Functional Bacterial Amyloids: Understanding Fibrillation,Regulating Biofilm Fibril Formation and Organizing Surface Assemblies

Functional amyloid is produced by many organisms but is particularly well understood in bacteria, where proteins such as CsgA (E. coli) and FapC (Pseudomonas) are assembled as functional bacterial amyloid (FuBA) on the cell surface in a carefully optimized process. Besides a host of helper proteins, FuBA formation is aided by multiple imperfect repeats which stabilize amyloid and streamline the aggregation mechanism to a fast-track assembly dominated by primary nucleation. These repeats, which are found in variable numbers in Pseudomonas, are most likely the structural core of the fibrils, though we still lack experimental data to determine whether the repeats give rise to β-helix structures via stacked β-hairpins (highly likely for CsgA) or more complicated arrangements (possibly the case for FapC). The response of FuBA fibrillation to denaturants suggests that nucleation and elongation involve equal amounts of folding, but protein chaperones preferentially target nucleation for effective inhibition. Smart peptides can be designed based on these imperfect repeats and modified with various flanking sequences to divert aggregation to less stable structures, leading to a reduction in biofilm formation. Small molecules such as EGCG can also divert FuBA to less organized structures, such as partially-folded oligomeric species, with the same detrimental effect on biofilm. Finally, the strong tendency of FuBA to self-assemble can lead to the formation of very regular two-dimensional amyloid films on structured surfaces such as graphite, which strongly implies future use in biosensors or other nanobiomaterials. In summary, the properties of functional amyloid are a much-needed corrective to the unfortunate association of amyloid with neurodegenerative disease and a testimony to nature’s ability to get the best out of a protein fold.     

Multi-State Second-Order Nonlinear Optical Switches Incorporating One to Three Benzazolo-Oxazolidine Units: A Quantum Chemistry Investigation

This contribution employs quantum chemistry methods to describe the variations of the second nonlinear optical responses of molecular switches based on benzazolo-oxazolidine (BOX) units, connected by π-linkers, along their successive opening/closing. Under the fully closed forms, all of them display negligible first hyperpolarizability (β) values. When one BOX is opened, which is sketched as C→O, a push–pull π-conjugated segment is formed, having the potential to enhance β and to set the depolarization ratio (DR) to its one-dimensional-like value (DR = 5). This is observed when only one BOX is open, either for the monoBOX species (C→O) or for the diBOX (CC→CO) and triBOX (CCC→CCO) compounds, i.e., when the remaining BOXs stay closed. The next BOX openings have much different effects. For the diBOXs, the second opening (CO→OO) is associated with a decrease of β, and this decrease is tuned by controlling the conformation of the π-linker, i.e., the centrosymmetry of the whole compound because β vanishes in centrosymmetric compounds. For the triBOXs, the second opening gives rise to a Λ-shape compound, with a negligible change of β, but a decrease of the DR whereas, along the third opening, β remains similar and the DR decreases to the typical value of octupolar systems (DR = 1.5).     

Access to nonisocyanate poly(thio)urethanes: A comparative study

This article describes the synthesis of new cyclic compounds able to react with amines to get nonisocyanate polyurethanes (NIPUs). The contribution of the most studied five‐membered cyclic carbonate was compared to five‐membered cyclic dithiocarbonate analogous and to a six‐membered cyclic carbonate. Difunctional reactive species were obtained by a simple substitution reaction or an efficient thiol–ene coupling reaction. The products, obtained with high yields, were characterized by 1H NMR, 13C NMR, and Fourier tansform infrared spectroscopy analysis. The dicyclocarbonates were then used to synthesize NIPUs by step growth polymerization with several diamines. These materials exhibited glass transition temperatures from 19 to ?29 °C, molar mass from 1800 to 20,400 g mol^?1, and a 20% mass loss temperature (T_d = 20%) between 249 and 296 °C. Such materials are interesting candidates for coating applications. © 2013 Wiley Periodicals, Inc. J. Polym. Sci., Part A: Polym. Chem. 2013, 51, 3284–3296     

Regiospecific synthesis of cepanolide,a cancer chemoprotective micronutrient found in green onions

The naturally occurring γ-hydroxy-β-sulfanylbutenolide cepanolide and a range of new analogues were synthesized in concise, regiospecific manner through the combined use of 2-silyloxyfuran oxyfunctionalization and tandem thio-Michael addition/elimination.     

