Differentiation of Boc‐protected α,δ‐/δ,α‐ and β,δ‐/δ,β‐hybrid peptide positional isomers by electrospray ionization tandem mass spectrometry

Two new series of Boc‐N‐α,δ‐/δ,α‐ and β,δ‐/δ,β‐hybrid peptides containing repeats of L ‐Ala‐δ⁵‐Caa/δ⁵‐Caa‐L ‐Ala and β³‐Caa‐δ⁵‐Caa/δ⁵‐Caa‐β³‐Caa (L ‐Ala = L ‐alanine, Caa = C‐linked carbo amino acid derived from D ‐xylose) have been differentiated by both positive and negative ion electrospray ionization (ESI) ion trap tandem mass spectrometry (MS/MS). MSⁿ spectra of protonated isomeric peptides produce characteristic fragmentation involving the peptide backbone, the Boc‐group, and the side chain. The dipeptide positional isomers are differentiated by the collision‐induced dissociation (CID) of the protonated peptides. The loss of 2‐methylprop‐1‐ene is more pronounced for Boc‐NH‐L ‐Ala‐δ‐Caa‐OCH₃ (1), whereas it is totally absent for its positional isomer Boc‐NH‐δ‐Caa‐L ‐Ala‐OCH₃ (7), instead it shows significant loss of t‐butanol. On the other hand, second isomeric pair shows significant loss of t‐butanol and loss of acetone for Boc‐NH‐δ‐Caa‐β‐Caa‐OCH₃ (18), whereas these are insignificant for its positional isomer Boc‐NH‐β‐Caa‐δ‐Caa‐OCH₃ (13). The tetra‐ and hexapeptide positional isomers also show significant differences in MS² and MS³ CID spectra. It is observed that ‘b’ ions are abundant when oxazolone structures are formed through five‐membered cyclic transition state and cyclization process for larger ‘b’ ions led to its insignificant abundance. However, b₁⁺ ion is formed in case of δ,α‐dipeptide that may have a six‐membered substituted piperidone ion structure. Furthermore, ESI negative ion MS/MS has also been found to be useful for differentiating these isomeric peptide acids. Thus, the results of MS/MS of pairs of di‐, tetra‐, and hexapeptide positional isomers provide peptide sequencing information and distinguish the positional isomers. Copyright © 2010 John Wiley & Sons, Ltd.     

Sugarcane proteomics: Establishment of a protein extraction method for 2‐DE in stalk tissues and initiation of sugarcane proteome reference map

Sugarcane is an important commercial crop cultivated for its stalks and sugar is a prized commodity essential in human nutrition. Proteomics of sugarcane is in its infancy, especially when dealing with the stalk tissues, where there is no study to date. A systematic proteome analysis of stalk tissue yet remains to be investigated in sugarcane, wherein the stalk tissue is well known for its rigidity, fibrous nature, and the presence of oxidative enzymes, phenolic compounds and extreme levels of carbohydrates, thus making the protein extraction complicated. Here, we evaluated five different protein extraction methods in sugarcane stalk tissues. These methods are as follows: direct extraction using lysis buffer (LB), TCA/acetone precipitation followed by solubilization in LB, LB containing thiourea (LBT), and LBT containing tris, and phenol extraction. Both quantitative and qualitative protein analyses were performed for each method. 2‐DE analysis of extracted total proteins revealed distinct differences in protein patterns among the methods, which might be due to their physicochemical limitations. Based on the 2‐D gel protein profiles, TCA/acetone precipitation‐LBT and phenol extraction methods showed good results. The phenol method showed a shift in pI values of proteins on 2‐D gel, which was mostly overcome by the use of 2‐D cleanup kit after protein extraction. Among all the methods tested, 2‐D cleanup‐phenol method was found to be the most suitable for producing high number of good‐quality spots and reproducibility. In total, 30 and 12 protein spots commonly present in LB, LBT and phenol methods, and LBT method were selected and subjected to eLD‐IT‐TOF‐MS/MS and nESI‐LC‐MS/MS analyses, respectively, and a reference map has been established for sugarcane stalk tissue proteome. A total of 36 nonredundant proteins were identified. This is a very first basic study on sugarcane stalk proteome analysis and will promote the unexplored areas of sugarcane proteome research.     

