arXiv subjects

Jasna Brujic

Publications and source records attributed to Jasna Brujic.

At least 19 recordsLinked to original sources

arXiv2025

Worm-like emulsion droplets

Forming an interface between immiscible fluids incurs a free-energy cost that usually favors minimizing the interfacial area. An emulsion droplet of fixed volume therefore tends to form a sphere, and pairs of droplets tend to coalesce. Surfactant molecules adsorbed to the droplets' surfaces stabilize emulsions by providing a kinetic barrier to coalescence. Here, we show that the bound surfactants' osmotic pressure also competes with the droplet's intrinsic surface tension and can reverse the sign of the overall surface free energy. The onset of negative surface tension favors maximizing surface area and therefore favors elongation into a worm-like morphology. Analyzing this system in the Gibbs grand canonical ensemble reveals a phase transition between spherical and worm-like emulsions that is governed by the chemical potential of surfactant molecules in solution. Predictions based on this model agree with the observed behavior of an experimental model system composed of lipid-stabilized silicone oil droplets in an aqueous surfactant solution.

cond-mat.soft↗

arXiv2024

A thermodynamic approach to adhesion and deformation of DNA-bound droplets

Here we derive and experimentally test a free energy functional that captures the adhesion of DNA-coated emulsion droplets. Generalizing previous approaches, the theory combines important energetic and entropic effects of microscopic DNA mechanics and droplet elasticity. It simultaneously predicts adhesion size, morphology, and binder concentration as a function of experimental control parameters. Notably, droplets transition from undeformed binding to flat droplet interfaces at a characteristic DNA coverage. These equilibrium predictions agree quantitatively with experiments on droplet-substrate and droplet-droplet binding, revealing a weak effective binding strength of $3.7\pm0.3\text{k}_{\text{B}}\text{T}$ owing to entropic costs. Our results open the path to rich design strategies for making colloidal architectures.

cond-mat.soft↗

arXiv2024

Evolving motility of active droplets is captured by a self-repelling random walk model

Swimming droplets are a class of active particles whose motility changes as a function of time due to shrinkage and self-avoidance of their trail. Here we combine experiments and theory to show that our non-Markovian droplet (NMD) model, akin to a true self-avoiding walk [1], quantitatively captures droplet motion. We thus estimate the effective temperature arising from hydrodynamic flows and the coupling strength of the propulsion force as a function of fuel concentration. This framework explains a broad range of phenomena, including memory effects, solute-mediated interactions, droplet hovering above the surface, and enhanced collective diffusion.

cond-mat.soft↗

arXiv2024

Measuring Colloidomer Hydrodynamics with Holographic Video Microscopy

In-line holographic video microscopy records a wealth of information about the microscopic structure and dynamics of colloidal materials. Powerful analytical techniques are available to retrieve that information when the colloidal particles are well-separated. Large assemblies of close-packed particles create holograms that are substantially more challenging to interpret. We demonstrate that Rayleigh-Sommerfeld back-propagation is useful for analyzing holograms of colloidomer chains, close-packed linear assemblies of micrometer-scale emulsion droplets. Colloidomers are fully flexible chains and undergo three-dimensional configurational changes under the combined influence of random thermal forces and hydrodynamic forces. We demonstrate the ability of holographic reconstruction to track these changes as colloidomers sediment through water in a horizontal slit pore. Comparing holographically measured configurational trajectories with predictions of hydrodynamic models both validates the analytical technique for this valuable class of self-organizing materials and also provides insights into the influence of geometric confinement on colloidomer hydrodynamics.

cond-mat.soft↗

arXiv2023

A Coarse-Grained Simulation Model for Self-Assembly of Liquid Droplets Featuring Explicit Mobile Binders

