Reflections on the virtues of modularity: a case study in linux security modules

Developing a modular system that properly supports a range of security models is challenging. The work presented here details our experiences with the modular Linux security framework called Linux Security Modules, or LSMs. Throughout our experiences we discovered that the developers of the LSM framework made certain tradeoffs for speed and simplicity during implementation, and consequently leaving the framework incomplete. Our experiences show at which points the theory of the LSM differs from reality, and details how these differences play out when developing and using a custom LSM. Copyright © 2009 John Wiley & Sons, Ltd.     

Evaluating model fit for growth curve models: Integration of fit indices from SEM and MLM frameworks.

Evaluating overall model fit for growth curve models involves 3 challenging issues. (a) Three types of longitudinal data with different implications for model fit may be distinguished: balanced on time with complete data, balanced on time with data missing at random, and unbalanced on time. (b) Traditional work on fit from the structural equation modeling (SEM) perspective has focused only on the covariance structure, but growth curve models have four potential sources of misspecification: within-individual covariance matrix, between-individuals covariance matrix, marginal mean structure, and conditional mean structure. (c) Growth curve models can be estimated in both the SEM and multilevel modeling (MLM) frameworks; these have different emphases for the evaluation of model fit. In this article, the authors discuss the challenges presented by these 3 issues in the calculation and interpretation of SEM- and MLM-based fit indices for growth curve models and conclude by identifying some lines for future research. (PsycINFO Database Record (c) 2010 APA, all rights reserved)     

Elastomeric Electronic Skin for Prosthetic Tactile Sensation

This report demonstrates a wearable elastomer‐based electronic skin including resistive sensors for monitoring finger articulation and capacitive tactile pressure sensors that register distributed pressure along the entire length of the finger. Pressure sensitivity in the order of 0.001 to 0.01 kPa^?1 for pressures from 5 to 405 kPa, which includes much of the range of human physiological sensing, is achieved by implementing soft, compressible silicone foam as the dielectric and stretchable thin‐metal films. Integrating these sensors in a textile glove allows the decoupling of the strain and pressure cross‐sensitivity of the tactile sensors, enabling precise grasp analysis. The sensorized glove is implemented in a human‐in‐the‐loop system for controlling the grasp of objects, a critical step toward hand prosthesis with integrated sensing capabilities.     

Transformations for early reply and forward message passing mechanisms

Message passing notations (language, package, etc.) typically include some form of asynchronous or synchronous invocation. In a synchronous invocation, the invoker waits for the invocation's servicer to pass back results. Some message passing notations also include early reply or deferred reply (including forwarding), which alters how and when the servicer passes back its results; this additional flexibility is useful in realistic applications. It is well known how to transform a synchronous invocation into only asynchronous invocations. This paper extends such transformations to early reply and forward. This paper also describes the use of these transformations within the implementations of programming notations. Using the transformation simplifies the implementation without significantly affecting run‐time costs. Copyright © 2015 John Wiley & Sons, Ltd.     

Role of salt on adhesion of an epoxy/aluminum (oxide) interface in aqueous environments

Joints held by polymeric adhesives are commonplace in many engineered products, but normal service can require exposure to environmental conditions that present a significant challenge for maintaining the structural integrity of the interface. In particular, aqueous environments can wreak havoc on the joint strength. Here, a mechanistic approach is used to understand the difference in the debonding behavior of an epoxy/aluminum (oxide) interface when exposed to deionized (DI) water and aqueous sodium chloride by correlating macroscopic failure with the sorption of salt and water into the adhesive and its nanoscale distribution. For the epoxy‐aluminum system examined here, the presence of sodium chloride increases the resistance to crack growth in comparison to DI water. The debonding appears to be controlled by water near the buried interface. Salt water decreases the solubility of water in the epoxy and decreases the concentration of water near the buried interface, but the concentration of salt that enters the epoxy is below the detection limit. Thus, even if ions cannot penetrate or sorb into the adhesive, the presence of salt can significantly alter the water distribution within the adhesive and ultimately the strength of the joint. POLYM. ENG. SCI., 56:18–26, 2016. © 2015 Society of Plastics Engineers     

Improved fallow: growth and nitrogen accumulation of five native tree species in Brazil

Nitrogen (N) is the most important yield-limiting factor in agricultural systems, however, N application can lead to emissions and environmental problems such as global warming (N₂O) and groundwater contamination (NO₃ ^?). This study analyses the N balance, nitrogen-use efficiency, and N loss potential of conventional farming systems (arable farming, improved arable farming, and agroforestry) and organic farming systems (mixed farming, arable farming, and agroforestry) based on long-term field experiments in southern Germany. The effects of the conversion of farm structure and N management are identified. The conventional farming systems in this study were high N-input and high N-output systems. The conventional arable farming system had the lowest nitrogen-use efficiency and the highest N surplus. An optimised N management and the use of high-yielding crop varieties improved its nitrogen-use efficiency. The establishment of conventional agroforestry resulted in the reduction of N input, N output and N surplus, while maintaining high yields. The organic mixed farming system is characterised by a relatively high N input and N output, the accumulation of soil organic nitrogen, the highest nitrogen-use efficiency, and the lowest N surplus of all analysed systems. These good results can be attributed to the intensive farm N cycle between soil–plant–animal. The shift from organic mixed farming to organic arable farming system extensified the N cycle, reduced N input, crop yield and N output. The change from organic arable farming to organic agroforestry reduced the N input, increased the biomass yield, and remained the N surplus within an optimal range.     

