DNA polymerase template interactions probed by degenerate isosteric nucleobase analogs

The development of novel artificial nucleobases and detailed X-ray crystal structures for primer/template/DNA polymerase complexes provide opportunities to assess DNA-protein interactions that dictate specificity. Recent results have shown that base pair shape recognition in the context of DNA polymerase must be considered a significant component. The isosteric azole carboxamide nucleobases (compounds 1-5; ) differ only in the number and placement of nitrogen atoms within a common shape and therefore present unique electronic distributions that are shown to dictate the selectivity of template-directed nucleotide incorporation by DNA polymerases. The results demonstrate how nucleoside triphosphate substrate selection by DNA polymerase is a complex phenomenon involving electrostatic interactions in addition to hydrogen bonding and shape recognition. These azole nucleobase analogs offer unique molecular tools for probing nonbonded interactions dictating substrate selection and fidelity of DNA polymerases.     

Copper corrosion in buffered and non-buffered synthetic seawater: a comparative study

The electrochemical behaviour of copper in neutral buffered and non-buffered synthetic seawater and in pure chloride solutions has been studied by cyclic voltammetry, weight loss measurements, open circuit potential and scanning electron microscopy (SEM). Values of the repassivation potentials of Cu in non-buffered and buffered synthetic seawater, at 50 mV s^–1, were 0.12 and 0.46 V vs. SCE, respectively. The sharpness, heights and location of the different peaks as well as their charges were shown to be influenced by the composition of the solution, buffering conditions, deoxygenation, polarization potential and time. High chloride concentrations lead to higher oxidation charges. The anodic and the cathodic charges were shown to increase as the chloride concentration increases. The open circuit potential transients of copper in non-deoxygenated, non-buffered synthetic seawater indicate pitting from the beginning of the exposure, while in buffered solutions the pitting appeared only after a quite long exposure period, i.e. after 40 days. Corrosion rates of Cu samples after 3 months of immersion were higher in solutions of pure chloride (0.5 M) than in synthetic seawater. After six months the differences were even more noticeable. SEM images have showed a somewhat higher density of pits on copper samples immersed in the chloride solution (0.5 M), in comparison with those in synthetic seawater.     

Cancer cells undergoing epigenetic transition show short-term resistance and are transformed into cells with medium-term resistance by drug treatment

To elucidate the epigenetic mechanisms of drug resistance, epigenetically reprogrammed H460 cancer cells (R-H460) were established by the transient introduction of reprogramming factors. Then, the R-H460 cells were induced to differentiate by the withdrawal of stem cell media for various durations, which resulted in differentiated R-H460 cells (dR-H460). Notably, dR-H460 cells differentiated for 13 days (13dR-H460 cells) formed a significantly greater number of colonies showing drug resistance to both cisplatin and paclitaxel, whereas the dR-H460 cells differentiated for 40 days (40dR-H460 cells) lost drug resistance; this suggests that 13dR-cancer cells present short-term resistance (less than a month). Similarly, increased drug resistance to both cisplatin and paclitaxel was observed in another R-cancer cell model prepared from N87 cells. The resistant phenotype of the cisplatin-resistant (CR) colonies obtained through cisplatin treatment was maintained for 2–3 months after drug treatment, suggesting that drug treatment transforms cells with short-term resistance into cells with medium-term resistance. In single-cell analyses, heterogeneity was not found to increase in 13dR-H460 cells, suggesting that cancer cells with short-term resistance, rather than heterogeneous cells, may confer epigenetically driven drug resistance in our reprogrammed cancer model. The epigenetically driven short-term and medium-term drug resistance mechanisms could provide new cancer-fighting strategies involving the control of cancer cells during epigenetic transition.Subject terms: Tumour heterogeneity, Epigenetics     

Imide-siloxane block copolymer/silica hybrid membranes: preparation, characterization and gas separation properties

Imide-siloxane block copolymer/silica hybrid membranes with covalent bonds were prepared via sol–gel reaction. The structural informations of these hybrid membranes were obtained by using Fourier transform-infrared spectrometry (FT-IR), ²⁹Si nuclear magnetic resonance (²⁹Si NMR), XPS and thermogravimetric analysis (TGA). The gas separation properties of the hybrid membranes were also investigated in terms of organosiloxane (PDMS) or silica content at various temperatures. In the hybrids, the addition of PDMS phase increased the permeabilities of gases such as He, CO₂, O₂, and N₂, indicating that the gas transport occurred mainly through rubbery organic matrix. Meanwhile, the PDMS phase contributed the decreased gas selectivities to nitrogen but the reduction in selectivities was very small in comparison with other siloxane containing polymeric membranes. This might be due to the restriction of chain mobility by the existence of inorganic component such as silica network in the hybrids. Additionally, the increase of silica content in these hybrid membranes considerably retarded the falling-off of gas selectivity at elevated temperature. The increase of silica content in hybrid membranes resulted in well-formed silica networks and hence these inorganic components restricted the plasticization of organic matrix by the thermal segmental motion of organic components, leading to preventing the large decrease of the gas selectivity.     