Colloidal particles with mobile binding molecules constitute a powerful platform for probing the physics of self-assembly. Binding molecules are free to diffuse and rearrange on the surface, giving rise to spontaneous control over the number of droplet-droplet bonds, i.e., valence, as a function of the concentration of binders. This type of valence control has been realized experimentally by tuning the interaction strength between DNA-coated emulsion droplets. Optimizing for valence two yields droplet polymer chains, termed `colloidomers', which have recently been used to probe the physics of folding. To understand the underlying self-assembly mechanisms, here we present a coarse-grained molecular dynamics (CGMD) model to study the self-assembly of this class of systems using explicit representations of mobile binding sites. We explore how valence of assembled structures can be tuned through kinetic control in the strong binding limit. More specifically, we optimize experimental control parameters to obtain the highest yield of long linear colloidomer chains. Subsequently tuning the dynamics of binding and unbinding via a temperature-dependent model allows us to observe the heptamer chain collapse into all possible rigid structures, in good agreement with recent folding experiments. Our CGMD platform and dynamic bonding model (implemented as an open-source custom plugin to HOOMD-Blue) reveal the molecular features governing the binding patch size and valence control, and opens the study of pathways in colloidomer folding. This model can therefore guide programmable design in experiments.

cond-mat.soft↗

arXiv2022

Self-assembly Through Programmable Folding

At the cutting edge of materials science, matter is designed to self-organize into structures that perform a wide range of functions. The past two decades have witnessed major innovations in the versatility of building blocks, ranging from DNA on the nanoscale to handshaking materials on the macroscale. Like a jigsaw puzzle, one can reliably self-assemble arbitrary structures if all the pieces are distinct, but systems with fewer flavors of building blocks have so far been limited to the assembly of exotic crystals. Inspired by Nature's strategy of folding biopolymers into specific RNA and protein structures, here we introduce a minimal model system of colloidal polymers with programmable DNA interactions that guide their downhill folding into two-dimensional geometries. Combining experiments, simulations, and theory, we show that designing the order in which interactions are switched on directs folding into unique geometries called foldamers. The simplest alternating sequences ($ABAB$...) of up to 13 droplets yield eleven foldamers, while designing the sequence and adding an extra flavor uniquely encodes more than half of the 619 possible geometries. These foldamers can further interact to make complex supracolloidal architectures, seeding a next generation of bio-inspired materials. Our results are independent of the dynamics and therefore apply to polymeric materials with hierarchical interactions on all length scales, from organic molecules all the way to Rubik's snakes.

cond-mat.soft↗

arXiv2021

DNA self-organization controls valence in programmable colloid design

Just like atoms combine into molecules, colloids can self-organize into predetermined structures according to a set of design principles. Controlling valence -- the number of inter-particle bonds -- is a prerequisite for the assembly of complex architectures. The assembly can be directed via solid `patchy' particles with prescribed geometries to make, for example, a colloidal diamond. We demonstrate here that the nanoscale ordering of individual molecular linkers can combine to program the structure of microscopic assemblies. Specifically, we experimentally show that covering initially isotropic microdroplets with $N$ mobile DNA linkers results in spontaneous and reversible self-organization of the DNA into $Z(N)$ binding patches, selecting a predictable valence. We understand this valence thermodynamically, deriving a free energy functional for droplet-droplet adhesion that accurately predicts the equilibrium size of and molecular organization within patches, as well as the observed valence transitions with $N$. Thus, microscopic self-organization can be programmed by choosing the molecular properties and concentration of binders. These results are widely applicable to the assembly of any particle with mobile linkers, such as functionalized liposomes or protein interactions in cell-cell adhesion.

cond-mat.soft↗

arXiv2018

Colloidomers: freely-jointed polymers made of droplets

An important goal of self-assembly is to achieve a preprogrammed structure with high fidelity. Here, we control the valence of DNA-functionalized emulsions to make linear and branched model polymers, or `colloidomers'. The distribution of cluster sizes is consistent with a polymerization process in which the droplets achieve their prescribed valence. Conformational dynamics reveals that the chains are freely-jointed, such that the end-to-end length scales with the number of bonds $N$ as $N^ν$, where $ν\approx3/4$, in agreement with the Flory theory in 2D. The chain diffusion coefficient $D$ approximately scales as $D\propto N^{-ν}$, as predicted by the Zimm model. Unlike molecular polymers, colloidomers can be repeatedly assembled and disassembled under temperature cycling, allowing for reconfigurable, responsive matter.

