Auxin — Calcium Interaction in Adventitious Root Formation in the Hypocotyl Explants of Sunflower (Helianthus annuus L.)

Auxin-calcium interaction has been studied to understand their involvement in adventitious root initiation from the hypocotyl explants of sunflower (Helianthus annuus L.). When hypocotyl explants were cultured on MS medium (containing calcium), 1 mg l^-1 IAA was found to be optimal for root induction. However, the hypocotyl explants washed in EGTA (10_-5M) solution for the removal of extracellular calcium, when cultured on medium containing IAA and calcium, exhibited enhanced rooting response. When EGTA-washed explants were cultured on the medium supplemented with lanthanum chloride (10^-6 and 10^-5M), it resulted in the inhibition of the rooting response and this inhibitory effect could be alleviated by the simultaneous addition of IAA. Similar observations have been made by using calcium channel blockers, verapamil and TMB-8, and also a calmodulin inhibitor, trifluoperazine. A net influx of extracellular calcium in the differentiating cells is thus presumed to accompany the auxin-induced response. These results have been discussed in light of initial lack of polarity in the decapitated hypocotyl segments subjected to auxin treatment.     

Studying vertical dependence to improve NFS performance in wireless networks

Wireless networks experience a high level of errors and losses. These physical layer characteristics have an impact on the performance of the higher layers. In addition, the performance of each protocol layer is contingent on the behavior of the other layers. Vertical dependency is a term which describes this inter-dependence between layers. In the wireless and mobile environment, the effects of vertical dependence are particularly pronounced due to the dynamic nature of the environment and due to the fact that traditional assumptions about protocol layer interactions do not always hold. In this paper, we consider the vertical dependencies between various layers in the protocol stack, studying the performance of the Network File System under various error models and improvement techniques. Our experimental results demonstrate the dependency of the application performance on the details of the error characteristics and other protocol layers. After studying the vertical dependencies, we improve NFS performance by implementing changes to the application level reliability mechanisms. Understanding of the vertical dependencies enables development of effective methods for performance enhancement and efficient reaction to errors and changes on the wireless media. This revised version was published online in August 2006 with corrections to the Cover Date.     

Proteomic analysis of oil body membrane proteins accompanying the onset of desiccation phase during sunflower seed development

A noteworthy metabolic signature accompanying oil body (OB) biogenesis during oilseed development is associated with the modulation of the oil body membranes proteins. Present work focuses on 2-dimensional polyacrylamide gel electrophoresis (2-D PAGE)-based analysis of the temporal changes in the OB membrane proteins analyzed by LC-MS/MS accompanying the onset of desiccation (20–30 d after anthesis; DAA) in the developing seeds of sunflower (Helianthus annuus L.). Protein spots unique to 20–30 DAA stages were picked up from 2-D gels for identification and the identified proteins were categorized into 7 functional classes. These include proteins involved in energy metabolism, reactive oxygen scavenging, proteolysis and protein turnover, signaling, oleosin and oil body biogenesis-associated proteins, desiccation and cytoskeleton. At 30 DAA stage, exclusive expressions of enzymes belonging to energy metabolism, desiccation and cytoskeleton were evident which indicated an increase in the metabolic and enzymatic activity in the cells at this stage of seed development (seed filling). Increased expression of cruciferina-like protein and dehydrin at 30 DAA stage marks the onset of desiccation. The data has been analyzed and discussed to highlight desiccation stage-associated metabolic events during oilseed development.     

Location Contexts of User Check-Ins to Model Urban Geo Life-Style Patterns

Geo-location data from social media offers us information, in new ways, to understand people''s attitudes and interests through their activity choices. In this paper, we explore the idea of inferring individual life-style patterns from activity-location choices revealed in social media. We present a model to understand life-style patterns using the contextual information (e. g. location categories) of user check-ins. Probabilistic topic models are developed to infer individual geo life-style patterns from two perspectives: i) to characterize the patterns of user interests to different types of places and ii) to characterize the patterns of user visits to different neighborhoods. The method is applied to a dataset of Foursquare check-ins of the users from New York City. The co-existence of several location contexts and the corresponding probabilities in a given pattern provide useful information about user interests and choices. It is found that geo life-style patterns have similar items—either nearby neighborhoods or similar location categories. The semantic and geographic proximity of the items in a pattern reflects the hidden regularity in user preferences and location choice behavior.     

