Decoding the Rich Biological Properties of Noble Gases: How Well Can We Predict Noble Gas Binding to Diverse Proteins?

The chemically inert noble gases display a surprisingly rich spectrum of useful biological properties. Relatively little is known about the molecular mechanisms behind these effects. It is clearly not feasible to conduct large numbers of pharmacological experiments on noble gases to identify activity. Computational studies of the binding of noble gases and proteins can address this paucity of information and provide insight into mechanisms of action. We used bespoke computational grid calculations to predict the positions of energy minima in the interactions of noble gases with diverse proteins. The method was validated by quantifying how well simulations could predict binding positions in 131 diverse protein X‐ray structures containing 399 Xe and Kr atoms. We found excellent agreement between calculated and experimental binding positions of noble gases. 94 % of all crystallographic xenon atoms were within 1 Xe van der Waals (vdW) diameter of a predicted binding site, and 97 % lay within 2 vdW diameters. 100 % of crystallographic krypton atoms were within 1 Kr vdW diameter of a predicted binding site. We showed the feasibility of large‐scale computational screening of all ≈60 000 unique structures in the Protein Data Bank. This will elucidate biochemical mechanisms by which these novel ‘atomic drugs’ elicit their valuable biochemical properties and identify new medical uses.     

Mechatronic design of the Twente humanoid head

This paper describes the mechatronic design of the Twente humanoid head, which has been realized in the purpose of having a research platform for human-machine interaction. The design features a fast, four degree of freedom neck, with long range of motion, and a vision system with three degrees of freedom, mimicking the eyes. To achieve fast target tracking, two degrees of freedom in the neck are combined in a differential drive, resulting in a low moving mass and the possibility to use powerful actuators. The performance of the neck has been optimized by minimizing backlash in the mechanisms, and using gravity compensation. The vision system is based on a saliency algorithm that uses the camera images to determine where the humanoid head should look at, i.e. the focus of attention computed according to biological studies. The motion control algorithm receives, as input, the output of the vision algorithm and controls the humanoid head to focus on and follow the target point. The control architecture exploits the redundancy of the system to show human-like motions while looking at a target. The head has a translucent plastic cover, onto which an internal LED system projects the mouth and the eyebrows, realizing human-like facial expressions.     

Design tool for estimating chemical hydrogen storage system characteristics for light-duty fuel cell vehicles

The U.S. Department of Energy (DOE) developed a vehicle Framework model to simulate fuel cell-based light-duty vehicle operation for various hydrogen storage systems. This transient model simulates the performance of the storage system, fuel cell, and vehicle for comparison to Technical Targets established by DOE for four drive cycles/profiles. Chemical hydrogen storage models have been developed for the Framework for both exothermic and endothermic materials. Despite the utility of such models, they require that material researchers input system design specifications that cannot be estimated easily. To address this challenge, a design tool has been developed that allows researchers to directly enter kinetic and thermodynamic chemical hydrogen storage material properties into a simple sizing module that then estimates system parameters required to run the storage system model. Additionally, the design tool can be used as a standalone executable file to estimate the storage system mass and volume outside of the Framework model. These models will be explained and exercised with the representative hydrogen storage materials exothermic ammonia borane (NH₃BH₃) and endothermic alane (AlH₃).     

A Phase-Field Model and Simulation of Kinetically Asymmetric Ternary Conversion-Reconversion Transformation in Battery Electrodes

Electrochemical processes in high-energy electrode materials often involve diffusion of multiple species and solid-state phase transformations. Some of these phase transformations involve breaking and rearranging ionic bonds and are referred to as conversion reactions (e.g., the lithium and iron difluoride conversion reaction: 2Li⁺ + 2e^? + FeF₂ → 2LiF + Fe). The phase transformations during conversion processes are governed by fundamental thermodynamics and kinetics in a similar manner to metallurgical systems. In this work, we developed a phase-field model that tracks atomic fractions of three constituent species to simulate the morphological evolution of different phases. The simulations demonstrate that conversion proceeds via a two-stage process consisting of lithiation and decomposition stages, whereas the reconversion process consists of a single-stage delithiation. This asymmetry in evolution paths of conversion and reconversion is likely responsible for the voltage hysteresis commonly observed during lithiation-delithiation cycling of conversion materials.     

