A modular PIP2 binding site as a determinant of capsaicin receptor sensitivity

The capsaicin receptor (TRPV1), a heat-activated ion channel of the pain pathway, is sensitized by phosphatidylinositol-4,5-bisphosphate (PIP2) hydrolysis after phospholipase C activation. We identify a site within the C-terminal domain of TRPV1 that is required for PIP2-mediated inhibition of channel gating. Mutations that weaken PIP2-TRPV1 interaction reduce thresholds for chemical or thermal stimuli, whereas TRPV1 channels in which this region is replaced with a lipid-binding domain from PIP2-activated potassium channels remain inhibited by PIP2. The PIP2-interaction domain therefore serves as a critical determinant of thermal threshold and dynamic sensitivity range, tuning TRPV1, and thus the sensory neuron, to appropriately detect heat under normal or pathophysiological conditions.     

Structure of a thiol monolayer-protected gold nanoparticle at 1.1 A resolution

Structural information on nanometer-sized gold particles has been limited, due in part to the problem of preparing homogeneous material. Here we report the crystallization and x-ray structure determination of a p-mercaptobenzoic acid (p-MBA)-protected gold nanoparticle, which comprises 102 gold atoms and 44 p-MBAs. The central gold atoms are packed in a Marks decahedron, surrounded by additional layers of gold atoms in unanticipated geometries. The p-MBAs interact not only with the gold but also with one another, forming a rigid surface layer. The particles are chiral, with the two enantiomers alternating in the crystal lattice. The discrete nature of the particle may be explained by the closing of a 58-electron shell.     

Field Scale Mapping of Surface Soil Clay Concentration

The surface soil clay concentration is a useful soil property to map soils, interpret soil properties, and guide irrigation, fertilizer, and agricultural chemical applications. The objective of this study was to determine whether surface soil clay concentrations could be predicted from remotely sensed imagery of bare surface soil or from soil electrical conductivity for a 115 ha field located in Crisp County, Georgia. The soil clay concentrations were determined for soil samples taken at 28 field locations. Three different data sources–an aerial color photograph image, two infrared bands from an ATLAS data set, and the electrical conductivity of the surface soil layer were used in the research. Principal components analysis was applied to the color photograph image, whereas the ratio of two infrared bands was applied to the ATLAS data set. Filtering was applied to both resulting images. The distribution of soil electrical conductivity was derived from the measured soil electrical conductivity data by spatial analysis. Statistical relationships between soil clay concentrations and the principal component 3, the ratio of two ATLAS infrared bands, and the soil electrical conductivity were analyzed, and three linear equations were derived with r ² values 0.83, 0.52, and 0.78, respectively. The distribution of the soil clay concentrations was derived based on these three equations. Six levels of soil clay concentrations were classified in these three methods, and the advantages and disadvantages were discussed. The predicted and measured soil clay concentrations, based on additional soil samples from 30 field locations, were compared using linear regression (r ²=0.76, 0.45, and 0.77 for the three methods). The overall accuracy for these methods were 84%, 66%, and 76%, respectively. The principal components method had the highest accuracy in our research, while the result for the depressional areas is the best from the ratio method.     

Plant species identification using Elliptic Fourier leaf shape analysis

Elliptic Fourier (EF) and discriminant analyses were used to identify young soybean (Glycine max (L.) merrill), sunflower (Helianthus pumilus), redroot pigweed (Amaranthus retroflexus) and velvetleaf (Abutilon theophrasti Medicus) plants, based on leaf shape. Chain encoded, Elliptic Fourier harmonic functions were generated based on leaf boundary. A complexity index of the leaf shape was computed using the variation between consecutive EF functions. Principle component analysis was used to select the Fourier coefficients with the best discriminatory power. Canonical discriminant analysis was used to develop species identification models based on leaf shapes extracted from plant color images during the second and third weeks after germination. The classification results showed that plant species during the third week were successfully identified with an average of correct classification rate of 89.4%. The discriminant model correctly classified on average: 77.9% of redroot pigweed, 93.8% of sunflower, 89.4% of velvetleaf and 96.5% of soybean. Using all of the leaves extracted from the second and the third weeks, the overall classification accuracy was 89.2%. The discriminant model correctly classified 76.4% of redroot pigweed, 93.6% of sunflower, 81.6% of velvetleaf, 91.5% of soybean leaf extracted from trifoliolate and 90.9% of soybean unifoliolate leaves. The Elliptic Fourier shape feature analysis could be an important and accurate tool for weed species identification and mapping.     

