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PubMed1999

Viscoelastic model of phase separation in colloidal suspensions and emulsions.

We propose a simple physical model of phase separation of colloidal suspensions and emulsions, which we call the "viscoelastic model." On the basis of this model, we consider two poorly understood phenomena: (i) phase separation accompanying the formation of a transient gel, and its collapse, and (ii) shear effects on composition fluctuations and phase separation. These phenomena can be explained by "asymmetric stress division" between the components of a mixture due to their size difference; the interaction network of particles can store elastic energy, while a fluid component cannot. The importance of the bulk stress stemming from an interaction network is discussed, using a concept of self-induced elastic constraint due to connectivity. We argue that there are common features to polymer solutions, colloidal suspensions, emulsions, and possibly protein solutions. They originate from dynamic asymmetry between the components and the resulting interaction network of the slower component of a mixture, which leads to the formation of a transient gel.

Journal Article↗

PubMed2005

Quantitative imaging by confocal scanning fluorescence microscopy of protein crystallization via liquid-liquid phase separation.

Metastable states such as liquid-liquid phase separation, aggregation and gelation can affect protein crystallization but their positive or negative effects are only partially understood. In this work, mixtures of PEG (MW 10 kDa) and a large model protein, glucose isomerase (MW 173 kDa), have been studied to characterize the effect of a metastable liquid-liquid phase separation on protein crystallization. Fluorescence labeling allowed confocal fluorescence microscopy observations and quantification of the partitioning of the protein and PEG between the liquid phases and showed two steps in the crystallization process. Two crystallization mechanisms within the liquid domain were revealed, yielding two different polymorphs. With one polymorph, few crystals nucleated and grew droplet-by-droplet in the dispersed concentrated liquid phase, while for the other homogeneous crystal nucleation and growth occurred independently and simultaneously in numerous droplets of the concentrated phase. The results demonstrate the substantial possible complexity of crystallization behavior, as well as its sensitivity to the location of the conditions on the phase diagram and to the physicochemical properties of the system.

Aldose-Ketose Isomerases↗

PubMed2001

Phase separation in gelatin/maltodextrin and gelatin/maltodextrin/gum arabic mixtures studied using small-angle light scattering, turbidity, and microscopy.

The kinetics of phase separation were observed in the gelatin/maltodextrin and gelatin/maltodextrin/gum arabic systems, where gum arabic was added as a minority component, using small-angle light scattering, turbidity measurement, and confocal scanning laser microscopy. Phase separation occurred by spinodal decomposition for quenches both above and below the temperature at which gelatin gelled. Coarsening of the phase-separated microstructure was hindered by gelation, and a hydrodynamic mechanism, observed when the gelatin remained in the liquid state, was suppressed. Gum arabic, containing both polysaccharide and polypeptide components, was hypothesized to be potentially interfacially active in the gelatin/maltodextrin system, in analogy with synthetic block copolymer compatibilizers in demixed synthetic polymer systems. The hypothesis was experimentally refuted under the chosen experimental conditions, as no evidence was found to suggest that it altered the phase separation behavior.

Biopolymers↗

PubMed1992

Phase-separation inhibitors and prevention of selenite cataract.

The variation of the phase-separation temperature (Tc) was studied in lenses during formation of cataracts induced by a subcutaneous injection of sodium selenite. In normal control animals, the Tc decreased monotonically with increasing age. Approximately 2 days after administration of the selenite the Tc decreased sharply to a minimum, and then at day 4 the Tc increased dramatically toward body temperature. Mature irreversible cataracts formed approximately 6 days after injection of the selenite. Intraperitoneal administration of WR-77913, a phase-separation inhibitor, prevented the abnormal variation of Tc in vivo. When injected into control animals without selenite, WR-77913 produced no abnormal variation in Tc. The results confirm that Tc is a sensitive measure of early changes in the lens and that opacification associated with abnormal variation in Tc can be prevented in vivo by using a phase-separation inhibitor.

Amifostine↗

PubMed1988

Calcium-induced phase separation phenomena in multicomponent unsaturated lipid mixtures.

