Monodisperse self-assembly in a model with protein-like interactions

We study the self-assembly behaviour of patchy particles with `protein-like' interactions that can be considered as a minimal model for the assembly of viral capsids and other shell-like protein complexes. We thoroughly explore the thermodynamics and dynamics of self assembly as a function of the parameters of the model and find robust assembly of all target structures considered. Optimal assembly occurs in the region of parameter space where a free energy barrier regulates the rate of nucleation, thus preventing the premature exhaustion of the supply of monomers that can lead to the formation of incomplete shells. The interactions also need to be specific enough to prevent the assembly of malformed shells, but whilst maintaining kinetic accessibility. Free-energy landscapes computed for our model have a funnel-like topography guiding the system to form the target structure, and show that the torsional component of the interparticle interactions prevents the formation of disordered aggregates that would otherwise act as kinetic traps.Comment: 11 pages; 10 figure

Foreshock density holes in the context of known upstream plasma structures

We present case examples of foreshock density holes and results from a statistical survey, which provide additional characterizations of these recently-described structures. Specific effort is made to place these objects into context with well-studied foreshock phenomena, such as hot flow anomalies (HFAs) and large-amplitude magnetic pulsations (SLAMS). Density holes are observed during higher-than-average solar wind speeds (~620 km s<sup>−1</sup>), have well-correlated density and magnetic field intensities, and anti-correlated density and temperature variations. Like HFAs, these structures occur over a wide range of foreshock geometries, suggesting that this is not a determining factor. They are embedded within IMF current sheets, but their cross-structure magnetic shears are considerably lower than for HFAs. When the Cluster spacecraft are widely separated, they are able to measure structure time development, with substantial changes occurring over 10s of seconds, confirming an earlier case study, and possibly indicating short lifetimes as well. We find that density holes can occur in the absence of strong upstream magnetic pulsations and/or density enhancements, which rules out a "wake effect" as the sole explanation for their formation. Most important is the observation that the observed solar wind motional electric fields tend to have components pointing away from the embedding IMF current sheets. Density holes have no connection with magnetic holes and foreshock cavities, and appear not to be early-stage or weakly-formed HFAs

Annual Cycle of Cloud Forcing of Surface Radiation Budget

The climate of the Earth is determined by its balance of radiation. The incoming and outgoing radiation fluxes are strongly modulated by clouds, which are not well understood. The Earth Radiation Budget Experiment (Barkstrom and Smith, 1986) provided data from which the effects of clouds on radiation at the top of the atmosphere (TOA) could be computed (Ramanathan, 1987). At TOA, clouds increase the reflected solar radiation, tending to cool the planet, and decrease the OLR, causing the planet to retain its heat (Ramanathan et al., 1989; Harrison et al., 1990). The effects of clouds on radiation fluxes are denoted cloud forcing. These shortwave and longwave forcings counter each other to various degrees, so that in the tropics the result is a near balance. Over mid and polar latitude oceans, cloud forcing at TOA results in large net loss of radiation. Here, there are large areas of stratus clouds and cloud systems associated with storms. These systems are sensitive to surface temperatures and vary strongly with the annual cycle. During winter, anticyclones form over the continents and move to the oceans during summer. This movement of major cloud systems causes large changes of surface radiation, which in turn drives the surface temperature and sensible and latent heat released to the atmosphere

The self-assembly and evolution of homomeric protein complexes

We introduce a simple "patchy particle" model to study the thermodynamics and dynamics of self-assembly of homomeric protein complexes. Our calculations allow us to rationalize recent results for dihedral complexes. Namely, why evolution of such complexes naturally takes the system into a region of interaction space where (i) the evolutionarily newer interactions are weaker, (ii) subcomplexes involving the stronger interactions are observed to be thermodynamically stable on destabilization of the protein-protein interactions and (iii) the self-assembly dynamics are hierarchical with these same subcomplexes acting as kinetic intermediates.Comment: 4 pages, 4 figure

Evaluating Surface Flux Results from CERES-FLASHFlux

The Fast Longwave and Shortwave Radiative Flux (FLASHFlux) data product was developed to provide a rapid release version of the Clouds and Earth's Radiant Energy System (CERES) results, which could be made available to the research and applications communities within one week of the satellite observations by exchanging some accuracy for speed of processing. Unlike standard CERES products, FLASHFlux does not maintain a long-term consistent record. Therefore the latest algorithm changes and input data can be incorporated into processing. FLASHFlux released Version3A (January 2013) and Version 3B (August 2014) which include the latest meteorological product from Global Modeling and Assimilation Office (GMAO), GEOS FP-IT (5.9.1), the latest spectral response functions and gains for the CERES instruments, and aerosol climatology based on the latest MATCH data. Version 3B included a slightly updated calibration and some changes to the surface albedo over snow/ice. Typically FLASHFlux does not reprocess earlier versions when a new version is released. The combined record of Time Interpolated Space Averaged (TISA) surface flux results from Versions3A and 3B for July 2012 to October 2015 have been compared to the ground-based measurements. The FLASHFlux results are also compared to two other CERES gridded products, SYN1deg and EBAF surface fluxes

An Improved Algorithm for Retrieving Surface Downwelling Longwave Radiation from Satellite Measurements

