A model for effective interactions in binary colloidal systems of soft particles

While the density functional theory with integral equations techniques are very efficient tools in numerical analysis of complex fluids, an analytical insight into the phenomenon of effective interactions is still limited. In this paper we propose a theory of binary systems which results in a relatively simple analytical expression combining arbitrary microscopic potentials into the effective interaction. The derivation is based on translating many particle Hamiltonian including particle-depletant and depletant-depletant interactions into the occupation field language. Such transformation turns the partition function into multiple Gaussian integrals, regardless of what microscopic potentials are chosen. In result, we calculate the effective Hamiltonian and discuss when our formula is a dominant contribution to the effective interactions. Our theory allows us to analytically reproduce several important characteristics of systems under scrutiny. In particular, we analyze the effective attraction as a demixing factor in the binary systems of Gaussian particles, effective interactions in the binary mixtures of Yukawa particles and the system of particles consisting of both repulsive core and attractive/repulsive Yukawa interaction tail, for which we reproduce the 'attraction-through-repulsion' and 'repulsion-through-attraction' effects.Comment: Second version of article, after major revision due to the comments from reviewers. Includes overhauled introductory section, new, more compact derivation and more elaborate examples than previousl

Thermodynamically consistent Langevin dynamics with spatially correlated noise predicts frictionless regime and transient attraction effect

While the origin of temporal correlations in Langevin dynamics have been thoroughly researched, the understanding of Spatially Correlated Noise (SCN) is rather incomplete. In particular, very little is known about the relation between friction and SCN. In this article, we derive the formal formula for the spatial correlation function in the particle-bath interactions. This expression shows that SCN is the inherent component of binary mixtures, originating from the effective (entropic) interactions. Further, employing this spatial correlation function, we postulate the thermodynamically consistent Langevin equation driven by SCN and the adequate Fluctuation-Dissipation Relation. The thermodynamical consistency is achieved by introducing the spatially variant friction coefficient, which can be also derived analytically. This coefficient exhibits a number of intriguing properties, e.g. the singular behavior for certain interaction types. Eventually, we apply this new theory to the system of two charged particles in the presence of counter-ions. Such particles interact via the screened-charge Yukawa potential and the inclusion of SCN leads to the emergence of the anomalous frictionless regime. In this regime the particles can experience active propulsion leading to the transient attraction effect. This effect suggests a non-equilibrium mechanism facilitating the molecular binding of the like-charged particles.Comment: expanded and revised version resubmitted to Phys. Rev.

Non-Gaussian polymers described by alpha-stable chain statistics: model, applications and effective interactions in binary mixtures

The Gaussian chain model is the classical description of a polymeric chain, which provides the analytical results regarding end-to-end distance, the distribution of segments around the mass center of a chain, coarse grained interactions between two chains and effective interactions in binary mixtures. This hierarchy of results can be calculated thanks to the alpha stability of the Gaussian distribution. In this paper we show that it is possible to generalize the model of Gaussian chain to the entire class of alpha stable distributions, obtaining the analogous hierarchy of results expressed by the analytical closed-form formulas in the Fourier space. This allows us to establish the alpha-stable chain model. We begin with reviewing the applications of Levy flights in the context of polymer sciences, which include: chains with heavy-tailed distributions of persistence length, polymers adsorbed to the surface and the chains driven by a noise with power-law spatial correlations. Further, we derive the distribution of segments around the mass center of the alpha-stable chain and the coarse-grained interaction potential between two chains is constructed. These results are employed to discuss the model of binary mixture consisting of the alpha-stable chains. On what follows, we establish the spinodal decomposition condition generalized to the particles described by the shape of alpha-stable distributions. This condition is finally applied to analyze the on-surface phase separation of adsorbed polymers, which are known to be described with heavy tailed statistics.Comment: Complete version prepared for submission to Phys. Rev.

Beam Performance of Tracking Detectors with Industrially Produced GEM Foils

Three Gas-Electron-Multiplier tracking detectors with an active area of 10 cm x 10 cm and a two-dimensional, laser-etched orthogonal strip readout have been tested extensively in particle beams at the Meson Test Beam Facility at Fermilab. These detectors used GEM foils produced by Tech-Etch, Inc. They showed an efficiency in excess of 95% and spatial resolution better than 70 um. The influence of the angle of incidence of particles on efficiency and spatial resolution was studied in detail.Comment: 8 pages, 9 figures, accepted by Nuclear Instruments and Methods in Physics Research

Self-Assembly of \u3cem\u3eEscherichia coli\u3c/em\u3e MutL and Its Complexes with DNA