Characterization factors for water consumption and greenhouse gas emissions based on freshwater fish species extinction

Human-induced changes in water consumption and global warming are likely to reduce the species richness of freshwater ecosystems. So far, these impacts have not been addressed in the context of life cycle assessment (LCA). Here, we derived characterization factors for water consumption and global warming based on freshwater fish species loss. Calculation of characterization factors for potential freshwater fish losses from water consumption were estimated using a generic species-river discharge curve for 214 global river basins. We also derived characterization factors for potential freshwater fish species losses per unit of greenhouse gas emission. Based on five global climate scenarios, characterization factors for 63 greenhouse gas emissions were calculated. Depending on the river considered, characterization factors for water consumption can differ up to 3 orders of magnitude. Characterization factors for greenhouse gas emissions can vary up to 5 orders of magnitude, depending on the atmospheric residence time and radiative forcing efficiency of greenhouse gas emissions. An emission of 1 ton of CO? is expected to cause the same impact on potential fish species disappearance as the water consumption of 10-1000 m3, depending on the river basin considered. Our results make it possible to compare the impact of water consumption with greenhouse gas emissions.     

Cloning and in vitro expression and characterization of the androgen receptor and isolation of estrogen receptor alpha from the fathead Minnow (Pimephales promelas)

In vitro screening assays designed to identify hormone mimics or antagonists typically use mammalian (rat, human) estrogen (ER) and androgen receptors (AR). Although we know that the amino acid sequences of steroid receptors in nonmammalian vertebrates are not identical to the mammalian receptors, a great deal of uncertainty exists as to whether these differences affect interactions of potential endocrine-disrupting chemicals (EDC) with the receptors. This leads to substantial uncertainty with respect to the utility of mammalian-based screening assays to predict possible effects of EDCs in nonmammalian wildlife. This paper describes preparation of a cDNA library from a small fish model commonly used in ecological risk assessments, the fathead minnow (Pimphales promelas). The cDNA library was subsequently used to isolate and sequence both AR and ERalpha. In addition, the fathead minnow (fh)AR was expressed and characterized with respect to function using saturation and competitive binding assays in COS monkey kidney cells. Saturation experiments along with subsequent Scatchard analysis determined that the Kd of the fhAR for the potent synthetic androgen R1881 was 1.8 nM, which is comparable to that for the human AR in the same assay system. In COS whole cell competitive binding assays, potent androgens such as dihydrotestosterone and 11-ketotestosterone were also shown to be high affinity ligands for the fhAR. We also report affinity of the receptor for a number of environmental contaminants including the AR agonists androstenedione and 17a- and 17beta-trenbolone;AR antagonists such as p,p'-DDE, linuron, and vinclozolin; and the ER agonist 17beta-estradiol. Future plans include comparison of binding affinities of the fhAR to those of the human AR, also expressed in COS cells, using a range of EDCs.     

Low temperature solid oxide fuel cells with pulsed laser deposited bi-layer electrolyte

Solid oxide fuel cells (SOFC) using a pulsed laser deposited bi-layer electrolyte have been successfully fabricated and have shown very good performance at low operating temperatures. The cell reaches power densities of 0.5 W cm⁻² at 550 °C and 0.9 W cm⁻² at 600 °C, with open circuit voltage (OCV) values larger than 1.04 V. The bi-layer electrolyte contains a 6–7 μm thick samarium-doped ceria (SDC) layer deposited over a ∼1 μm thick scandium-stabilized zirconia (ScSZ) layer. The electrical leaking between the anode and cathode through the SDC electrolyte, which due to the reduction of Ce⁴⁺ to Ce³⁺ in reducing environment when using a single layer SDC electrolyte, has been eliminated by adopting the bi-layer electrolyte concept. Both ScSZ and SDC layers in the bi-layer electrolyte prepared by the pulsed laser deposition (PLD) technique are the highly conductive cubic phases. Poor conductive (Zr, Ce)O₂-based solid solutions or β-phase ScSZ were not found in the bi-layer electrolyte prepared by the PLD due to low processing temperatures of the technique. Excellent reliability and flexibility of the PLD technique makes it a very promising technique for the fabrication of thin electrolyte layer for SOFCs operating at reduced temperatures.     

Theobroma cacao L., "The food of the Gods": quality determinants of commercial cocoa beans, with particular reference to the impact of fermentation

The quality of commercial cocoa beans, the principal raw material for chocolate production, relies on the combination of factors that include the type of planting material, the agricultural practices, and the post-harvest processing. Among these, the fermentation of the cocoa beans is still the most relevant since it is the process whereby the precursors of the cocoa flavor arise. The formation of these precursors depends on the activity of different microbial groups on the beans pulp. A comparison of fermentations in different countries showed that a well-defined microbial succession does not always take place and that the role of Bacillus spp. in this process remains unclear. Considering the overriding importance of the fermentation to achieve high quality commercial cocoa beans, we discuss the need of addressing the impact of the farming system, the ripeness state of the pods, and the role of microbial interactions on the fermentation in future research. In addition, the problem of high acidification cocoa beans, aspects dealing with the volatile fraction of the flavor, and the cocoa butter properties, all were identified as critical aspects that need further investigation. The standardization of the microbiological methods and the application of metagenomic approaches would magnify the knowledge in this domain.