Zhou and Cess [2001] developed an algorithm for retrieving surface downwelling longwave radiation (SDLW) based upon detailed studies using radiative transfer model calculations and surface radiometric measurements. Their algorithm linked clear sky SDLW with surface upwelling longwave flux and column precipitable water vapor. For cloudy sky cases, they used cloud liquid water path as an additional parameter to account for the effects of clouds. Despite the simplicity of their algorithm, it performed very well for most geographical regions except for those regions where the atmospheric conditions near the surface tend to be extremely cold and dry. Systematic errors were also found for scenes that were covered with ice clouds. An improved version of the algorithm prevents the large errors in the SDLW at low water vapor amounts by taking into account that under such conditions the SDLW and water vapor amount are nearly linear in their relationship. The new algorithm also utilizes cloud fraction and cloud liquid and ice water paths available from the Cloud and the Earth's Radiant Energy System (CERES) single scanner footprint (SSF) product to separately compute the clear and cloudy portions of the fluxes. The new algorithm has been validated against surface measurements at 29 stations around the globe for Terra and Aqua satellites. The results show significant improvement over the original version. The revised Zhou-Cess algorithm is also slightly better or comparable to more sophisticated algorithms currently implemented in the CERES processing and will be incorporated as one of the CERES empirical surface radiation algorithms

Validation of Surface-Only Flux Algorithms

No abstract availabl

Geometric frustration in small colloidal clusters

We study the structure of clusters in a model colloidal system with competing interactions using Brownian dynamics simulations. A short-ranged attraction drives clustering, while a weak, long-ranged repulsion is used to model electrostatic charging in experimental systems. The former is treated with a short-ranged Morse attractive interaction, the latter with a repulsive Yukawa interaction. We consider the yield of clusters of specific structure as a function of the strength of the interactions, for clusters with m=3,4,5,6,7,10 and 13 colloids. At sufficient strengths of the attractive interaction (around 10 kT), the average bond lifetime approaches the simulation timescale and the system becomes nonergodic. For small clusters m<=5 where geometric frustration is not relevant, despite nonergodicity, for sufficient strengths of the attractive interaction the yield of clusters which maximise the number of bonds approaches 100%. However for $m=7$ and higher, in the nonergodic regime we find a lower yield of these structures where we argue geometric frustration plays a significant role. $m=6$ is a special case, where two structures, of octahedral and C2v symmetry compete, with the latter being favoured by entropic contributions in the ergodic regime and by kinetic trapping in the nonergodic regime. We believe that our results should be valid as far as the one-component description of the interaction potential is valid. A system with competing electrostatic repulsions and van der Waals attractions may be such an example. However, in some cases, the one-component description of the interaction potential may not be appropriate.Comment: 21 pages, accepted for publication by J. Phys. Condens. Matte

Predicting functional responses in agro-ecosystems from animal movement data to improve management of invasive pests

Functional responses describe how changing resource availability affects con- sumer resource use, thus providing a mechanistic approach to prediction of the invasibility and potential damage of invasive alien species (IAS). However, functional responses can be context dependent, varying with resource characteristics and availability, consumer attributes, and environmental variables. Identifying context dependencies can allow invasion and damage risk to be predicted across different ecoregions. Understanding how ecological factors shape the functional response in agro-ecosystems can improve predictions of hotspots of highest impact and inform strategies to mitigate damage across locations with varying crop types and avail- ability. We linked heterogeneous movement data across different agro-ecosystems to predict ecologically driven variability in the functional responses. We applied our approach to wild pigs (Sus scrofa), one of the most successful and detrimental IAS worldwide where agricultural resource depredation is an important driver of spread and establishment. We used continental- scale movement data within agro-ecosystems to quantify the functional response of agricul- tural resources relative to availability of crops and natural forage. We hypothesized that wild pigs would selectively use crops more often when natural forage resources were low. We also examined how individual attributes such as sex, crop type, and resource stimulus such as dis- tance to crops altered the magnitude of the functional response. There was a strong agricul- tural functional response where crop use was an accelerating function of crop availability at low density (Type III) and was highly context dependent. As hypothesized, there was a reduced response of crop use with increasing crop availability when non-agricultural resources were more available, emphasizing that crop damage levels are likely to be highly heterogeneous depending on surrounding natural resources and temporal availability of crops. We found sig- nificant effects of crop type and sex, with males spending 20% more time and visiting crops 58% more often than females, and both sexes showing different functional responses depend- ing on crop type. Our application demonstrates how commonly collected animal movement data can be used to understand context dependencies in resource use to improve our under- standing of pest foraging behavior, with implications for prioritizing spatiotemporal hotspots of potential economic loss in agro-ecosystems

TRH: Pathophysiologic and clinical implications

Thyrotropin releasing hormone is thought to be a tonic stimulator of the pituitary TSH secretion regulating the setpoint of the thyrotrophs to the suppressive effect of thyroid hormones. The peptide stimulates the release of normal and elevated prolactin. ACTH and GH may increase in response to exogenous TRH in pituitary ACTH and GH hypersecretion syndromes and in some extrapituitary diseases. The pathophysiological implications of extrahypothalamic TRH in humans are essentially unknown. The TSH response to TRH is nowadays widely used as a diganostic amplifier in thyroid diseases being suppressed in borderline and overt hyperthyroid states and increased in primary thyroid failure. In hypothyroid states of hypothalamic origin, TSH increases in response to exogenous TRH often with a delayed and/or exaggerated time course. But in patients with pituitary tumors and suprasellar extension TSH may also respond to TRH despite secondary hypothyroidism. This TSH increase may indicate a suprasellar cause for the secondary hypothyroidism, probably due to portal vessel occlusion. The TSH released in these cases is shown to be biologically inactive