Transcriptomic Identification of ADH1B as a Novel Candidate Gene for Obesity and Insulin Resistance in Human Adipose Tissue in Mexican Americans from the Veterans Administration Genetic Epidemiology Study (VAGES)

Type 2 diabetes (T2D) is a complex metabolic disease that is more prevalent in ethnic groups such as Mexican Americans, and is strongly associated with the risk factors obesity and insulin resistance. The goal of this study was to perform whole genome gene expression profiling in adipose tissue to detect common patterns of gene regulation associated with obesity and insulin resistance. We used phenotypic and genotypic data from 308 Mexican American participants from the Veterans Administration Genetic Epidemiology Study (VAGES). Basal fasting RNA was extracted from adipose tissue biopsies from a subset of 75 unrelated individuals, and gene expression data generated on the Illumina BeadArray platform. The number of gene probes with significant expression above baseline was approximately 31,000. We performed multiple regression analysis of all probes with 15 metabolic traits. Adipose tissue had 3,012 genes significantly associated with the traits of interest (false discovery rate, FDR ≤ 0.05). The significance of gene expression changes was used to select 52 genes with significant (FDR ≤ 10^-4) gene expression changes across multiple traits. Gene sets/Pathways analysis identified one gene, alcohol dehydrogenase 1B (ADH1B) that was significantly enriched (P < 10^-60) as a prime candidate for involvement in multiple relevant metabolic pathways. Illumina BeadChip derived ADH1B expression data was consistent with quantitative real time PCR data. We observed significant inverse correlations with waist circumference (2.8 x 10^-9), BMI (5.4 x 10^-6), and fasting plasma insulin (P < 0.001). These findings are consistent with a central role for ADH1B in obesity and insulin resistance and provide evidence for a novel genetic regulatory mechanism for human metabolic diseases related to these traits.     

Solvent specific persistence length of molecular type I collagen

Type I collagen is a fibril‐forming protein largely responsible for the mechanical stability of body tissues. The tissue level properties of collagen have been studied for decades, and an increasing number of studies have been performed at the fibril scale. However, the mechanical properties of collagen at the molecular scale are not well established. In the study presented herein, the persistence length of pepsin digested bovine type I collagen is extracted from the conformations assumed when deposited from solution onto two‐dimensional surfaces. This persistence length is a measure of the flexibility of the molecule. Comparison of the results for molecules deposited from different solvents allows for the study of the effect of the solutions on the flexibility of the molecule and provides insight into the molecule's behavior in situ. © 2013 Wiley Periodicals, Inc. Biopolymers 101: 329–335, 2014.     

Statistical optimization of <Emphasis Type="Italic">Bacillus alcalophilus</Emphasis> α-amylase immobilization on iron-oxide magnetic nanoparticles

We report the statistical optimization of the immobilization of alkaline α-amylase [E.C. 3.2.1.1] from Bacillus alcalophilus onto nano-sized supermagnetic ironoxide nanoparticles (MNPs) for augmenting the cost effective industrial application of MNP-bound α-amylase. Both Plackett-Burman factorial design and response surface methodology (RSM) were employed to screen the influence of different parameters and the central effect of response on the α-amylase-iron oxide MNP binding process. The high coefficient of determination (R2) and analysis of variance (ANOVA) of the quadratic model indicated the competence of the proposed model. The size of the MNPs was confirmed by X-ray diffraction and scanning electron microscope analyses in which Fourier transform infrared spectroscopy suggested immobilization of the enzyme on iron-oxide MNPs. A significant improvement (∼ 26-fold) in specific activity, thermal and storage stability, and reusability of α-amylase after binding with iron-oxide MNP reinforced the improved biotechnological potential of the α-amylase iron-oxide MNP bioconjugate compared to free α-amylase. These results open new avenues for applying this MNP immobilized enzyme in different industrial sectors, notably in the paper and brewing industries.     

Evaluation of diverse soybean germplasm for root growth and architecture

Root characteristics of soybean (Glycine max (L.) Merr.) improve drought avoidance by increasing water uptake from the soil profile. Screening genotypes for improved root architecture without breaking the taproots or losing lateral roots is a challenge. Due to difficulty in separating roots from field or potting soil, a rapid and effective screening method with a suitable growth medium to assess root characteristics under controlled conditions needs to be established. We describe two screening techniques “the cone system” and “the tube system” using turface:sand medium. In the cone system thirty four soybean lines including cultivars and exotic plant introduction (PI) lines were evaluated for tap root length and root biomass, 12 days after sowing. Eight replications per line were grown in a growth chamber. Significant differences among genotypes for tap root length were detected by the cone system. Validity of results from the cone system was tested by evaluating root growth 21 days after planting for eight lines in the tube system. A coefficient of determination of 0.72 indicated good agreement between the two screening systems for evaluating genotypes for rooting depth. The cone system will be a useful method to easily and rapidly assess soybean genotypes for root growth.