The ability of calcium to induce phase separation in multicomponent lipid mixtures containing various unsaturated species of acidic and neutral phospholipids has been investigated by 31P NMR, 3H NMR, and small-angle X-ray diffraction techniques. It is shown that, in unsaturated (dioleoyl-) phosphatidylglycerol (PG)/phosphatidylethanolamine (PE) (1:1) and phosphatidic acid (PA)/phosphatidylcholine (PC) (1:1) mixtures, calcium is unable to induce lateral phase separation of the acidic and neutral lipids and that all the lipids adopt a hexagonal (HII) phase in the presence of calcium. In multicomponent mixtures containing one or more acidic species the presence of cholesterol either facilitates calcium-induced lamellar to hexagonal (HII) transitions for all the lipid components or, in systems already in a hexagonal (HII) phase, mitigates against calcium-induced lateral phase separations. Further, cholesterol is shown to exhibit no preferential interaction on the NMR time scale with either PC, PE, or phosphatidylserine (PS) when the lipids are in the liquid-crystal state. The ability of cholesterol to directly induce HII phase formation in PC/PE mixtures is also shown to be common to various other sterols including ergosterol, stigmasterol, coprostanol, epicoprostanol, and androstanol.

Calcium↗

PubMed2026

Mixing chromatin fibers with different nucleosome repeat lengths changes dynamics of chromatin phase separation.

The eukaryotic genome is organized into chromatin at multiple lengths and timescales. Liquid-liquid phase separation has recently emerged as a mechanism for the dynamic compartmentalization of chromatin. However, it remains unclear how cells can locally alter phase separation behavior to condense, decondense, and segregate specific regions of their genome. Selective interactions between chromatin fibers with different nucleosome repeat lengths (NRLs), as well as their incorporation into existing condensates composed of different NRL chromatin fibers, may provide a pathway for such processes. Using fluorescence microscopy, we investigated how these mechanisms influence the formation, coalescence, and maturation of chromatin condensates. Our results show distinct NRL-dependent mixing behaviors of chromatin before and after condensate formation. 167 and 197 NRL fibers, known to fold into compact fibers by strong nucleosome stacking interactions, formed amorphous condensates. In contrast, 172 and 202 NRL fibers, which only allow for weak stacking, formed spherical condensates. When NRLs were mixed, amorphous condensates exhibited localized clustering of identical NRLs. In spherical condensates, however, both NRLs were homogeneously distributed, with a varying NRL ratio per condensate. In addition, incorporation of 167 NRLs into preexisting 172 NRL condensates resulted in a multiphase structure where 167 NRL fibers formed an outer layer. These findings present an intrinsic link between DNA sequence, nucleosome positioning, local chromatin configuration and multiscale phase separation behavior. More broadly, they contribute to a deeper understanding of the dynamic methods of genome organization employed by eukaryotic organisms.

chromatin↗

PubMed2002

Criterion for phase separation in one-dimensional driven systems.

A general criterion for the existence of phase separation in driven density-conserving one-dimensional systems is proposed. It is suggested that phase separation is related to the size dependence of the steady-state currents of domains in the system. A quantitative criterion for the existence of phase separation is conjectured using a correspondence made between driven diffusive models and zero-range processes. The criterion is verified in all cases where analytical results are available, and predictions for other models are provided.

Journal Article↗

PubMed1982

X-ray diffraction and electron microscope study of phase separation in rod outer segment photoreceptor membrane multilayers.

Phase separation in artificially stacked multilayers of isolated bovine retinal rod outer segment (ROS) membranes has been examined via x-ray diffraction and electron microscopy. Specimens were prepared by isopotential spin drying followed with partial hydration by equilibration against moist gas streams. Upon dehydration, the multilamellar membrane phase assumes a binary phase composition consisting of concentrated protein-containing lamellae interspersed with microdomains of hexagonally packed tubes of lipid in a HII configuration. The HII lattice is geometrically coupled to the lamellar phase with one set of hexagonal crystal planes co-planar to the local membrane lamellae. The hexagonal microdomains bear a striking resemblance to the "paracrystalline inclusions" observed in fast-frozen, intact frog ROS (Corless and Costello. 1981. Exp. Eye Res. 32:217). The lamellar lattice is characterized by an unusually small degree of disorder. Sharp lamellar diffraction with a 120 A unit cell is observed (at near total dehydration) to a resolution of 6 A. A model consistent with the data is that a multilamellar array of ROS disks is stable as long as the external disk surfaces are kept sufficiently far apart. If the distance between the membranes is allowed to shrink below a certain critical value, the disk lipids spontaneously convert to a nonbilayer phase. This suggests that the structure of the ROS is stabilized by an internal framework that acts to keep the disks apart from one another and from the plasmalemma. Thus, the necessity of avoiding phase separations may provide a rationale for the peculiar morphology of the ROS.