cond-mat.soft↗

arXiv2017

Phoretic Interactions Between Active Droplets

Concentration gradients play a critical role in embryogenesis, bacterial locomotion, as well as the motility of active particles. Particles develop concentration profiles around them by dissolution, adsorption, or the reactivity of surface species. These gradients change the surface energy of the particles, driving both their self-propulsion and governing their interactions. Here we uncover a regime in which solute-gradients mediate interactions between slowly dissolving droplets without causing autophoresis. This decoupling allows us to directly measure the steady-state, repulsive force, which scales with interparticle distance as $F\sim {1/r^{2}}$. Our results show that the process is diffusion rather than reaction rate limited, and the theoretical model captures the dependence of the interactions on droplet size and solute concentration, using a single fit parameter, $l=16\pm 3$~nm, which corresponds to the lengthscale of a swollen micelle. Our results shed light on the out-of-equilibrium behavior of particles with surface reactivity.

cond-mat.soft↗

arXiv2016

Evidence for marginal stability in emulsions

We report the first measurements of the effect of pressure on vibrational modes in emulsions, which serve as a model for soft frictionless spheres at zero temperature. As a function of the applied pressure, we find that the density of states D(omega) exhibits a low-frequency cutoff omega*, which scales linearly with the number of extra contacts per particle dz. Moreover, for omega<omega*, D(omega)~ omega^2/omega*^2; a quadratic behavior whose prefactor is larger than what is expected from Debye theory. This surprising result agrees with recent theoretical findings. Finally, the degree of localization of the softest low frequency modes increases with compression, as shown by the participation ratio as well as their spatial configurations. Overall, our observations show that emulsions are marginally stable and display non-plane-wave modes up to vanishing frequencies.

cond-mat.soft↗

arXiv2013

Specificity, flexibility and valence of DNA bonds guide emulsion architecture

The specificity and thermal reversibility of DNA interactions have enabled the self-assembly of crystal structures, self-replicating materials and colloidal molecules. Grafting DNA onto liquid interfaces of emulsions leads to exciting new architectural possibilities due to the mobility of the DNA ligands and the patches they form between bound droplets. Here we show that the size and number of these adhesion patches (valency) can be controlled. Valence 2 leads to flexible polymers of emulsion droplets, while valence above 4 leads to rigid droplet networks. A simple thermodynamic model quantitatively describes the increase in the patch size with droplet radii, DNA concentration and the stiffness of the tether to the sticky-end. The patches are formed between droplets with complementary DNA strands or alternatively with complementary colloidal nanoparticles to mediate DNA binding between droplets. This emulsion system opens the route to directed self-assembly of more complex structures through distinct DNA bonds with varying strengths and controlled valence and flexibility.

cond-mat.soft↗

arXiv2012

Domain-domain interactions in Filamin A (16-23) impose a hierarchy of unfolding forces

The quaternary structure of Filamin A (FLNa) 16-23 was recently shown to exhibit multiple domain-domain interactions that lead to a propeller-like construction. Here we present single molecule force spectroscopy experiments to show a wide variety of mechanical responses of this molecule and compare it with its linear counterpart FLNa 1-8. The compact structure of FLNa 16-23 leads to a broad distribution of rupture forces and end-to-end lengths in the force-extension mode and multiple unraveling timescales in the force-clamp mode. Moreover, a subset of force-extension trajectories reveals a mechanical hierarchy in which the rupture of domain-domain interactions at high forces (200 pN) liberates the unfolding of individual domains at low forces (100 pN). This mechanism may also explain the order of magnitude difference in the rates of the biexponential fits to the distribution of unfolding dwell times under force-clamp. Overall, FLNa 16-23 under a force of 100 pN is more compliant than the linear FLNa 1-8. Since a physiological role of FLNa is to crosslink actin filaments, this range of responses allows it to accommodate a broad spectrum of forces exerted by the cell and its environment.

physics.bio-ph↗

arXiv2012

A microscopic approach to the nonlinear elasticity of compressed emulsions

Using confocal microscopy, we measure the packing geometry and interdroplet forces as a function of the osmotic pressure in a 3D emulsion system. We find that the nonlinear elastic response of the pressure with density is not a result of the anharmonicity in the interaction potential, but of the corrections to the scaling laws of the microstructure away from the critical point. The bulk modulus depends on the excess contacts created under compression, which leads to the correction exponent α=1.5. Microscopically, the nonlinearities manifest themselves as a narrowing of the distribution of the pressure per particle as a function of the global pressure.

cond-mat.soft↗

arXiv2012

Force-clamp analysis techniques reveal stretched exponential unfolding kinetics in ubiquitin

