Energetics of critical oscillators in active bacterial baths

We investigate the nonequilibrium energetics near a critical point of a non-linear oscillator immersed in an active bacterial bath. At the critical point, we reveal a scaling exponent of the average power exerted by a constant non-conservative torque 〈W‧ 〉 ∼ (Da/τ)1/4, where Da is the effective diffusivity and τ the correlation time of the bacterial bath described by a Gaussian colored noise. Other features that we investigate are the average stationary power and the variance of the work both below and above the saddle-node bifurcation. Above the bifurcation, the average power attains an optimal, minimum value for finite τ that is below its zero-temperature limit. Furthermore, we reveal a finite-time uncertainty relation for active matter which leads to values of the Fano factor of the work that can be below 2kBTeff, with Teff the effective temperature of the oscillator in the bacterial bath. We analyze different Markovian approximations to describe the nonequilibrium stationary state of the system. Finally, we illustrate our results in the experimental context by considering the example of driven colloidal particles in periodic optical potentials within an E. Coli bacterial bath

Structural Evolution of Ga-Cu Model Catalysts for CO₂ Hydrogenation Reactions

We studied the initial stages of Ga interaction with the Cu(001) surface and environment-induced surface transformations in an attempt to elucidate the surface chemistry of the Cu–Ga catalysts recently proposed for CO2 hydrogenation to methanol. The results show that Ga readily intermixes with Cu upon deposition in vacuum. However, even traces of oxygen in the gas ambient cause Ga oxidation and the formation of two-dimensional (“monolayer”) Ga oxide islands uniformly covering the Cu surface. The surface morphology and the oxidized state of Ga remain in H2 as well as in a CO2 + H2 reaction mixture at elevated pressures and temperatures (0.2 mbar, 700 K). The results indicate that the Ga-doped Cu surface under reaction conditions exposes a variety of structures including GaOx/Cu interfacial sites, which must be taken into account for elucidating the reaction mechanism

Rigidity analysis of HIV-1 protease

We present a rigidity analysis on a large number of X-ray crystal structures of the enzyme HIV-1 protease using the 'pebble game' algorithm of the software FIRST. We find that although the rigidity profile remains similar across a comprehensive set of high resolution structures, the profile changes significantly in the presence of an inhibitor. Our study shows that the action of the inhibitors is to restrict the flexibility of the beta-hairpin flaps which allow access to the active site. The results are discussed in the context of full molecular dynamics simulations as well as data from NMR experiments.Comment: 4 pages, 3 figures. Conference proceedings for CMMP conference 2010 which was held at the University of Warwic

Greening Rail Infrastructure for Carbon Benefits

© 2017 The Authors. Metropolitan Sydney has a network of rail corridors almost 400 kilometers in length, which vary in width from narrow cuttings to wide easements. With an appropriate selection of vegetation species, these corridors can be used to offset carbon emissions from railway operations. Simultaneously, the plantings will improve air quality, reduce pollution and storm water flows, ameliorate urban heating deliver biodiversity gains and improve urban design and property values. A pilot study was carried out on a representative section of one of the major rail lines in Sydney in 2016. A detailed inventory of vegetation on the selected site was obtained through a field survey and a variety of tools were used including i-Tree Eco to benchmark current carbon sequestration and storage (CS & S) levels. Study outcomes include the existing carbon capacity of the rail corridor's above-ground (and substrate) biomass and air pollution reduction. It also presents estimates of CS & S potential by identifying future planting areas within the pilot study corridor. These results are valuable for infrastructure policy formulation directed towards carbon emissions as well as securing the co-benefits noted above

Mass-Specific Metabolic Rate and Sperm Competition Determine Sperm Size in Marsupial Mammals

Two complementary hypotheses have been proposed to explain variation in sperm size. The first proposes that post-copulatory sexual selection favors an increase in sperm size because it enhances sperm swimming speed, which is an important determinant of fertilization success in competitive contexts. The second hypothesis proposes that mass-specific metabolic rate acts as a constraint, because large animals with low mass-specific metabolic rates will not be able to process resources at the rates needed to produce large sperm. This constraint is expected to be particularly pronounced among mammals, given that this group contains some of the largest species on Earth. We tested these hypotheses among marsupials, a group in which mass-specific metabolic rates are roughly 30% lower than those of eutherian mammals of similar size, leading to the expectation that metabolic rate should be a major constraint. Our findings support both hypotheses because levels of sperm competition are associated with increases in sperm size, but low mass-specific metabolic rate constrains sperm size among large species. We also found that the relationship between sperm size and mass-specific metabolic rate is steeper among marsupials and shallower among eutherian mammals. This finding has two implications: marsupials respond to changes in mass-specific metabolic rate by modifying sperm length to a greater extent, suggesting that they are more constrained by metabolic rate. In addition, for any given mass-specific metabolic rate, marsupials produce longer sperm. We suggest that this is the consequence of marsupials diverting resources away from sperm numbers and into sperm size, due to their efficient sperm transport along the female tract and the existence of mechanisms to protect sperm

