Phonon dispersion in polyinosinic acid

A study of the normal modes of vibration and their dispersion in polyinosinic acid [poly (I)] along the helix axis based on Urey-Bradley force field is reported. It leads to a better interpretation of Raman and FTIR spectra. A comparison of dispersion curves of poly (I) with poly (G) has been made. Characteristic features of dispersion curves, such as regions of high density-of-states, repulsion and character mixing are discussed. Predictive value of heat capacity as a function of temperature is reported.     

Morphological features and inheritance of Foliaceous Stipules of primary leaves in cowpea (Vigna unguiculata)

BACKGROUND AND AIMS: The presence of connate foliaceous stipules of primary leaves and their inheritance in cowpea (Vigna unguiculata) genotype EC394736 is reported for the first time. METHODS: The development of foliaceous stipules (FS) and their persistence were examined throughout the growth and developmental stages of the plants of the genotype EC394736. The shape, size, colour, texture and other parameters were examined in the field during the period 15-50 d after sowing. The area of FS was measured using image analysis software. The inheritance of FS was studied by making a cross between the genotype EC394763 with rudimentary stipules (RS) and the genotype EC394736, which has connate foliaceous stipules of primary leaves. The presence or absence of FS in plants of the F1, F2 and F3 generations was recorded. KEY RESULTS: The stipules developed along with the primary leaves in the genotype EC394736. One stipule of each primary leaf fused with the adjacent stipule of the other primary leaf forming a foliaceous structure. These stipules persisted on the plants for >50 d, even after the primary leaves had withered off. The F1 plants showed an absence of FS indicating the rudimentary stipules to be dominant over foliaceous stipules. The F2 segregation into 15 (RS) : 1 (FS) indicated that duplicate recessive genes controlled the presence of the FS. This was confirmed from the segregation pattern in the F3 generation. CONCLUSIONS: The presence of FS is a unique feature in cowpea genotype EC394736 and duplicate recessive genes govern it. The FS can be used as a morphological marker for identification of cowpea varieties.     

Comparative binding study of steroidal adenine with flavin and uracil derivatives

A comparative binding study of a steroidal adenine derivative based on lithocholic acid with N(10)-benzylisoalloxazine (flavin) and N(1)-iso-propyluracil has been described.     

3-Acyl-2,6-diaminopyridines as cyclin-dependent kinase inhibitors: synthesis and biological evaluation

A novel series of 2,6-diamino-3-acylpyridines were designed and synthesized as cyclin-dependent kinase (CDK) inhibitors. The representative compounds 2r and 11 showed potent CDK1 and CDK2 inhibitory activities and inhibited cellular proliferation in HeLa, HCT116, and A375 tumor cells.     

Plasma Proteome Database as a resource for proteomics research

Plasma is one of the best studied compartments in the human body and serves as an ideal body fluid for the diagnosis of diseases. This report provides a detailed functional annotation of all the plasma proteins identified to date. In all, gene products encoded by 3778 distinct genes were annotated based on proteins previously published in the literature as plasma proteins and the identification of multiple peptides from proteins under HUPO's Plasma Proteome Project. Our analysis revealed that 51% of these genes encoded more than one protein isoform. All single nucleotide polymorphisms involving protein-coding regions were mapped onto the protein sequences. We found a number of examples of isoform-specific subcellular localization as well as tissue expression. This database is an attempt at comprehensive annotation of a complex subproteome and is available on the web at http://www.plasmaproteomedatabase.org.     

Phosphotyrosine profiling of human cerebrospinal fluid

Background

Cerebrospinal fluid (CSF) is an important source of potential biomarkers that affect the brain. Biomarkers for neurodegenerative disorders are needed to assist in diagnosis, monitoring disease progression and evaluating efficacy of therapies. Recent studies have demonstrated the involvement of tyrosine kinases in neuronal cell death. Thus, neurodegeneration in the brain is related to altered tyrosine phosphorylation of proteins in the brain and identification of abnormally phosphorylated tyrosine peptides in CSF has the potential to ascertain candidate biomarkers for neurodegenerative disorders.

Methods

In this study, we used an antibody-based tyrosine phosphopeptide enrichment method coupled with high resolution Orbitrap Fusion Tribrid Lumos Fourier transform mass spectrometer to catalog tyrosine phosphorylated peptides from cerebrospinal fluid. The subset of identified tyrosine phosphorylated peptides was also validated using parallel reaction monitoring (PRM)-based targeted approach.

Results

To date, there are no published studies on global profiling of phosphotyrosine modifications of CSF proteins. We carried out phosphotyrosine profiling of CSF using an anti-phosphotyrosine antibody-based enrichment and analysis using high resolution Orbitrap Fusion Lumos mass spectrometer. We identified 111 phosphotyrosine peptides mapping to 66 proteins, which included 24 proteins which have not been identified in CSF previously. We then validated a set of 5 tyrosine phosphorylated peptides in an independent set of CSF samples from cognitively normal subjects, using a PRM-based targeted approach.