Simulations of ferrite-dielectric-wire composite negative index materials

We perform extensive finite difference time domain simulations of ferrite based negative index of refraction composites. A wire grid is employed to provide negative permittivity. The ferrite and wire grid interact to provide both negative and positive index of refraction transmission peaks in the vicinity of the ferrite resonance. Notwithstanding the extreme anisotropy in the index of refraction of the composite, negative refraction is seen at the composite air interface allowing the construction of a focusing concave lens with a magnetically tunable focal length.     

Control of oral closure in lingual stop consonant production

Previous work has shown that the lips are moving at a high velocity when the oral closure occurs for bilabial stop consonants, resulting in tissue compression and mechanical interactions between the lips. The present experiment recorded tongue movements in four subjects during the production of velar and alveolar stop consonants to examine kinematic events before, during, and after the stop closure. The results show that, similar to the lips, the tongue is often moving at a high velocity at the onset of closure. The tongue movements were more complex, with both horizontal and vertical components. Movement velocity at closure and release were influenced by both the preceding and the following vowel. During the period of oral closure, the tongue moved through a trajectory of usually less than 1 cm; again, the magnitude of the movement was context dependent. Overall, the tongue moved in forward-backward curved paths. The results are compatible with the idea that the tongue is free to move during the closure as long as an airtight seal is maintained. A new interpretation of the curved movement paths of the tongue in speech is also proposed. This interpretation is based on the principle of cost minimization that has been successfully applied in the study of hand movements in reaching.     

Spatial trapping of short pulses in Ti-indiffused LiNbO(3) waveguides

We show numerically and experimentally that spatial trapping can be induced in quadratic media even if the pump pulse's duration is shorter than the group-delay mismatch between fundamental wave and second-harmonic components. The influence of phase mismatch and pulse power on the trapping effect is discussed. Spatial, temporal, and spectral behaviors that accompany self-trapped propagation are highlighted.     

Parameter Analysis of Multiscale Two-Dimensional Fuzzy and Dispersion Entropy Measures Using Machine Learning Classification

Two-dimensional fuzzy entropy, dispersion entropy, and their multiscale extensions (MFuzzyEn2D and MDispEn2D, respectively) have shown promising results for image classifications. However, these results rely on the selection of key parameters that may largely influence the entropy values obtained. Yet, the optimal choice for these parameters has not been studied thoroughly. We propose a study on the impact of these parameters in image classification. For this purpose, the entropy-based algorithms are applied to a variety of images from different datasets, each containing multiple image classes. Several parameter combinations are used to obtain the entropy values. These entropy values are then applied to a range of machine learning classifiers and the algorithm parameters are analyzed based on the classification results. By using specific parameters, we show that both MFuzzyEn2D and MDispEn2D approach state-of-the-art in terms of image classification for multiple image types. They lead to an average maximum accuracy of more than 95% for all the datasets tested. Moreover, MFuzzyEn2D results in a better classification performance than that extracted by MDispEn2D as a majority. Furthermore, the choice of classifier does not have a significant impact on the classification of the extracted features by both entropy algorithms. The results open new perspectives for these entropy-based measures in textural analysis.     

On the role of pressure in elasto-inertial turbulence

The dynamics of elasto-inertial turbulence is investigated numerically from the perspective of the coupling between polymer dynamics and flow structures. In particular, direct numerical simulations of channel flow with Reynolds numbers ranging from 1000 to 6000 are used to study the formation and dynamics of elastic instabilities and their effects on the flow. Based on the splitting of the pressure into inertial and polymeric contributions, it is shown that the polymeric pressure is a non-negligible component of the total pressure fluctuations, although the rapid inertial part dominates. Unlike Newtonian flows, the slow inertial part is almost negligible in elasto-inertial turbulence. Statistics on the different terms of the Reynolds stress transport equation also illustrate the energy transfers between polymers and turbulence and the redistributive role of pressure. Finally, the trains of cylindrical structures around sheets of high polymer extension that are characteristics of elasto-inertial turbulence are shown to be correlated with the polymeric pressure fluctuations.