An efficient sonochemical oxidation of benzyl alcohols into benzaldehydes by FeCl3/HNO3 in acetone

Sonochemical oxidation of benzyl alcohols into corresponding aldehydes by FeCl(3)/HNO(3) in acetone at room temperature has been reported. All substrates give good yield of the products within 10-25 min. The reaction of selected substrates were also studied under reflux and at the room temperature. Further, various Lewis acids were used to evaluate their catalytic efficacy.     

Refractive index, birefringence, third-order non-linearity and piezoelectric resonance studies of L-lysine monohydrochloride dihydrate single crystals

The principal refractive indices of L-lysine monohydrochloride dihydrate (L-LMHCl) single crystal for different wavelengths were measured by minimum deviation method at room temperature. The experimental values of refractive indices fit well with the theoretical Cauchy's equations. The birefringence and the crossing angle between the optical axes were calculated. The parameters of Sellmeier's single term dispersion equation were determined by least square method. A simple interferometric technique was used to observe the interference patterns along the optic plane and to qualitatively analyze the optical homogeneity of the grown crystal. The nonlinear refractive index (n₂) and nonlinear absorption coefficient (β) were also determined using Z-scan technique. The piezoelectric resonance in dielectric dispersions was observed at room temperature.     

Thermo and photoluminescence properties of Eu activated hexagonal, monoclinic and cubic gadolinium oxide nanorods

Different phases of Eu³⁺ activated gadolinium oxide (Gd (OH)₃, GdOOH and Gd₂O₃) nanorods have been prepared by the hydrothermal method with and without cityl trimethyl ammonium bromide (CTAB) surfactant. Cubic Gd₂O₃:Eu (8 mol%) red phosphor has been prepared by the dehydration of corresponding hydroxide Gd(OH)₃:Eu after calcinations at 350 and 600 °C for 3 h, respectively. When Eu³⁺ ions were introduced into Gd(OH)₃, lattice sites which replace the original Gd³⁺ ions, a strong red emission centered at 613 nm has been observed upon UV illumination, due to the intrinsic Eu³⁺ transition between ⁵D₀ and ⁷F configurations. Thermoluminescence glow curves of Gd (OH)₃: Eu and Gd₂O₃:Eu phosphors have been recorded by irradiating with gamma source (⁶⁰CO) in the dose range 10-60 Gy at a heating rate of 6.7 °C sec⁻¹. Well resolved glow peaks in the range 42-45, 67-76, 95-103 and 102-125 °C were observed. When γ-irradiation dose increased to 40 Gy, the glow peaks were reduced and with increase in γ-dose (50 and 60 Gy) results the shift in first two glow peak temperatures at about 20 °C and a new shouldered peak at 86 °C was observed. It is observed that there is a shift in glow peak temperatures and variation in intensity, which is mainly attributed to different phases of gadolinium oxide. The trapping parameters namely activation energy (E), order of kinetics (b) and frequency factor were calculated using peak shape and the results are discussed.     

Effect of dibutyl phthalate as plasticizer on high-molecular weight poly(vinyl chloride)–lithium tetraborate-based solid polymer electrolytes

A series of different composition of polymer electrolytes-based on poly(vinyl chloride) (PVC) as host polymer, lithium tetraborate (Li₂B₄O₇) as dopant salt, and dibutyl phthalate (DBP) as plasticizer were prepared by solution casting method. The interaction between the PVC, Li₂B₄O₇, and DBP were studied by Fourier transform infrared. The shifting, broadening, and splitting of transmission peaks were the evidences of complexation. The highest ionic conductivity polymer electrolyte of 2.83 × 10⁻⁶ S/cm was achieved at ambient temperature upon addition of 30 wt.% of DBP. In addition, the temperature-dependent conductivity, frequency-dependent conductivity, dielectric permittivity, and modulus studies were performed. The temperature-dependent conductivity of the polymer electrolytes was found to obey the Arrhenius behavior. The thermal stability of polymer electrolytes was verified by thermogravimetric analysis. The lower in glass transition temperature was proven in differential scanning calorimetry, whereas the higher amorphous region within the polymer matrix was demonstrated in X-ray diffraction.     

