MetaboNetworks, an interactive Matlab-based toolbox for creating, customizing and exploring sub-networks from KEGG.

Summary: MetaboNetworks is a tool to create custom sub-networks in Matlab using main reaction pairs as defined by the Kyoto Encyclopaedia of Genes and Genomes and can be used to explore transgenomic interactions, for example mammalian and bacterial associations. It calculates the shortest path between a set of metabolites (e.g. biomarkers from a metabonomic study) and plots the connectivity between metabolites as links in a network graph. The resulting graph can be edited and explored interactively. Furthermore, nodes and edges in the graph are linked to the Kyoto Encyclopaedia of Genes and Genomes compound and reaction pair web pages. Availability and implementation: MetaboNetworks is available from http://www.mathworks.com/matlabcentral/fileexchange/42684. Contact: [email protected] or [email protected] Supplementary information: Supplementary data are available at Bioinformatics online

The Imposition of White Beauty Standards on Black Women

This paper explores the impact of racist beauty ideals on black women through a survey of personal testimonies and an examination of media’s role in perpetrating white beauty. Without sufficient black representation in media, Western beauty standards have excluded black women from defining beauty, which inflicts psychological, physical, and even economic harm on women of color. Companies make profits off of black women’s insecurity from products such as skin lightening cream, chemical straighteners, and hair dye, all of which are an economic burden on black women at best and are life-threatening at worst. Often, black women are forced to turn to conforming to these harmful white beauty standards in order to be taken seriously at the workplace, as whites have controlled the narrative over “professional” hairstyles and clothes. Much of these ideals stem from media, and in a world where media is largely produced for the white heterosexual male gaze, the solution is to ensure that black women have a creative space in filmmaking and other media production; however, with systemic biases plaguing the industry, black women are rarely in directorial positions with creative control

Reproduction in the Western Mud Snake, Farancia abacura reinwardtii (Serpentes: Colubridae), in Arkansas

The reproductive cycle of Farancia abacura reinwardtii was studied using samples of snakes collected throughout Arkansas from 1985 to 1991 ;museum specimens were also examined. The right testis of 22 males was examined by light microscopy. Histological analysis of the testis indicated a postnuptial spermatogenic cycle. Testicular recrudescence begins in late May with sperm production peaking in late summer; sperm over winter in the ductus deferens. Ovarian follicles of 22 females were measured and counted; two follicular sizes were noted. In those undergoing primary vitellogenesis, a maximum size of 6.5 mm was reached; those exhibiting secondary vitellogenesis ranged in size from 12 to 21 mm. Average clutch size in females with follicles over 10 mm was 14.6 (n=6). Oviductal eggs were observed in a single female in early September. Female F. abacura require at least 2.5 years to become sexually mature. Follicular growth is slow over the first two years but increases dramatically during the spring of the third year

Genetic determinants of metabolism in health and disease: from biochemical genetics to genome-wide associations

Increasingly sophisticated measurement technologies have allowed the fields of metabolomics and genomics to identify, in parallel, risk factors of disease; predict drug metabolism; and study metabolic and genetic diversity in large human populations. Yet the complementarity of these fields and the utility of studying genes and metabolites together is belied by the frequent separate, parallel applications of genomic and metabolomic analysis. Early attempts at identifying co-variation and interaction between genetic variants and downstream metabolic changes, including metabolic profiling of human Mendelian diseases and quantitative trait locus mapping of individual metabolite concentrations, have recently been extended by new experimental designs that search for a large number of gene-metabolite associations. These approaches, including metabolomic quantitiative trait locus mapping and metabolomic genome-wide association studies, involve the concurrent collection of both genomic and metabolomic data and a subsequent search for statistical associations between genetic polymorphisms and metabolite concentrations across a broad range of genes and metabolites. These new data-fusion techniques will have important consequences in functional genomics, microbial metagenomics and disease modeling, the early results and implications of which are reviewed

Variations in Arterial Blood Pressure after Kidney Transplantation

The course of hypertension within the first 2 months after kidney transplantation was correlated with renal function, plasma renin activity (PRA), and the daily maintenance dose of prednisone in 18 homograft recipients. During acute rejection blood pressure (BP) closely correlated with PRA. Patients with normal homograft function showed an increase in BP early after transplantation which in most returned to normal 3-8 weeks later. In the latter group no correlation could be found between the level of BP and PRA, however the BP correlated closely with the dose of prednisone. These observations suggest that during acute rejection the increase in BP may at least partly be mediated by a renal pressor mechanism, whereas with normal renal function the high dose of glucocorticoids may play an important role in the development of hypertension.</jats:p

Combination Treatment with High-Dose Vitamin C and Alpha-Tocopherol does not Enhance Respiratory-Tract Lining Fluid Vitamin C Levels in Asthmatics