Animals↗

PubMedDate not supplied

Manipulation of lyophilization-induced phase separation: implications for pharmaceutical proteins.

Lyophilization, or freeze-drying, of pharmaceutical proteins is often the only processing method that provides requisite long-term product stability. Freezing and drying, however, can cause acute damage to proteins. To alleviate damage, formulations frequently include protein stabilizers (often polymers and/or sugars), as well as buffering salts and "inert" bulking agents. While great efforts are placed on developing a formulation and suitable lyophilization cycle, incompatibilities among components through freezing and drying have been almost completely ignored. We demonstrate that solutions of poly(ethylene glycol) (PEG) and dextran, initially below critical concentrations for phase separation, do indeed experience a liquid-liquid phase separation induced by freeze concentration during the lyophilization cycle. The separation is shown to evolve with annealing at -7 degrees C and can be effectively inhibited simply by replacing NaCl with KCl in the formulation buffer. In addition, we show that phase separation causes unfolding of a model protein, recombinant hemoglobin, when freeze-dried in the PEG/dextran system. When the phase separation is averted by switching to KCl, the protein structural damage is also avoided. Measurements of pH in the frozen solutions show that the structural damage is not a result of pH changes. We suggest that KCl forms a glass with rapid cooling which kinetically prevents the phase separation and thus the protein structural damage.

Chemical Phenomena↗

PubMed1982

Protein-dependent lipid lateral phase separation as a mechanism of human erythrocyte ghost resealing.

The hypothesis of a correlation between a 10 degrees-20 degrees C lipid phase transition and the resealing process of human erythrocyte membrane has been investigated. The conditions required to reseal human erythrocyte ghosts have been studied by measuring the amount of fluorescein-labeled dextran (FD) that is trapped into the membrane. Temperature per se was sufficient to induce membrane resealing: (1) at 5 mM sodium phosphate, pH 7.8 (5P8), resealing began at 12 degrees C; (2) at salt concentrations above 8 mM sodium phosphate, it occurred at lower temperature; and (3) in isotonic saline was detected just above 5 degrees C. The removal of peripheral membrane proteins from unsealed membranes by chymotrypsin at 0 degree C in 5P8 was followed by membrane resealing. This seems to imply that the presence of proteins is necessary to maintain the membrane unsealed. Protein-induced lateral phase separation of lipids may be a reasonable mechanism for the observed phenomena. In fact, the permeability of phosphatidylserine-phosphatidylcholine mixed liposomes to FD is modified by lipid lateral phase separation induced by pH or poly-L-lysine. Electron spin resonance studies of membrane fluidity by a spin labeled stearic acid showed a fluidity break around 11 degrees C, which may be due to a gel-liquid phase transition. Fluidity changes are abolished by chymotrypsin treatment. It is suggested that a lateral phase separation is responsible for the permeability of open ghosts to FD. Accordingly, disruption of phase separation apparently produces membrane reconstitution. In this respect peripheral proteins and particularly the spectrin-actin network, may play a major role in membrane resealing.

Cell Membrane Permeability↗

PubMed2025

BAV-LLPS: a database of bacterial, archaea, and virus liquid-liquid phase separation proteins.

