations Using Molecular Dynamics Simulations and Spectral Clustering

A stringent test of the accuracy of empirical force fields is reproducing the phase diagram of bulk phases and mixtures. Exploring the phase diagram of mixtures requires the detection of phase boundaries and critical points. In contrast to most solid-liquid transitions, in which a global order parameter (average density) can be used to discriminate between two phases, some demixing transitions entail relatively subtle changes in the local environment of each molecule. In such cases, finite sampling errors and finite-size effects make the identification of trends in local order parameters extremely challenging. Here we analyze one such example, namely a methanol/hexane mixture, and compute several local and global structural properties. We simulate the system at various temperatures and study the structural changes associated with demixing. We show that despite a seemingly continuous transformation between mixed and demixed states, the topological properties of the H-bond network change abruptly as the system crosses the demixing line. In particular, by using spectral clustering, we show that the distribution of cluster sizes develops a fat tail (as expected from percolation theory) in the vicinity of the critical point. We illustrate a simple criterion to identify this behavior, which results from the emergence of large system-spanning clusters from a collection of aggregates. We further tested the spectral clustering analysis on a Lennard-Jones system as a standard example of a system with no H-bonds, and also, in this case, we were able to detect the demixing transition.

Direct observation of reversible liquid-liquid transition in a trehalose aqueous solution

Recent studies on liquid water suggest that the two liquid waters exist in the supercooled temperature region and that their existence relates to the anomalous behavior of low-temperature liquid water such as the maximum density at 4 °C. However, the experimental investigation of two liquid waters is difficult because of the rapid crystallization. In this study, a reversible liquid–liquid transition in a trehalose aqueous solution by the change in pressure was observed directly. This result suggests strongly that two liquid waters exist in the aqueous solution. This study has implications for wide fields related to liquid water, such as solution chemistry, cryobiology, meteorology, and food engineering.

Water forms two glassy waters, low-density and high-density amorphs, which undergo a reversible polyamorphic transition with the change in pressure. The two glassy waters transform into the different liquids, low-density liquid (LDL) and high-density liquid (HDL), at high temperatures. It is predicted that the two liquid waters also undergo a liquid–liquid transition (LLT). However, the reversible LLT, particularly the LDL-to-HDL transition, has not been observed directly due to rapid crystallization. Here, I prepared a glassy dilute trehalose aqueous solution (0.020 molar fraction) without segregation and measured the isothermal volume change at 0.01 to 1.00 GPa below 160 K. The polyamorphic transition and the glass-to-liquid transition for the high-density and low-density solutions were examined, and the liquid region where both LDL and HDL existed was determined. The results show that the reversible polyamorphic transition induced by the pressure change above 140 K is the LLT. That is, the transition from LDL to HDL is observed. Moreover, the pressure hysteresis of LLT suggests strongly that the LLT has a first-order nature. The direct observation of the reversible LLT in the trehalose aqueous solution has implications for understanding not only the liquid–liquid critical point hypothesis of pure water but also the relation between aqueous solution and water polyamorphism.

Segregation on the nanoscale coupled to liquid water polyamorphism in supercooled aqueous ionic-liquid solution

The most intriguing hypothesis explaining many water anomalies is a metastable liquid-liquid phase transition (LLPT) at high pressure and low temperatures, experimentally hidden by homogeneous nucleation. Recent infrared spectroscopic experiments showed that upon addition of hydrazinium trifluoroacetate to water, the supercooled ionic solution undergoes a sharp, reversible LLPT at ambient pressure, possible offspring of that in pure water. Here, we calculate the temperature-dependent signature of the OH-stretching band, reporting on the low/high density phase of water, in neat water and in the same experimentally investigated ionic solution. The comparison between the infrared signature of the pure liquid and that of the ionic solution can be achieved only computationally, providing insight into the nature of the experimentally observed phase transition and allowing us to investigate the effects of ionic compounds on the high to low density supercooled liquid water transition. We show that the experimentally observed crossover behavior in the ionic solution can be reproduced only if the phase transition between the low- and high-density liquid states of water is coupled to a mixing-unmixing transition between the water component and the ions: at low temperatures, water and ions are separated and the water component is a low density liquid. At high temperatures, water and ions get mixed and the water component is a high-density liquid. The separation at low temperatures into ion-rich and ion-poor regions allows unveiling the polyamorphic nature of liquid water, leading to a crossover behavior resembling that observed in supercooled neat water under high pressure.