The FKBP5 Gene Affects Alcohol Drinking in Knockout Mice and Is Implicated in Alcohol Drinking in Humans

FKBP5 encodes FK506-binding protein 5, a glucocorticoid receptor (GR)-binding protein implicated in various psychiatric disorders and alcohol withdrawal severity. The purpose of this study is to characterize alcohol preference and related phenotypes in Fkbp5 knockout (KO) mice and to examine the role of FKBP5 in human alcohol consumption. The following experiments were performed to characterize Fkpb5 KO mice. (1) Fkbp5 KO and wild-type (WT) EtOH consumption was tested using a two-bottle choice paradigm; (2) The EtOH elimination rate was measured after intraperitoneal (IP) injection of 2.0 g/kg EtOH; (3) Blood alcohol concentration (BAC) was measured after 3 h limited access of alcohol; (4) Brain region expression of Fkbp5 was identified using LacZ staining; (5) Baseline corticosterone (CORT) was assessed. Additionally, two SNPs, rs1360780 (C/T) and rs3800373 (T/G), were selected to study the association of FKBP5 with alcohol consumption in humans. Participants were college students (n = 1162) from 21–26 years of age with Chinese, Korean or Caucasian ethnicity. The results, compared to WT mice, for KO mice exhibited an increase in alcohol consumption that was not due to differences in taste sensitivity or alcohol metabolism. Higher BAC was found in KO mice after 3 h of EtOH access. Fkbp5 was highly expressed in brain regions involved in the regulation of the stress response, such as the hippocampus, amygdala, dorsal raphe and locus coeruleus. Both genotypes exhibited similar basal levels of plasma corticosterone (CORT). Finally, single nucleotide polymorphisms (SNPs) in FKBP5 were found to be associated with alcohol drinking in humans. These results suggest that the association between FKBP5 and alcohol consumption is conserved in both mice and humans.     

Capture‐Tag‐Release: A Strategy for Small Molecule Labeling of Native Enzymes

A strategy for labeling native enzymes in a manner that preserves their activity is reported: capture–tag–release (CTR). Key to this approach is the small molecule CTR probe that contains an enzyme inhibitor, benzophenone crosslinker, and aryl phosphine ester. After UV‐derived capture of the enzyme, addition of an azide‐containing tag triggers a Staudinger ligation that labels the enzyme. A further consequence of the Staudinger ligation is fragmentation of the CTR probe, thus releasing the inhibitor and restoring enzymatic activity. As a proof‐of‐principle, the CTR strategy was applied to the hydrolase β‐galactosidase. The enzyme was efficiently labeled with biotin, and the kinetic data for the biotinylated enzyme were comparable to those for unlabeled β‐galactosidase. The CTR probe exhibits excellent targeting specificity, as it selectively labeled β‐galactosidase in a complex protein mixture.     

Mechanisms of Enhanced Catalysis in Enzyme–DNA Nanostructures Revealed through Molecular Simulations and Experimental Analysis

Understanding and controlling the molecular interactions between enzyme substrates and DNA nanostructures has important implications in the advancement of enzyme–DNA technologies as solutions in biocatalysis. Such hybrid nanostructures can be used to create enzyme systems with enhanced catalysis by controlling the local chemical and physical environments and the spatial organization of enzymes. Here we have used molecular simulations with corresponding experiments to describe a mechanism of enhanced catalysis due to locally increased substrate concentrations. With a series of DNA nanostructures conjugated to horseradish peroxidase, we show that binding interactions between substrates and the DNA structures can increase local substrate concentrations. Increased local substrate concentrations in HRP(DNA) nanostructures resulted in 2.9‐ and 2.4‐fold decreases in the apparent Michaelis constants of tetramethylbenzidine and 4‐aminophenol, substrates of HRP with tunable binding interactions to DNA nanostructures with dissociation constants in the micromolar range. Molecular simulations and kinetic analysis also revealed that increased local substrate concentrations enhanced the rates of substrate association. Identification of the mechanism of increased local concentration of substrates in close proximity to enzymes and their active sites adds to our understanding of nanostructured biocatalysis from which we can develop guidelines for enhancing catalysis in rationally designed systems.