The Escherichia coli MutL protein regulates the activity of several enzymes, including MutS, MutH, and UvrD, during methyl-directed mismatch repair of DNA. We have investigated the self-association properties of MutL and its binding to DNA using analytical sedimentation velocity and equilibrium. Self-association of MutL is quite sensitive to solution conditions. At 25 °C in Tris at pH 8.3, MutL assembles into a heterogeneous mixture of large multimers. In the presence of potassium phosphate at pH 7.4, MutL forms primarily stable dimers, with the higher-order assembly states suppressed. The weight-average sedimentation coefficient of the MutL dimer in this buffer (s̅20,w) is equal to 5.20 ± 0.08 S, suggesting a highly asymmetric dimer (f/fo = 1.58 ± 0.02). Upon binding the nonhydrolyzable ATP analogue, AMPPNP/Mg2+, the MutL dimer becomes more compact (s̅20,w = 5.71 ± 0.08 S; f/fo = 1.45 ± 0.02), probably reflecting reorganization of the N-terminal ATPase domains. A MutL dimer binds to an 18 bp duplex with a 3′-(dT20) single-stranded flanking region, with apparent affinity in the micromolar range. AMPPNP binding to MutL increases its affinity for DNA by a factor of ∼10. These results indicate that the presence of phosphate minimizes further MutL oligomerization beyond a dimer and that differences in solution conditions likely explain apparent discrepancies in previous studies of MutL assembly

Towards ultra-high resolution 3D reconstruction of a whole rat brain from 3D-PLI data

3D reconstruction of the fiber connectivity of the rat brain at microscopic scale enables gaining detailed insight about the complex structural organization of the brain. We introduce a new method for registration and 3D reconstruction of high- and ultra-high resolution (64 $\mu$m and 1.3 $\mu$m pixel size) histological images of a Wistar rat brain acquired by 3D polarized light imaging (3D-PLI). Our method exploits multi-scale and multi-modal 3D-PLI data up to cellular resolution. We propose a new feature transform-based similarity measure and a weighted regularization scheme for accurate and robust non-rigid registration. To transform the 1.3 $\mu$m ultra-high resolution data to the reference blockface images a feature-based registration method followed by a non-rigid registration is proposed. Our approach has been successfully applied to 278 histological sections of a rat brain and the performance has been quantitatively evaluated using manually placed landmarks by an expert.Comment: 9 pages, Accepted at 2nd International Workshop on Connectomics in NeuroImaging (CNI), MICCAI'201

Sustainable Water Management in the Southwestern United States: Reality or Rhetoric?

Background: While freshwater sustainability is generally defined as the provisioning of water for both people and the environment, in practice it is largely focused only on supplying water to furnish human population growth. Symptomatic of this is the state of Arizona, where rapid growth outside of the metropolitan Phoenix-Tucson corridor relies on the same groundwater that supplies year-round flow in rivers. Using Arizona as a case study, we present the first study in the southwestern United States that evaluates the potential impact of future population growth and water demand on streamflow depletion across multiple watersheds. Methodology/Principal Findings: We modeled population growth and water demand through 2050 and used four scenarios to explore the potential effects of alternative growth and water management strategies on river flows. Under the base population projection, we found that rivers in seven of the 18 study watersheds could be dewatered due to municipal demand. Implementing alternative growth and water management strategies, however, could prevent four of these rivers from being dewatered. Conclusions/Significance: The window of opportunity to implement water management strategies is narrowing. Because impacts from groundwater extraction are cumulative and cannot be immediately reversed, proactive water management strategies should be implemented where groundwater will be used to support new municipal demand. Our approach provides a low-cost method to identify where alternative water and growth management strategies may have the most impact, and demonstrates that such strategies can maintain a continued water supply for both people and the environment

The presence of B7-H4+ macrophages and CD25+CD4+ and FOXP3+ regulatory T cells in the microenvironment of nasal polyps - a preliminary report.

The nasal polyp (NP) seems to represent the end-stage of longstanding inflammation in patients with chronic rhinosinusitis. The aim of our study has been to evaluate the presence of two regulatory cell populations in the microenvironment of NP: CD4+CD25high Foxp3+ (Treg) cells and B7-H4-expressing macrophages. Treg cells are actively able to inhibit T lymphocytes, while the population of B7-H4-expressing macrophages has recently been described as characterized by a regulatory function similar to that of Treg cells. For our study, we evaluated 14 NP tissue samples. The samples were divided into two main groups, eosinophilic (NP) and lymphocytic (NP), according to the predominant type of immune cell infiltration. The presence of Treg cells and B7-H4 positive macrophages in the samples was analyzed by FACS. Treg cells and B7-H4-expressing macrophages were identified in all the examined nasal polyps. The percentages of both Treg cells and of B7H4 positive cells found in the eosinophilic nasal polyps were higher than those found in the lymphocytic nasal polyps. Treg cells and B7H4+ macrophage subpopulations were present in the NP microenvironment and the alterations in their percentages were related to a distinct pattern of immune cell infiltration