Investigation of dibutyl phthalate as plasticizer on poly(methyl methacrylate)–lithium tetraborate based polymer electrolytes

Polymer electrolyte membranes, comprising of poly(methyl methacrylate) (PMMA), lithium tetraborate (Li₂B₄O₇) as salt and dibutyl phthalate (DBP) as plasticizer were prepared using a solution casting method. The incorporation of DBP enhanced the ionic conductivity of the polymer electrolyte. The polymer electrolyte containing 70 wt.% of poly(methyl methacrylate)–lithium tetraborate and 30 wt.% of DBP presents the highest ionic conductivity of 1.58 × 10⁻⁷ S/cm. The temperature dependence of ionic conductivity study showed that these polymer electrolytes obey Vogel–Tamman–Fulcher (VTF) type behaviour. Thermogravimetric analysis (TGA) was employed to analyse the thermal stability of the polymer electrolytes. Fourier transform infrared (FTIR) studies confirmed the complexation between poly(methyl methacrylate), lithium tetraborate and DBP.     

Optical and hydrophobic properties of co-sputtered chromium and titanium oxynitride films

The chromium and titanium oxynitride films on glass substrate were deposited by using reactive RF magnetron sputtering in the present work. The structural and optical properties of the chromium and titanium oxynitride films as a function of power variations are investigated. The chromium oxynitride films are crystalline even at low power of Cr target (≥60 W) but the titanium oxynitride films are amorphous at low target power of Ti target (≤90 W) as observed from glancing incidence X-ray diffraction (GIXRD) patterns. The residual stress and strain of the chromium oxynitride films are calculated by sin² ψ method, as the average crystallite size decreases with the increase in sputtering power of the Cr target, higher stress and strain values are observed. The chromium oxynitride films changes from hydrophilic to hydrophobic with the increase of contact angle value from 86.4° to 94.1°, but the deposited titanium oxynitride films are hydrophilic as observed from contact angle measurements. The changes in surface energy were calculated using contact angle measurements to substantiate the hydrophobic properties of the films. UV-vis and NIR spectrophotometer were used to obtain the transmission and absorption spectra, and the later was used for determining band gap values of the films, respectively. The refractive index of chromium and titanium oxynitride films increases with film packing density due to formation of crystalline chromium and titanium oxynitride films with the gradual rise in deposition rate as a result of increase in target powers.     

Almost Ricci solitons and K-contact geometry

We give a short Lie-derivative theoretic proof of the following recent result of Barros et al. “A compact non-trivial almost Ricci soliton with constant scalar curvature is gradient, and isometric to a Euclidean sphere”. Next, we obtain the result: a complete almost Ricci soliton whose metric \(g\) is \(K\) -contact and flow vector field \(X\) is contact, becomes a Ricci soliton with constant scalar curvature. In particular, for \(X\) strict, \(g\) becomes compact Sasakian Einstein.     

Almost Contact Lagrangian Submanifolds of Nearly Kaehler 6-Sphere

For a Lagrangian submanifold M of S ⁶ with nearly Kaehler structure, we provide conditions for a canonically induced almost contact metric structure on M by a unit vector field, to be Sasakian. Assuming M contact metric, we show that it is Sasakian if and only if the second fundamental form annihilates the Reeb vector field ξ, furthermore, if the Sasakian submanifold M is parallel along ξ, then it is the totally geodesic 3-sphere. We conclude with a condition that reduces the normal canonical almost contact metric structure on M to Sasakian or cosymplectic structure.