Comparative analysis of rigidity across protein families

We present a comparative study in which 'pebble game' rigidity analysis is applied to multiple protein crystal structures, for each of six different protein families. We find that the main-chain rigidity of a protein structure at a given hydrogen bond energy cutoff is quite sensitive to small structural variations, and conclude that the hydrogen bond constraints in rigidity analysis should be chosen so as to form and test specific hypotheses about the rigidity of a particular protein. Our comparative approach highlights two different characteristic patterns ('sudden' or 'gradual') for protein rigidity loss as constraints are removed, in line with recent results on the rigidity transitions of glassy networks

Effect of Motility Factors D-Penicillamine, Hypotaurine and Epinephrine on the Performance of Spermatozoa from Five Hamster Species

Assessments of sperm performance are valuable tools for the analysis of sperm fertilizing potential and to understand determinants of male fertility. Hamster species constitute important animal models because they produce sperm cells in high quantities and of high quality. Sexual selection over evolutionary time in these species seems to have resulted in the largest mammalian spermatozoa, and high swimming and bioenergetic performances. Earlier studies showed that golden hamster sperm requires motility factors such as D-penicillamine, hypotaurine and epinephrine (PHE) to sustain survival over time, but it is unknown how they affect swimming kinetics or ATP levels and if other hamster species also require them. The objective of the present study was to examine the effect of PHE on spermatozoa of five hamster species (Mesocricetus auratus, Cricetulus griseus, Phodopus campbelli, P. sungorus, P. roborovskii). In sperm incubated for up to 4 h without or with PHE, we assessed motility, viability, acrosome integrity, sperm velocity and trajectory, and ATP content. The results showed differences in the effect of PHE among species. They had a significant positive effect on the maintenance of sperm quality in M. auratus and C. griseus, whereas there was no consistent effect on spermatozoa of the Phodopus species. Differences between species may be the result of varying underlying regulatory mechanisms of sperm performance and may be important to understand how they relate to successful fertilization.Fil: Tourmente, Maximiliano. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Córdoba. Instituto de Investigaciones Biológicas y Tecnológicas. Universidad Nacional de Córdoba. Facultad de Ciencias Exactas, Físicas y Naturales. Instituto de Investigaciones Biológicas y Tecnológicas; Argentina. Universidad Nacional de Córdoba. Facultad de Ciencias Exactas, Físicas y Naturales. Centro de Biología Celular y Molecular; Argentina. Consejo Superior de Investigaciones Científicas. Museo Nacional de Ciencias Naturales; EspañaFil: Sanchez Rodriguez, Ana. Consejo Superior de Investigaciones Científicas. Museo Nacional de Ciencias Naturales; EspañaFil: Roldan, Eduardo R. S.. Consejo Superior de Investigaciones Científicas. Museo Nacional de Ciencias Naturales; Españ

In situ and operando electron microscopy in heterogeneous catalysis - insights into multi-scale chemical dynamics

This review features state-of-the-art in situ and operando electron microscopy (EM) studies of heterogeneous catalysts in gas and liquid environments during reaction. Heterogeneous catalysts are important materials for the efficient production of chemicals/fuels on an industrial scale and for energy conversion applications. They also play a central role in various emerging technologies that are needed to ensure a sustainable future for our society. Currently, the rational design of catalysts has largely been hampered by our lack of insight into the working structures that exist during reaction and their associated properties. However, elucidating the working state of catalysts is not trivial, because catalysts are metastable functional materials that adapt dynamically to a specific reaction condition. The structural or morphological alterations induced by chemical reactions can also vary locally. A complete description of their morphologies requires that the microscopic studies undertaken span several length scales. EMs, especially transmission electron microscopes, are powerful tools for studying the structure of catalysts at the nanoscale because of their high spatial resolution, relatively high temporal resolution, and complementary capabilities for chemical analysis. Furthermore, recent advances have enabled the direct observation of catalysts under realistic environmental conditions using specialized reaction cells. Here, we will critically discuss the importance of spatially-resolved operando measurements and the available experimental setups that enable (1) correlated studies where EM observations are complemented by separate measurements of reaction kinetics or spectroscopic analysis of chemical species during reaction or (2) real-time studies where the dynamics of catalysts are followed with EM and the catalytic performance is extracted directly from the reaction cell that is within the EM column or chamber. Examples of current research in this field will be presented. Challenges in the experimental application of these techniques and our perspectives on the field's future directions will also be discussed

Quantum spin fluctuations and the stability of atomically-sized Bloch points

We reveal the role of the spin variables' zero-point fluctuations (ZPFs) on the stability of Bloch point (BP) singularities. As topological solitons, BPs are important in topological transitions in nanomagnets. BPs present a singularity at their core, where the long-length-scale approximation fails. We found that ZPFs bloom nearby this core, reducing the effective magnetic moment and increasing the BP's stability. As suggested by classical models, the magnonic eigenmodes found by our methods fit with the bound state of an electron surrounding a dyon, with a magnetic and an electric charge.Comment: Main: 5 pages, 4 figures. Supplementary material: 3 pages, 4 figure