Protein dielectrophoresis: Key dielectric parameters and evolving theory

Globular proteins exhibit dielectrophoresis (DEP) responses in experiments where the applied field gradient factor ∇E² appears far too small, according to standard DEP theory, to overcome dispersive forces associated with the thermal energy kT of disorder. To address this a DEP force equation is proposed that replaces a previous empirical relationship between the macroscopic and microscopic forms of the Clausius–Mossotti factor. This equation relates the DEP response of a protein directly to the dielectric increment δε⁺ and decrement δε⁻ that characterize its β-dispersion at radio frequencies, and also indirectly to its intrinsic dipole moment by way of providing a measure of the protein's effective volume. A parameter Γ_pw, taken as a measure of cross-correlated dipole interactions between the protein and its water molecules of hydration, is included in this equation. For 9 of the 12 proteins, for which an evaluation can presently be made, Γ_pw has a value of ≈4600 ± 120. These conclusions follow an analysis of the failure of macroscopic dielectric mixture (effective medium) theories to predict the dielectric properties of solvated proteins. The implication of a polarizability greatly exceeding the intrinsic value for a protein might reflect the formation of relaxor ferroelectric nanodomains in its hydration shell.     

Single-Round DNA Aptamer Selection by Combined Use of Capillary Electrophoresis and Next Generation Sequencing: An Aptaomics Approach for Identifying Unique Functional Protein-Binding DNA Aptamers

In DNA aptamer selection, existing methods do not discriminate aptamer sequences based on their binding affinity and function and the reproducibility of the selection is often poor, even for the selection of well-known aptamers like those that bind the commonly used model protein thrombin. In the present study, a novel single-round selection method (SR-CE selection) was developed by combining capillary electrophoresis (CE) with next generation sequencing. Using SR-CE selection, a successful semi-quantitative and semi-comprehensive aptamer selection for thrombin was demonstrated with high reproducibility for the first time. Selection rules based on dissociation equilibria and kinetics were devised to obtain families of analogous sequences. Selected sequences of the same family were shown to bind thrombin with high affinity. Furthermore, data acquired from SR-CE selection was mined by creating sub-libraries that were categorized by the functionality of the aptamers (e. g., pre-organized aptamers versus structure-induced aptamers). Using this approach, a novel fluorescent molecular recognition sensor for thrombin with nanomolar detection limits was discovered. Thus, in this proof-of-concept report, we have demonstrated the potential of a “DNA Aptaomics” approach to systematically design functional aptamers as well as to obtain high affinity aptamers.     

Numerical simulation and convergence analysis for a system of nonlinear singularly perturbed differential equations arising in population dynamics

In this article, we consider a system of nonlinear singularly perturbed differential equations with two different parameters. To solve this system, we develop a weighted monotone hybrid scheme on a nonuniform mesh. The proposed scheme is a combination of the midpoint scheme and the upwind scheme involving the weight parameters. The weight parameters enable the method to switch automatically from the midpoint scheme to the upwind scheme as the nodal points start moving from the inner region to the outer region. The nonuniform mesh in particular the adaptive grid is constructed using the idea of equidistributing a positive monitor function involving the solution gradient. The method is shown to be second order convergent with respect to the small parameters. Numerical experiments are presented to show the robustness of the proposed scheme and indicate that the estimate is optimal.     

The influence of radiation-induced vacancy on the formation of thin-film of compound layer during a reactive diffusion process

A theoretical approach is developed that describes the formation of a thin-film of AB-compound layer under the influence of radiation-induced vacancy. The AB-compound layer is formed as a result of a chemical reaction between the atomic species of A and B immiscible layers. The two layers are irradiated with a beam of energetic particles and this process leads to several vacant lattice sites creation in both layers due to the displacement of lattice atoms by irradiating particles. A- and B-atoms diffuse via these lattice sites by means of a vacancy mechanism in considerable amount to reaction interfaces A/AB and AB/B. The reaction interfaces increase in thickness as a result of chemical transformation between the diffusing species and surface atoms (near both layers). The compound layer formation occurs in two stages. The first stage begins as an interfacial reaction controlled process, and the second as a diffusion controlled process. The critical thickness and time are determined at a transition point between the two stages. The influence of radiation-induced vacancy on layer thickness, speed of growth, and reaction rate is investigated under irradiation within the framework of the model presented here. The result obtained shows that the layer thickness, speed of growth, and reaction rate increase strongly as the defect generation rate rises in the irradiated layers. It also shows the feasibility of producing a compound layer (especially in near-noble metal silicide considered in this study) at a temperature below their normal formation temperature under the influence of radiation.     

Improving breakdown strength and energy storage efficiency of poly(vinylidene fluoride-co-chlorotrifluoroethylene) and polyurea blend films by double layer structure design

All-organic composites are widely used in energy storage application due to the high breakdown strength performance, but the improvement of energy storage was limited by the relatively low dielectric constant. Therefore, to satisfy the high demands of dielectric materials, energy storage properties of polymer composites should be further enhanced. In this article, poly(vinylidene fluoride-co-chlorotrifluoroethylene) (P(VDF-CTFE)) and polyurea (PUA), which are known as high dielectric ferroelectric material and linearly high energy storage efficiency material respectively, are composited through double layer (DL) casting method for the first time. The properties of DL structured composite film is contrasted with solution blending structure especially in energy storage efficiency, and the results demonstrate that DL structure design can make great use of advantages of two materials and also can avoid the influence of phase separation between P(VDF-CTFE) and PUA efficiently. Moreover, high breakdown strength (6180 kV/cm) and high energy storage efficiency (77%) of DL composites can be realized simultaneously by incorporating PUA as an insulating layer, and the mechanism is discussed in detail. This work provides an effective route to improve the energy storage properties of polymer dielectric materials and shows great application potential.