Formation and Structure of Fluorescent Silver Nanoclusters at Interfacial Binding Sites Facilitating Oligomerization of DNA Hairpins

Fluorescent, DNA‐stabilized silver nanoclusters (DNA‐AgNCs) are applied in a range of applications within nanoscience and nanotechnology. However, their diverse optical properties, mechanism of formation, and aspects of their composition remain unexplored, making the rational design of nanocluster probes challenging. Herein, a synthetic procedure is described for obtaining a high yield of emissive DNA‐AgNCs with a C‐loop hairpin DNA sequence, with subsequent purification by size‐exclusion chromatography (SEC). Through a combination of optical spectroscopy, gel electrophoresis, inductively coupled plasma mass spectrometry (ICP‐MS), and small‐angle X‐ray scattering (SAXS) in conjunction with the systematic study of various DNA sequences, the low‐resolution structure and mechanism of the formation of AgNCs were investigated. Data indicate that fluorescent DNA‐AgNCs self‐assemble by a head‐to‐head binding of two DNA hairpins, bridged by a silver nanocluster, resulting in the modelling of a dimeric structure harboring an Ag₁₂ cluster.     

Determination of peptide backbone torsion angles using double-quantum dipolar recoupling solid-state NMR spectroscopy

Several approaches for utilizing dipolar recoupling solid-state NMR (ssNMR) techniques to determine local structure at high resolution in peptides and proteins have been developed. However, many of these techniques measure only one torsion angle or are accurate for only certain classes of secondary structure. Additionally, the efficiency with which these dipolar recoupling experiments suppress the deleterious effects of chemical shift anisotropy (CSA) at high magnetic field strengths varies. Dipolar recoupling with a windowless sequence (DRAWS) has proven to be an effective pulse sequence for exciting double-quantum (DQ) coherences between adjacent carbonyl carbons along the peptide backbone. By allowing this DQ coherence to evolve, it is possible to measure the relative orientations of the CSA tensors and subsequently use this information to determine the Ramachandran torsion angles phi and psi. Here, we explore the accuracies of the assumptions made in interpreting DQ-DRAWS data and demonstrate their fidelity in measuring torsion angles corresponding to a variety of secondary structures irrespective of hydrogen-bonding patterns. It is shown how a simple choice of isotopic labels and experimental conditions allows accurate measurement of backbone secondary structures without any prior knowledge. This approach is considerably more sensitive for determining structure in helices and has comparable accuracy for beta-sheet and extended conformations relative to other methods. We also illustrate the ability of DQ-DRAWS to distinguish between structures in heterogeneous samples.     

A Rapid and Simple UPLC-MS–MS based Simultaneous Determination of the Medicinally Important E- and Z-Guggulsterone from Oleogum-Resins of Naturally Occurring Commiphora wightii Plants

A fast and simple method for simultaneous detection and quantification of the medicinally important E- and Z-guggulsterone from raw oleogum-resin of Commiphora wightii by UPLC was developed. Both E- and Z-guggulsterone were extracted from naturally occurring resin samples using ethyl acetate and methanol. Chromatographic separation of the analytes and their respective standards were performed on an Acquity UPLC BEH C₁₈ column followed by UV as well as a triple quadrupole detector in positive ionization mode. A linear gradient elution profile followed; mobile phase consisted of acetonitrile and 2 mM ammonium acetate in water. The method was validated over a range of 6.25 to 100 ng mL⁻¹ for both the guggulsterones. The calibration curves were linear with correlation coefficients of 0.9998 for E-guggulsterone and 0.9999 for Z-guggulsterone. The LOD and LOQ were 1.65 and 5.02 ng mL⁻¹ for E-guggulsterone and 2.57 and 7.79 ng mL⁻¹ for Z-guggulsterone respectively. The average recovery of E-guggulsterone (104.63%) and Z-guggulsterone (104.33%) achieved from spiked samples were consistent and reproducible. The intra- and inter-day assay precision of the analytes over the entire concentration range was less than 2%. The developed method required only 6 min to complete a run including 1 min to equilibrate the system and hence suitable for high throughput applications. Efficiency, reliability and accuracy of the developed method were evaluated by analyzing resin sample from different C. wightii populations. The result of this study offers improvement in terms of speed and sensitivity as compared to previously reported methods.