Phosphorylation and regulation of Akt/PKB by the rictor-mTOR complex

Deregulation of Akt/protein kinase B (PKB) is implicated in the pathogenesis of cancer and diabetes. Akt/PKB activation requires the phosphorylation of Thr308 in the activation loop by the phosphoinositide-dependent kinase 1 (PDK1) and Ser473 within the carboxyl-terminal hydrophobic motif by an unknown kinase. We show that in Drosophila and human cells the target of rapamycin (TOR) kinase and its associated protein rictor are necessary for Ser473 phosphorylation and that a reduction in rictor or mammalian TOR (mTOR) expression inhibited an Akt/PKB effector. The rictor-mTOR complex directly phosphorylated Akt/PKB on Ser473 in vitro and facilitated Thr308 phosphorylation by PDK1. Rictor-mTOR may serve as a drug target in tumors that have lost the expression of PTEN, a tumor suppressor that opposes Akt/PKB activation.     

Human-specific gain of function in a developmental enhancer

Changes in gene regulation are thought to have contributed to the evolution of human development. However, in vivo evidence for uniquely human developmental regulatory function has remained elusive. In transgenic mice, a conserved noncoding sequence (HACNS1) that evolved extremely rapidly in humans acted as an enhancer of gene expression that has gained a strong limb expression domain relative to the orthologous elements from chimpanzee and rhesus macaque. This gain of function was consistent across two developmental stages in the mouse and included the presumptive anterior wrist and proximal thumb. In vivo analyses with synthetic enhancers, in which human-specific substitutions were introduced into the chimpanzee enhancer sequence or reverted in the human enhancer to the ancestral state, indicated that 13 substitutions clustered in an 81-base pair module otherwise highly constrained among terrestrial vertebrates were sufficient to confer the human-specific limb expression domain.     

The role of informal contracts in the growth of small cattle herds on the floodplains of the Lower Amazon

In the absence of access to formal credit, informal contracts with independent investors give the small ranchers of the Lower Amazon an acceptable means through which to surmount the high investment hurdle of starting a cattle herd. These contracts – called sociedades – allow small ranchers to raise an outside investor's cattle in return for a portion of the offspring and are commonplace in the cattle production systems of the Amazon. But, notwithstanding a vast literature on cattle production in the Amazon, informal contracts have been largely overlooked. This paper presents the results of a field survey and financial analysis for informal contracts on small ranches in the Lower Amazon. In the results, we suggest that informal contracts are an important means of cattle herd start-up and herd production for small ranchers. Internal rates of returns in cattle production under these contracts are in the range of –7 to –12% for the small rancher and 12% for the investor. The net present value of the contract to the small rancher ranges from –R$1219 to –R$8599 and from R$1681 to R$8845 for the investor, for a 10-year period, depending on herd size. Financial returns contracts are sensitive to the contract design – e.g., to who pays health costs – and to beef prices. The small ranchers have a negative IRR, lose money, and bear all the risk of loss, yet persist in using this form of herd development. We surmise that this is due to the non-financial benefits of cattle ownership and the lack of access to formal credit structures. In conclusion, although outside the formal economy and apparently financially unrewarding, these contracts are an important mechanism by which the small ranchers on the Amazon Floodplains create cattle herds.