Ice Confinement-Induced Solubilization and Aggregation of Cyanonaphthol Revealed by Fluorescence Spectroscopy and Lifetime Measurements

When an aqueous salt solution freezes, a freeze-concentrated solution (FCS) separates from the ice. The properties of the FCS may differ from those of a supercooled bulk solution of the same ionic strength at the same temperature. The fluorescence and lifetime characteristics of 6-cyano-2-naphthol (6CN) were studied in frozen NaCl solutions in order to provide insight into the solution properties of the FCS. While the photoacidity of 6CN in an FCS is similar to that in solution, several anomalous behaviors are observed. Fluorescence spectra indicate that the solubility of 6CN is significantly enhanced in the FCS (50 mM or higher) compared to that in the bulk NaCl solution where the solubility limit is 250 μM. The high solubility induces the aggregation of 6CN in the FCS, which is not detected in bulk solutions. This trend becomes marked as the initial NaCl concentration decreases and the FCS is confined in a small space. The fluorescence lifetimes of 6CN in the FCS support the spectroscopy results. In addition to the species identified by fluorescence spectroscopy, excimers are assigned from lifetime measurements in the FCS. The excimer formation is also a result of the enhanced solubility of 6CN in the FCS.

Experimental observation of nanophase segregation in aqueous salt solutions around the predicted liquid-liquid transition in water

The liquid-liquid transition in supercooled liquid water, predicted to occur around 220 K, is controversial due to the difficulty of studying it caused by competition from ice crystallization (the so-called "no man's land"). In aqueous solutions, it has been predicted to give rise to phase separation on a nanometer scale between a solute-rich high-density phase and a water-rich low-density phase. Here we report direct experimental evidence for the formation of a nanosegregated phase in eutectic aqueous solutions of LiCl and LiSCN where the presence of crystalline water can be experimentally excluded. Femtosecond infrared and Raman spectroscopies are used to determine the temperature-dependent structuring of water, the solvation of the SCN^- anion, and the size of the phase segregated domains.

Space Size-Dependent Transformation of Tetraphenylethylene Carboxylate Aggregates by Ice Confinement

Tetraphenylethylene carboxylate (TPEC) aggregates are transformed by ice confinement, which is controlled by the initial concentration of sucrose employed as a cryoprotectant and temperature. The freezing of aqueous sucrose leads to the formation of micro- or nanoliquid phase confined in ice. Aggregation-induced emission (AIE) of tetraphenylethylene carboxylate (TPEC) in the ice-confined space is explored using fluorescence spectroscopy and lifetime measurements. The characteristics of AIE in the ice-confined space strongly depend on the initial sucrose concentration and temperature, which determine the size of the liquid phase. The AIE of TPEC in the ice-confined space can be classified into three regimes in terms of spectroscopic features. Loosely packed J aggregates of TPEC are formed in the microliquid phase (>2 μm). The fluorescence intensity increases, and the wavelength is hypsochromically shifted with a decrease in the size of the space, indicating that the molecular arrangement in the aggregate depends on the space size. The fluorescence lifetimes indicate polydisperse, loosely packed aggregation. No further change in aggregate structure is observed once the liquid phase size is decreased to ∼2 μm, and a spectroscopically identical structure is maintained upon further reduction of the space size to ∼0.5 μm. The molecular arrangement in the aggregate is independent of the space size in this regime. However, when the size of the space becomes smaller than ∼0.5 μm, the aggregate structure again starts to change into a more tightly packed aggregate and a hypsochromic shift of the fluorescence wavelength occurs again. The fluorescence lifetime indicates monodispersed aggregation in this submicrospace.

Molecular aspects of glycine clustering and phase separation in an aqueous solution during anti-solvent crystallization

The anti-solvent crystallization behavior of the glycine aqueous and ethanol system was addressed through molecular dynamics simulation of a non-equilibrium state.