MOTIVATION: Liquid-liquid phase separation (LLPS) is a key process underlying the formation of biomolecular condensates, such as membrane-less organelles, that compartmentalize biochemical processes inside the cells. While LLPS has been extensively studied in eukaryotes, its role in bacteria, archaea, and viruses remains far less characterized. Recent studies in bacteria have revealed that LLPS-driven condensates play critical roles in RNA processing, stress response, and pathogenicity. Similarly, many viruses exploit LLPS to facilitate crucial steps in their infection cycles, including viral entry, genome replication, assembly, and host immune evasion. RESULTS: In this work, we introduce a hand-curated database of LLPS proteins from bacteria, archaea, and viruses (BAV-LLPS Database). This resource, extended through sequence similarity searches, comprises over 5000 proteins and integrates diverse data including biological annotations, sequence features, predicted disordered regions, LLPS per site probability, and AlphaFold2-based structural models. Additionally, our web server enables users to explore both the curated and homologous derived datasets, providing a platform to uncover evolutionary relationships and intrinsic and differential properties of LLPS proteins across various taxonomic groups. This work seeks to deepen our understanding of LLPS mechanisms beyond eukaryotic organisms, emphasizing their significance across diverse life forms. It also aims to foster the development of specialized predictive tools that will facilitate the exploration and characterization of LLPS processes in a wide array of living organisms, thereby contributing to advancements in both fundamental biological research and applied biomedical sciences. AVAILABILITY AND IMPLEMENTATION: BAV-LLPS DB is freely accessible at https://bav-llps-db.bioinformatica.org/. The data can be retrieved from the website. The source code of the database can be downloaded from https://bav-llps-db.bioinformatica.org/download.

Databases, Protein↗

PubMed2004

Solubility and phase separation of benzocaine and salicylic acid in 1,4-dioxane-water mixtures at several temperatures.

The solubilities of benzocaine and salicylic acid were determined in water-dioxane mixtures at several temperatures (5-40 degrees C for benzocaine and 10-40 degrees C for salicylic acid). The solubility curves as a function of dioxane ratio showed a maximum at 90% dioxane at all temperatures. Above 25 degrees C, the homogeneous mixture splits into two liquid immiscible phases. For benzocaine, the initial dioxane concentration range at which phase separation takes place increased with temperature (50-60% at 25 degrees C, 50-70% at 30-35 degrees C and 40-70% at 40 degrees C). For salicylic acid, the dioxane concentration required for phase separation (40-60% dioxane) did not change with temperature. Phase separation was not related to solid phase changes (polymorphism or solvates). The phase composition and drug extraction at the drug-rich phase were determined. The apparent enthalpies of the solution process were a nonlinear function of the dioxane ratio for both drugs. The apparent enthalpy of solution of benzocaine was larger than that expected at the upper limit of phase separation (70% dioxane), whereas for salicylic acid the apparent enthalpy of solution decreased abruptly at the region corresponding to phase separation (40-70% dioxane). Both drugs showed a nonlinear pattern of enthalpy-entropy compensation.

Benzocaine↗

PubMed1993

Phase separation of nonionic detergents by salt addition and its application to membrane proteins.

By adding salts (sodium chloride, ammonium sulfate), it is possible to induce phase separation in membrane-protein solubilisates containing Triton X-100 or Nonidet P-40 at temperatures between 0 and 20 degrees C. Other nonionic detergents of the Brij, Lubrol, and Tween series can also be used for this procedure. The salt concentration required for induction of phase separation is dependent on the hydrophobicity of the detergent used. For detergents of the Triton series it seems that detergents with lower hydrophilic lipophilic balance numbers need lower salt concentrations to separate the phases than those with larger hydrophilic parts. Ammonium sulfate precipitation as an initial purification step for membrane proteins should be avoided in the presence of the nonionic detergents tested. Instead of this procedure, phase separation induced by sodium chloride or ammonium sulfate can be recommended, as was proved for membrane-bound proteases of Pseudomonas aeruginosa and Bacillus cereus and for bacteriorhodopsin.

Ammonium Sulfate↗

PubMed2000

Phase separation in the mixture of schizophyllan and poly(ethylene oxide) in aqueous solution driven by a specific interaction between the glucose side chain and poly(ethylene oxide).

We found that the mixture of schizophyllan and poly(ethylene oxide) in aqueous solution underwent phase separation at around 3-4 degrees C, and this temperature was independent of both polymer concentration and the difference in poly(ethylene oxide) molecular weight (Mw 6000 and 70,000). The phase-separation took place at the same temperature at which the optical rotation changed. Since the optical rotation change is ascribed to the difference in the nature of hydrogen bonding between the schizophyllan side chain and water, the phase separation is also considered to be due to an interaction between poly(ethylene oxide) and schizophyllan. The phase-separation temperature increased on changing H2O to D2O in accordance with a change in the optical rotation, confirming the specific interaction essential for the phase separation.

Chemical Phenomena↗

PubMed2005

Extraction of heavy metal ions from waste colored glass through phase separation.