     

Comparative Pharmacokinetics Profile of Vasa Swaras with Vasicine and Vasicinone

An RP-LC method was developed and validated for comparing the pharmacokinetics profile of Vasa Swaras (leaf juice of Adhatoda vasica Nees., Fam. Acanthaceae) with that of the pure vasicine and vasicinone (chief marker compounds of A. vasica) upon oral administration of Vasa Swaras in rats, and also in different animal groups. Significant difference with p < 0.05 was found in the oral bioavailability of vasicine and vasicinone when administered as Vasa Swaras and as single vasicine and/or vasicinone. Vasicine and vasicinone were found to be more bioavailable from Vasa Swaras than pure vasicine and/or vasicinone.     

GPU‐accelerated direct numerical simulations of decaying compressible turbulence employing a GKM‐based solver

Gas Kinetic Method‐based flow solvers have become popular in recent years owing to their robustness in simulating high Mach number compressible flows. We evaluate the performance of the newly developed analytical gas kinetic method (AGKM) by Xuan et al. in performing direct numerical simulation of canonical compressible turbulent flow on graphical processing unit (GPU)s. We find that for a range of turbulent Mach numbers, AGKM results shows excellent agreement with high order accurate results obtained with traditional Navier–Stokes solvers in terms of key turbulence statistics. Further, AGKM is found to be more efficient as compared with the traditional gas kinetic method for GPU implementation. We present a brief overview of the optimizations performed on NVIDIA K20 GPU and show that GPU optimizations boost the speedup up‐to 40x as compared with single core CPU computations. Hence, AGKM can be used as an efficient method for performing fast and accurate direct numerical simulations of compressible turbulent flows on simple GPU‐based workstations. Copyright © 2016 John Wiley & Sons, Ltd.     

Experimental investigation into vortex structure and pressure drop across microcavities in 3D integrated electronics

Hydrodynamics in microcavities with cylindrical micropin fin arrays simulating a single layer of a water-cooled electronic chip stack is investigated experimentally. Both inline and staggered pin arrangements are investigated using pressure drop and microparticle image velocimetry (μPIV) measurements. The pressure drop across the cavity shows a flow transition at pin diameter–based Reynolds numbers (Re _d ) ~200. Instantaneous μPIV, performed using a pH-controlled high seeding density of tracer microspheres, helps visualize vortex structure unreported till date in microscale geometries. The post-transition flow field shows vortex shedding and flow impingement onto the pins explaining the pressure drop increase. The flow fluctuations start at the chip outlet and shift upstream with increasing Re _d . No fluctuations are observed for a cavity with pin height-to-diameter ratio h/d = 1 up to Re _d ~330; however, its pressure drop was higher than for a cavity with h/d = 2 due to pronounced influence of cavity walls.     

Size-dependent coalescence kernel in fertilizer granulation-A comparative study

Granulation is a key process in several industries like pharmaceutical, food, fertilizer, agrochemicals, etc. Population balance modeling has been used extensively for modeling agglomeration in many systems such as crystallization, aerosols, pelletisation, etc. The key parameter is the coalescence kernel, β（ij） which dictates the overall rate of coalescence as well as the effect of granule size on coalescence rate. Adetayo, Litster, Pratsinis, and Ennis （1995） studied fertilizer granulation with a broad size distribution and modeled it with a two-stage kernel. A constant kernel can be applied to those granules which coalesce successfully. The coalescence model gives conditions for two types of coalescence, Type I and II. A twostage kernel, which is necessary to model granule size distribution over a wide size distribution, is applied in the present fluidized bed spray granulation process. The first stage is size-independent and non-inertial regime, and is followed by a size-dependent stage in which collisions between particles are non-random, i.e. inertial regime. The present work is focused on the second stage kernel where the feed particles of volume i and j collide and form final granule ij instead of i ＋j （Adetayo et al., 1995） which gives a wider particle size distribution of granules than proposed earlier.     

Anomalous particle rotation and resulting microstructure of colloids in AC electric fields

We study the transition of ordered structures to disordered bands and vortices in colloidal suspensions subjected to AC electric fields. We map the critical frequencies and field biases at which particles form disordered bands and vortices. These results are interpreted based on the trajectory dynamics of particle pairs using blinking optical tweezers. Under conditions that vortices are observed, individual particle pairs rotate out of alignment with the field. The direction and magnitude of these interactions determine the orientation and average angular velocity of the band revolution. Increasing the frequency of the electric field reduces the anomalous rotation of the particles pairs, consistent with the frequency dependence of the suspension order-to-disorder transition. This anomalous rotation is consistent with a torque on doublets generated by the mutual polarization of particles and phase lag of the induced dipoles.