Oxidative stress plays a significant role in allergic airway inflammation. Supplementation with alpha-tocopherol (alone or combined with ascorbate/vitamin C) has been assessed as an intervention for allergic airway diseases with conflicting results. Enhancing levels of airway antioxidants with oral supplements has been suggested as an intervention to protect individuals from the effect of inhaled oxidants, although it is unclear whether supplementation changes tocopherol or vitamin C levels in both serum and airway fluids. Our objective was to obtain pilot safety and dosing data from 14 allergic asthmatic volunteers examining the effect of daily combination oral therapy with 500 mg alpha-tocopherol (αT) and 2 g vitamin C for 12 wk. We examined serum and airway fluid and cellular levels of alpha- and gamma-tocopherol (γT) and vitamin C to plan for future studies of these agents in asthma and allergic rhinitis. Six volunteers completed 12 wk of active treatment with αT and vitamin C and 8 completed placebo. Blood and sputum samples were obtained at baseline and at 6 wk and 12 wk of therapy and were analyzed for αT, γT, and vitamin C levels in the serum, sputum supernatant, and sputum cells. Combination treatment increased serum vitamin C and significantly decreased sputum αT and serum γT levels. No changes were found in sputum supernatant or sputum cell vitamin C or serum αT levels in the active treatment group. In conclusion, supplementation with αT and high-dose vitamin C does not augment vitamin C levels in the respiratory-tract lining fluid

EXPLORING THE ROLE OF OSPREYS IN EDUCATION

Recent research in childhood education has demonstrated that experiences in nature are important in shaping early environmental consciousness (Hinds and Sparks 2008, Hussar and Horvath 2011, Cheng and Monroe 2012) and ultimately the expression of pro-environmental attitudes and behaviors during adulthood (Wells and Lekies 2006, Chawla and Cushing 2007, Collado et al. 2013). Increasingly, those experiences happen via written and electronic media (e.g., textbooks, computer screens) or in very anthropogenic environments (e.g., in parks and zoos) and less through direct contact with nature, a concept Louv (2005) referred to as ‘‘nature deficit disorder.’’ Even in schools where environmental education is prioritized, the extent of access to outdoor classroom activities or experiential learning opportunities can limit the degree to which children can observe, explore, and directly experience the natural world (Hudson 2001, Louv 2005, Ernst 2009). Interestingly, the same information technologies that might serve to limit contact with nature also have the potential to enhance and encourage interest and concern for the natural world (Blewitt 2011, Pearson et al. 2011). We believe this is an important paradox that warrants much further exploration and evaluation within educational and scientific communities

Hypericum perforatum plant cells reduce Agrobacterium viability during co-cultivation

Plant recalcitrance is the major barrier in developing Agrobacterium-mediated transformation protocols for several important plant species. Despite the substantial knowledge of T-DNA transfer process, very little is known about the factors leading to the plant recalcitrance. Here, we analyzed the basis of Hypericum perforatum L. (HP) recalcitrance to Agrobacterium-mediated transformation using cell suspension culture. When challenged with Agrobacterium, HP cells swiftly produced an intense oxidative burst, a typical reaction of plant defense. Agrobacterium viability started to decline and reached 99% mortality within 12 h, while the plant cells did not suffer apoptotic process. This is the first evidence showing that the reduction of Agrobacterium viability during co-cultivation with recalcitrant plant cells can affect transformation

TNPO2 variants associate with human developmental delays, neurologic deficits, and dysmorphic features and alter TNPO2 activity in Drosophila

Transportin-2 (TNPO2) mediates multiple pathways including non-classical nucleocytoplasmic shuttling of >60 cargoes, such as developmental and neuronal proteins. We identified 15 individuals carrying de novo coding variants in TNPO2 who presented with global developmental delay (GDD), dysmorphic features, ophthalmologic abnormalities, and neurological features. To assess the nature of these variants, functional studies were performed in Drosophila. We found that fly dTnpo (orthologous to TNPO2) is expressed in a subset of neurons. dTnpo is critical for neuronal maintenance and function as downregulating dTnpo in mature neurons using RNAi disrupts neuronal activity and survival. Altering the activity and expression of dTnpo using mutant alleles or RNAi causes developmental defects, including eye and wing deformities and lethality. These effects are dosage dependent as more severe phenotypes are associated with stronger dTnpo loss. Interestingly, similar phenotypes are observed with dTnpo upregulation and ectopic expression of TNPO2, showing that loss and gain of Transportin activity causes developmental defects. Further, proband-associated variants can cause more or less severe developmental abnormalities compared to wild-type TNPO2 when ectopically expressed. The impact of the variants tested seems to correlate with their position within the protein. Specifically, those that fall within the RAN binding domain cause more severe toxicity and those in the acidic loop are less toxic. Variants within the cargo binding domain show tissue-dependent effects. In summary, dTnpo is an essential gene in flies during development and in neurons. Further, proband-associated de novo variants within TNPO2 disrupt the function of the encoded protein. Hence, TNPO2 variants are causative for neurodevelopmental abnormalities