Phyto-mellitus: A phyto-chemical database for diabetes

Herbs are the base used for treatment in Ayurveda. We describe a database named Phyto-Mellitus with information on plants traditionally used for diabetes with their chemical constituents. The active principles of these plants are antioxidant and free radical scavenging.

Availability

http://www.bicmlacw.org/bt/     

Edge Detection in Landing Budgerigars (Melopsittacus undulatus)

Background

While considerable scientific effort has been devoted to studying how birds navigate over long distances, relatively little is known about how targets are detected, obstacles are avoided and smooth landings are orchestrated. Here we examine how visual features in the environment, such as contrasting edges, determine where a bird will land.

Methodology/Principal Findings

Landing in budgerigars (Melopsittacus undulatus) was investigated by training them to fly from a perch to a feeder, and video-filming their landings. The feeder was placed on a grey disc that produced a contrasting edge against a uniformly blue background. We found that the birds tended to land primarily at the edge of the disc and walk to the feeder, even though the feeder was in the middle of the disc. This suggests that the birds were using the visual contrast at the boundary of the disc to target their landings. When the grey level of the disc was varied systematically, whilst keeping the blue background constant, there was one intermediate grey level at which the budgerigar''s preference for the disc boundary disappeared. The budgerigars then landed randomly all over the test surface. Even though this disc is (for humans) clearly distinguishable from the blue background, it offers very little contrast against the background, in the red and green regions of the spectrum.

Conclusions

We conclude that budgerigars use visual edges to target and guide landings. Calculations of photoreceptor excitation reveal that edge detection in landing budgerigars is performed by a color-blind luminance channel that sums the signals from the red and green photoreceptors, or, alternatively, receives input from the red double-cones. This finding has close parallels to vision in honeybees and primates, where edge detection and motion perception are also largely color-blind.     

Utility of Childhood BMI in the Prediction of Adulthood Disease: Comparison of National and International References

Objective: To determine whether the U.S. Centers for Disease Control and Prevention (CDC; CDC Reference) or International Obesity Task Force (IOTF; IOTF Reference) BMI cut‐off points for classifying adiposity status in children are more effective at predicting future health risk. Research Methods and Procedures: The sample (N = 1709) included 4‐ to 15‐year‐old (at baseline) boys and girls from the Bogalusa Heart Study. Overweight and obesity status were determined using both the CDC Reference and IOTF Reference BMI cut‐off points at baseline. The ability of childhood overweight and obesity, determined from the two BMI classification systems, to predict obesity and metabolic disorders in young adulthood (after a 13‐ to 24‐year follow‐up) was then compared. Results: Independently of the classification system employed to determine adiposity based on childhood BMI, the odds of being obese and having all of the metabolic disorders in young adulthood were significantly (p < 0.05) higher in the overweight and obese groups by comparison with the nonoverweight groups. Childhood overweight and obesity, determined by both the CDC Reference and IOTF Reference, had a low sensitivity and a high specificity for predicting obesity and metabolic disorders in young adulthood. Overweight and obesity as determined by the CDC Reference were slightly more sensitive and slightly less specific than the corresponding values based on the IOTF Reference. Discussion: Overweight and obesity during childhood, as determined by both the CDC and IOTF BMI cut‐off points, are strong predictors of obesity and coronary heart disease risk factors in young adulthood. The differences in the predictive capacity of the CDC Reference and IOTF Reference are, however, minimal.     

<Emphasis Type="Italic">Tessaracoccus defluvii</Emphasis> sp. nov., isolated from an aeration tank of a sewage treatment plant

A Gram-positive, non-motile, aerobic, coccus-shaped bacterium, designated strain LNB-140^T, was isolated from a sewage treatment plant in the Republic of Korea and was characterised using a polyphasic taxonomic approach. Comparative 16S rRNA gene sequence analysis showed that strain LNB-140^T belongs to genus Tessaracoccus in the family Propionibacteriaceae of the phylum Actinobacteria. The 16S rRNA gene sequence similarities between strain LNB-140^T and type strains of the genus, Tessaracoccus flavescens SST-39^T and Tessaracoccus rhinocerotis YIM101269^T are 97.8 and 97.4 %, respectively. The chemotaxonomic properties of strain LNB-140^T are consistent with those of members of the genus Tessaracoccus: a quinone system with MK-9(H4) as the predominant menaquinone; anteiso-C_15:0 and iso C_15:0 as the predominant cellular fatty acids; and ll-2,6-diaminopimelic acid as the diagnostic peptidoglycan diamino acid. The major polar lipids were identified as diphosphatidylglycerol and phosphatidylethanolamine. The G+C content of the genomic DNA was determined to be 67.1 mol%. Differential phenotypic properties along with low DNA–DNA relatedness (<30 ± 3.2 %) with closely related type strains show that strain LNB-140^T is distinct from previously described members of the genus Tessaracoccus and represents a novel species in this genus, for which the name Tessaracoccus defluvii sp. nov. is proposed. The type strain is LNB-140^T (=KEMB 5401-076^T = JCM 17540^T).     