Conclusions

The findings from this deep phosphotyrosine profiling of CSF samples have the potential to identify novel disease-related phosphotyrosine-containing peptides in CSF.

     

Improved Absorbance and Near-Infrared Dispersion of AuGe Nanoparticles over Au Nanoparticles Prepared with Similar Thermal Annealing Environment

The difficulty in patterning the structures at sub-wavelength range leads to employ the bottom-up approach to form nanostructures of metals as well as dielectric components that disperse them in host media. The optical properties of nanoparticles are studied with UV-Vis 750 (lambda) NIR spectroscopy and fit with empirical relations. The refractive index is about the volume fraction of particles. The AuGe nanoparticles demonstrate improved absorbance, lower refractive index, and higher extinction than Au nanoparticles formed with similar thermal process. Surface plasmon resonance (SPR) phenomena are highly sensitive to the bonding between atoms, atomic structure, and the electronic configuration in atoms of the given material. If one takes into account the structure of materials, then the literature on eutectic alloys predicts that alloying gold with germanium (AuGe) with varying compositions will also change the x-ray diffraction peak positions of gold itself. The peak shift can be interpreted as the change in grain size or shift in grain boundaries implying a corresponding change in material’s atomic arrangement within lattice structure. As a result, there will be a change in the charge distribution of free electron cloud in original gold ultimately affecting a change in the plasmon resonance frequency and thereby modulating the various optical phenomena such as absorbance, reflectance, and refractive index. This alloying also brings a change in the dielectric constant of the material such that the plasmonic behavior may shift among different regions (UV, visible, NIR, MWIR, and LWIR). Metal semiconductor eutectic alloy which is widely popular as a soldering material would have scope in futuristic photonic applications due to its tuneable optical properties. In this work, we study the effects of Au and AuGe nanoparticle deposition on GaAs films grown by molecular beam epitaxy (MBE). Au and AuGe thin films (12-nm thick) were annealed in the temperature ranges of 400–800 and 300–700 °C, respectively, to form Au and AuGe nanoparticles. The formation of these nanoparticles was confirmed by scanning electron microscopy (SEM) measurements. Optical absorption spectroscopy measurements showed plasmon resonance peaks at around 670 and 535 nm for the AuGe-deposited 300 °C-annealed sample and Au-deposited 600 °C-annealed sample on sapphire, respectively, thereby confirming the plasmonic effect. Correlation of Raman spectroscopy measurement results with X-ray diffraction measurement results reveal that the transverse optical mode intensity and full width at half maximum of the GaAs (400) peak increased with an increase in annealing temperature, indicating degradation of the crystalline properties of GaAs film at higher annealing temperatures. The highest increments of the photoluminescence (PL) intensities in comparison to that of the bare GaAs film were observed to be 37 and 77% for the Au-deposited 600 °C-annealed and AuGe-deposited 300 °C-annealed samples, respectively. These enhancements of PL spectra are an indication of the significant scattering of photons by Au and AuGe nanoparticles, and they are attributed mainly to the contribution of the local surface plasmon resonance of these nanoparticles. A comparative analysis of PL enhancements revealed that AuGe nanoparticles induced a greater enhancement than Au nanoparticles. The calculated activation energies of the Au-deposited 600 °C-annealed sample, AuGe-deposited 300 °C-annealed sample, and bare GaAs sample were around 18, 24, and 33 meV, respectively. We found one-order increment in peak responsivity of AuGe plasmonic-based trilayer InAs quantum dot detector in comparison to as-grown detector at 80 K. Therefore, this study is expected to be very useful in the realization of high-performance plasmonic-based optoelectronic and sensing devices.     

SSF production,purification and characterization of chitin deacetylase from Aspergillus flavus

The production of an extracellular chitin deacetylase (CDA) produced by Aspergillus flavus under solid-substrate fermentation (SSF) using wheat bran as substrate was optimized using statistical methods. The CDA production in SSF increased 1.79-fold in comparison to the unoptimized basal level medium. It was purified to a final purity of 3.94-fold by ammonium sulphate precipitation, ion-exchange chromatography, and gel-permeation chromatography (GPC) consecutively and further characterized. The molecular mass of the enzyme was estimated to be about 28?kDa by sodium dodecyl sulphate-polyacrylamide gel electrophoresis (SDS-PAGE) and GPC analysis. The optimum pH and temperature of the purified enzyme were pH 8.0 and 50?°C, respectively. Additionally, the effect of some cations and other chemical compounds on the CDA activity was studied. A marginal increase in enzyme activity was observed with metal ions mainly Mn²⁺ and Zn²⁺. No inhibition of the enzyme was observed by the end product, that is, acetate up to 70?mM concentration. The K_m and k_cat values of the enzyme were determined to be 9.45?mg mL^?1 and 26.72?s^?1 respectively, using colloidal chitin as substrate. Among various substrates tested, glycol chitin and colloidal chitin were deacetylated.