Force-clamp spectroscopy reveals the unfolding and disulfide bond rupture times of single protein molecules as a function of the stretching force, point mutations and solvent conditions. The statistics of these times reveal whether the protein domains are independent of one another, the mechanical hierarchy in the polyprotein chain, and the functional form of the probability distribution from which they originate. It is therefore important to use robust statistical tests to decipher the correct theoretical model underlying the process. Here we develop multiple techniques to compare the well-established experimental data set on ubiquitin with existing theoretical models as a case study. We show that robustness against filtering, agreement with a maximum likelihood function that takes into account experimental artifacts, the Kuiper statistic test and alignment with synthetic data all identify the Weibull or stretched exponential distribution as the best fitting model. Our results are inconsistent with recently proposed models of Gaussian disorder in the energy landscape or noise in the applied force as explanations for the observed non-exponential kinetics. Since the physical model in the fit affects the characteristic unfolding time, these results have important implications on our understanding of the biological function of proteins.

physics.bio-ph↗

arXiv2012

Force-clamp experiments reveal the free energy profile and diffusion coefficient of the collapse of proteins

We present force-clamp data on the collapse of ubiquitin polyproteins in response to a quench in the force. These nonequilibrium trajectories are analyzed using a general method based on a diffusive assumption of the end-to-end length to reconstruct a downhill free energy profile at 5pN and an energy plateau at 10pN with a slow diffusion coefficient on the order of~100nm^2/s. The shape of the free energy and its linear scaling with the protein length give validity to a physical model for the collapse. However, the length independent diffusion coefficient suggests that internal rather than viscous friction dominates and thermal noise is needed to capture the variability in the measured times to collapse.

physics.bio-ph↗

arXiv2012

A granocentric model captures the statistical properties of monodisperse random packings

We present a generalization of the granocentric model proposed in [Clusel et al., Nature, 2009, 460, 611615] that is capable of describing the local fluctuations inside not only polydisperse but also monodisperse packings of spheres. This minimal model does not take into account the relative particle positions, yet it captures positional disorder through local stochastic processes sampled by efficient Monte Carlo methods. The disorder is characterized by the distributions of local parameters, such as the number of neighbors and contacts, filled solid angle around a central particle and the cell volumes. The model predictions are in good agreement with our experimental data on monodisperse random close packings of PMMA particles. Moreover, the model can be used to predict the distributions of local fluctuations in any packing, as long as the average number of neighbors, contacts and the packing fraction are known. These distributions give a microscopic foundation to the statistical mechanics framework for jammed matter and allow us to calculate thermodynamic quantities such as the compactivity in the phase space of possible jammed configurations.

physics.bio-ph↗

arXiv2012

Biomimetic emulsions reveal the effect of homeostatic pressure on cell-cell adhesion

Cell-cell contacts in tissues are continuously subject to mechanical forces due to homeostatic pressure and active cytoskeleton dynamics. While much is known about the molecular pathways of adhesion, the role of mechanics is less well understood. To isolate the role of pressure we present a dense packing of functionalized emulsion droplets in which surface interactions are tuned to mimic those of real cells. By visualizing the microstructure in 3D we find that a threshold compression force is necessary to overcome electrostatic repulsion and surface elasticity and establish protein-mediated adhesion. Varying the droplet interaction potential maps out a phase diagram for adhesion as a function of force and salt concentration. Remarkably, fitting the data with our theoretical model predicts binder concentrations in the adhesion areas that are similar to those found in real cells. Moreover, we quantify the adhesion size dependence on the applied force and thus reveal adhesion strengthening with increasing homeostatic pressure even in the absence of active cellular processes. This biomimetic approach reveals the physical origin of pressure-sensitive adhesion and its strength across cell-cell junctions.

physics.bio-ph↗

arXiv2011

Jamming phase diagram of athermal emulsions with short-range attraction

Using confocal microscopy we investigate the effect of attraction on the packing of polydisperse emulsions under gravity. We find that the distributions of neighbors, coordination number, and local packing fraction as a function of attraction are captured by recently proposed geometrical modeling and statistical mechanics approaches to granular matter. This extends the range of applicability of these tools to polydisperse, attractive jammed packings. Furthermore, the dependence of packing density and average coordination number on the strength of attraction provides the first experimental test of a phase diagram of athermal jammed particles. The success of these theoretical frameworks in describing a new class of systems gives support to the much-debated statistical physics of jammed matter.

cond-mat.soft↗