A new method utilizing phase separation phenomena for the extraction of heavy metal ions used as colorants in colored glass is proposed. Colored soda-lime-silica glass containing Co or Cr as a colorant was remelted with B2O3 to yield soda-lime-borosilicate glass. The soda-lime-borosilicate glass thus obtained was leached in 1M nitric acid at 90 degrees C to dissolve the borate phase. All cations (Na, Ca, Cr and Co) concentrated in the borate phase are successfully leached out with the dissolution of the borate phase, when the amount of the B2O3 added to the glass and heat treatment conditions are properly chosen. Porous silicate glass powders with high SiO2 purity are obtained as the result of the leaching. Porous glass can also be formed as bulk material by controlling the composition of additives during the remelting.

Chemistry Techniques, Analytical↗

PubMed1990

Phase separation in phospholipid bilayers induced by biologically active polycations.

The interaction of various polyionenes with phospholipid bilayer membranes was explored by means of differential scanning calorimetry (DSC) with special reference to their antimicrobial activities. A strong interaction was observed between the polyionenes and acidic phospholipids, whereas zwitterionic phospholipid bilayers were not affected significantly by the polycations. Addition of the polyionenes was found to result in phase separation in mixed bilayer membranes composed of acidic and zwitterionic phospholipids. The ability to induce phase separation strongly depended on the structure of the polyionenes. Polyionenes with rigid spacers were found to be most effective to induce phase separation and to be most active in antimicrobial activity. Polyionenes with rigid and flexible spacers in the alternate fashion exhibited less activities which were similar to those of all flexible spacers. Furthermore, their mode of interaction with bilayers was again similar to those of all flexible spacers. Our results indicate that the rigid spacers are favorable for strong interaction with membranes which are assumed to be the target sites of the polycationic biocides, leading to the higher activity. Other factors affecting both the antimicrobial activity and the mode of interaction with membranes were molecular weight and hydrophobicity. With increasing molecular weight, both the activity and ability to induce phase separation increased. Introduction of hydrophilic groups into the spacers resulted in loss of activity and ability to induce phase separation. The antimicrobial activity and the mode of interaction with membranes were correlated and interpreted on the basis of conformational concept of the polyionenes in solution.

Bacteria↗

PubMed2006

Production of hydrogen and methane from organic solid wastes by phase-separation of anaerobic process.

Phase-separated two-stage anaerobic process was examined and evaluated using artificial organic solid waste in laboratory scale. Acidogenic process, which was combined with subsequent methanogenic process using packed-bed reactor, was operated emphasizing on either hydrogen production, or solublizing efficiency of solid materials. In either effluent from hydrogenogenic, or solublizing operation, maximum allowable OLR achieved at methanogenesis was higher than the single methanogenic process. Hydrogenogenic operation was more suitable to combine methanogenic process than solublizing operation, since retention time of hydrogenogenic operation was much shorter than the solublizing operation, obtaining almost the same levels of overall removal efficiency in both COD and VSS. The combination of hydrogenogenic operation in acidogenic process and methanogenic process produced approximately 442mmoll-reactor(1)days(-1) of methane and 199mmoll-reactor(1)days(-1) of hydrogen at 25h of total retention time indicating 82% of COD removal with 96% of VSS decomposition.

Anaerobiosis↗

PubMed2002

Phase separation in two-dimensional binary fluid mixtures: spontaneous pinning effect.

The dynamics of phase separation, under asymmetric quench, is studied for binary mixtures by molecular dynamics simulations. We consider two kinds of systems, i.e., the small molecular liquid mixture and the flexible chain blend. The domain growth is found to be dependent crucially upon the relative composition of the mixture. For a near symmetric quench with volume fraction not far away from the critical value, we find that the domain growth is obviously slowed down (the spontaneous pinning effect) when the phase-separating structure undergoes the percolation-to-cluster transition. However, as the volume fraction of the minority phase is decreased, a pinning-depinning transition of the domain growth is observed for certain asymmetric quenches, due to the correlated motion of droplets. For sufficiently asymmetric quenches where the volume fraction of the minority phase is low, the domain growth is suppressed at late stages for the flexible polymer blend, in contrast to the fast growth for the small molecular system. The results are in good agreement with previous studies, and confirm the possibility of the intermittent or final pinning of phase separation for isolated droplets structure.

Journal Article↗