7-Substituted 8-aza-7-deazaadenosines for modification of the siRNA major groove

Here we describe the synthesis of new 7-substituted 8-aza-7-deazaadenosine ribonucleoside phosphoramidites and their use in generating major groove-modified duplex RNAs. A 7-ethynyl analog leads to further structural diversification of the RNA via post-automated RNA synthesis azide-alkyne cycloaddition reactions. In addition, we report preliminary studies on the effects of eight different purine 7-position modifications on RNA duplex stability and pairing specificity. Finally, the effect on RNAi activity of this type of modification at eight different positions in an siRNA guide strand has been explored. Analogs were identified with large 7-position substituents that maintain adenosine pairing specificity and are well-tolerated at specific positions in an siRNA guide strand.     

Development and Characterization of Microsatellite Markers (SSR) in Sesamum (Sesamum indicum L.) Species

Microsatellites, also known as simple sequence repeats (SSRs), are the class of repetitive DNA sequences present throughout the genome of many plant and animal species. Recent advances in molecular genetics had been the introduction of microsatellite markers to investigate the genetic structuring of natural plant populations. We have employed an enrichment strategy for microsatellite isolation by using multi-enzymes digestion, microsatellite oligoprobes, and streptavidin magnetic beads in Sesamum (Sesamum indicum L.). More than 200 SSR motifs were detected (SSR motifs ??2 repeat units or 6?bp); 80?% of the clones contained SSR motifs. When regarding SSRs with four or more repeat units and a minimum length of 10?bp, 132 of them showed repeats. Eighteen SSR markers were initially characterized for optimum annealing temperature using a gradient PCR technique. Among the 18 SSR markers characterized, five were found to be polymorphic and used to analyze 60 Sesamum germplasm accessions. The maximum number of alleles detected was four with a single primer and the least number of two alleles with three primers with an average PIC value of 0.77. SSRs are a valuable tool for estimating genetic diversity and analyzing the evolutionary and historical development of cultivars at the genomic level in sesame breeding programs.     

Crystal growth of ZrW2O8 and its optical and mechanical characterization

ZrW₂O₈ is known for its isotropic negative thermal expansion over a wide of range of temperature from ?272 to 777 °C. However, ZrW₂O₈ melts incongruently at 1257 °C and is stable only over a short temperature interval between 1105 and 1257 °C. This makes the growth of single crystals a formidable challenge. In order to study the intrinsic properties of this compound, a repeatable, viable single crystal growth strategy is required. Here we report a simple, self-seeding, self-fluxing single crystal growth process which resulted in single crystals of ZrW₂O₈ up to about 4 mm in size. Grown crystals were characterized by X-ray diffraction (XRD), Raman spectroscopy and Fourier transform infrared (FTIR) spectroscopy. Mechanical properties of the crystals were studied using nanoindentation.     

Enhanced polarization of the cosmic microwave background radiation from thermal gravitational waves

If inflation was preceded by a radiation era, then at the time of inflation there will exist a decoupled thermal distribution of gravitons. Gravitational waves generated during inflation will be amplified by the process of stimulated emission into the existing thermal distribution of gravitons. Consequently, the usual zero temperature scale invariant tensor spectrum is modified by a temperature dependent factor. This thermal correction factor amplifies the B-mode polarization of the cosmic microwave background radiation by an order of magnitude at large angles, which may now be in the range of observability of the Wilkinson Microwave Anisotropy Probe.     

Synthesis of single crystalline tellurium nanotubes with triangular and hexagonal cross sections

Single crystalline tellurium (Te) nanotubes with triangular cross sections were successfully synthesized for the first time by a simple approach of vaporizing tellurium metal and condensing the vapor in an inert atmosphere onto a suitable substrate. Tellurium gas was evaporated by heating at 350 degrees C and was condensed on the Si (100) substrate at 150-200 degrees C, in the downstream of argon (Ar) gas at a flow rate of 25 sccm for 10 min. This led to the production of nanotubes of triangular cross section along with some hexagonal ones. The formation of the nanotubes was highly dependent upon the structure of the substrate surface, Ar gas flow rate, and the deposition temperature. When the substrate is Si (111) or sapphire (0001) or when the argon flow rate is increased to 500 sccm, nanowires and nanorods were exclusively formed. Irrespective of the morphologies, all the observed Te nanostructures grew in a regular [0001] direction. The facile approach to nanotubes with a triangular cross section may facilitate some new applications as well as stimulate theoretical studies pertaining to the stability of this high-energy configuration.     

Highly regioselective synthesis of glycospiro heterocycles through 1,3-dipolar cycloaddition reaction

A highly regio-selective synthesis of novel glycospiropyrrolidines has been accomplished by 1,3-dipolar cycloaddition (1,3-DC) reaction. A unique dipolarophile derived from galactose has been reacted with azomethine ylide generated from 1,2-diketones and secondary aminoacids to give the corresponding spiro glycoheterocycles in good yields. The structures were assigned by 2D NMR spectra and the regio- and stereochemical outcome of the cycloadducts was established by a single crystal X-ray analysis.     

Molecular Analysis and Conformational Dynamics of Human MC4R Disease-Causing Mutations

Obesity is a chronic disease with increasing cases among children and adolescents. Melanocortin 4 receptor (MC4R) is a G protein-coupled transporter involved in solute transport, enabling it to maintain cellular homeostasis. MC4R mutations are associated with early-onset severe obesity, and the identification of potential pathological variants is crucial for the clinical management of patients with obesity. A number of mutations have been reported in MC4R that are responsible for causing obesity and related complications. Delineating these mutations and analyzing their effect on MC4R’s structure will help in the clinical intervention of the disease condition as well as designing potential drugs against it. Sequence-based pathogenicity and structure-based protein stability analyses were conducted on naturally occurring variants. We used computational tools to analyze the conservation of these mutations on MC4R’s structure to map the structural variations. Detailed structural analyses were carried out for the active site mutations (i.e., D122N, D126Y, and S188L) and their influence on the binding of calcium and the agonist or antagonist. We performed molecular dynamics (MD) simulations of the wild-type and selected mutations to delineate the conformational changes, which provided us with possible reasons for MC4R’s instability in these mutations. This study provides insight into the potential direction toward understanding the molecular basis of MC4R dysfunction in disease progression and obesity.