Best Practices for Mitigating Irreversible Capacity Loss of Negative Electrodes in Li‐Ion Batteries

Development of high performance lithium‐ion (Li‐ion) power packs is a topic receiving significant attention in research today. Future development of the Li‐ion power packs relies on the development of high capacity and high rate anodes. More specifically, materials undergo either conversion or an alloying mechanism with Li. However, irreversible capacity loss (ICL) is one of the prime issues for this type of negative electrode. Traditional insertion‐type materials also experience ICL, but it is considered negligible. Therefore, eliminating ICL is crucial before the fabrication of practical Li‐ion cells with conventional cathodes such as LiFePO₄, LiMn₂O₄, etc. There are numerous methods for eliminating ICL such as pre‐treating the electrode, usage of stabilized Li metal powder, chemical and electrochemical lithiation, sacrificial salts for both anode and cathode, etc. The research strategies that have been explored are reviewed here in regards to the elimination of ICL from the high capacity anodes as described. Additionally, mitigating ICL observed from the carbonaceous anodes is discussed and compared.     

Ammonia elicits a different myogenic response in avian and murine myotubes

Increased myostatin expression, resulting in muscle loss, has been associated with hyperammonemia in mammalian models of cirrhosis. However, there is evidence that hyperammonemia in avian embryos results in a reduction of myostatin expression, suggesting a proliferative myogenic environment. The present in vitro study examines species differences in myotube and liver cell response to ammonia using avian and murine-derived cells. Primary myoblasts and liver cells were isolated from embryonic day 15 and 17 chick embryos to be compared with mouse myoblasts (C2C12) and liver (AML12) cells. Cells were exposed to varying concentrations of ammonium acetate (AA; 2.5, 5, or 10 mM) to determine the effects of ammonia on the cells. Relative expression of myostatin mRNA, determined by quantitative real-time PCR, was significantly increased in AA (10 mM) treated C2C12 myotubes compared to both ages of chick embryonic myotube cultures after 48 h (P < 0.02). Western blot analysis of myostatin protein confirmed an increase in myostatin expression in AA-treated C2C12 myotubes compared to the sodium acetate (SA) controls, while myostatin expression was decreased in the chick embryonic myotube cultures when treated with AA. Myotube diameter was significantly decreased in AA-treated C2C12 myotubes compared to controls, while avian myotube diameter increased with AA treatment (P < 0.001). There were no significant differences between avian and murine liver cell viability, assessed using 2′, 7′- bis-(2-carboxyethyl)-5-(and-6-)-carboxyfluorescein, acetoxymethyl ester, when treated with AA. However, after 24 h, AA-treated avian myotubes showed a significant increase in cell viability compared to the C2C12 myotubes (P < 0.05). Overall, it appears that there is a positive myogenic response to hyperammonemia in avian myotubes compared to murine myotubes, which supports a proliferative myogenic environment.     

Resolving protein structure‐function‐binding site relationships from a binding site similarity network perspective

Functional annotation is seldom straightforward with complexities arising due to functional divergence in protein families or functional convergence between non‐homologous protein families, leading to mis‐annotations. An enzyme may contain multiple domains and not all domains may be involved in a given function, adding to the complexity in function annotation. To address this, we use binding site information from bound cognate ligands and catalytic residues, since it can help in resolving fold‐function relationships at a finer level and with higher confidence. A comprehensive database of 2,020 fold‐function‐binding site relationships has been systematically generated. A network‐based approach is employed to capture the complexity in these relationships, from which different types of associations are deciphered, that identify versatile protein folds performing diverse functions, same function associated with multiple folds and one‐to‐one relationships. Binding site similarity networks integrated with fold, function, and ligand similarity information are generated to understand the depth of these relationships. Apart from the observed continuity in the functional site space, network properties of these revealed versatile families with topologically different or dissimilar binding sites and structural families that perform very similar functions. As a case study, subtle changes in the active site of a set of evolutionarily related superfamilies are studied using these networks. Tracing of such similarities in evolutionarily related proteins provide clues into the transition and evolution of protein functions. Insights from this study will be helpful in accurate and reliable functional annotations of uncharacterized proteins, poly‐pharmacology, and designing enzymes with new functional capabilities. Proteins 2017; 85:1319–1335. © 2017 Wiley Periodicals, Inc.