State-to-state reaction dynamics of CH3I photodissociation at 304 nm

The detailed reaction dynamics of CH(3)I photodissociation at 304 nm were studied by using high-resolution long time-delayed core-sampling photofragment translation spectroscopy. The vibrational state distributions of the photofragment, i.e., CH(3), are directly resolved due to the high kinetic resolution of this experiment for the first time. CH(3) radicals produced from I((3)Q(0+)), I((1)Q(1) <--( 3)Q(0+)), and I((3)Q(1)) channels are populated in different vibrational state distributions. The I((3)Q(0+)) and I((3)Q(1)) channels show only progressions in the nu2'(a2") umbrella bending mode, and the I((1)Q(1) <-- (3)Q(0+)) channel shows both progression in the nu2' umbrella bending mode and a small amount of excitation in the nu1'(a1') C-H stretching mode. The photodissociation processes from the vibrational hot band of CH(3)I (upsilon3 = 1, upsilon3 = 2) were also detected, primarily because of the absorption probability from the vibrational excited states, i.e., hot bands are relatively enhanced. Photofragments from the hot bands of CH(3)I show a cold vibrational distribution compared to that from the vibrational ground state of CH(3)I. The I* quantum yield and the curve crossing possibility were also studied for the ground vibrational state of CH(3)I. The potential energy at the curve crossing point was calculated to be 32 790 cm(-1) by using the one-dimensional Landau-Zener model.     

Synthesis and crystal structures of novel calix[4]azacrowns

A series of novel 1,3‐altemate calix[4]arene azacrowns having mono and bis crown ethers on the lower rim of the calix[4]arene framework were synthesized. Solid‐state structures confirmed the three dimensional conformation of compounds 1–3.     

Formation mechanism of conducting polypyrrole nanotubes in reverse micelle systems

Polypyrrole (PPy) nanotubes were readily fabricated through chemical oxidation polymerization in sodium bis(2-ethylhexyl) sulfosuccinate (AOT) reverse (water-in-oil) emulsions. The reverse cylindrical micelle phase was characterized, and the key factors affecting the formation of PPy nanotubes were systematically inspected. AOT reverse cylindrical micelles were prepared via a cooperative interaction between an aqueous FeCl3 solution and AOT in an apolar solvent. In the H2O/FeCl3/AOT/apolar solvent system, the aqueous FeCl3 solution played a role in increasing the ionic strength and decreasing the second critical micelle concentration of AOT. As a result, AOT reverse cylindrical micelles could be spontaneously formed in an apolar solvent. In addition, iron cations were adsorbed to the anionic AOT headgroups that were capable of extracting metal cations from the aqueous core. Under these conditions, the addition of pyrrole monomer resulted in the chemical oxidation polymerization of the corresponding monomer at the surface of AOT reverse cylindrical micelles, followed by the formation of tubular PPy nanostructures. In a typical composition (74.0 wt % hexane, 22.4 wt % AOT, and 3.6 wt % aqueous FeCl3 solution at 15 degrees C), the average diameter of PPy nanotubes was approximately 94 nm and their length was more than 2 mum. The PPy nanotube dimensions were affected by synthetic variables such as the weight ratio of aqueous FeCl3 solution/AOT, type of apolar solvent, and reaction temperature. Moreover, the relationship between the diameter and the conductivity of the nanotubes was investigated.     

Morphology, crystallization behavior and properties of impact-modified polypropylene copolymer with or without sodium benzoate as a nucleating agent

 The morphology, crystallization behavior, and properties of an impact-modified polypropylene (PP) copolymer with or without sodium benzoate were investigated. The contents of ethylene–propylene rubber (EPR) in the reactor-made PP copolymer is about 15 wt%. For comparison, blends of PP and EPR containing the same EPR composition were prepared by melt-mixing. Morphological studies by scanning probe microscopy indicated that the impact-modified copolymer consists of three different phases, i.e., polyethylene, PP, and EPR phases, which is considerably different from the morphology of the conventional PP/EPR blend of the corresponding composition. The impact-modified PP copolymer exhibited a higher crystallization rate in terms of the lower crystallization half-time and thus higher thermal and mechanical properties, such as impact strength and hardness, than the PP/EPR blend did. The addition of sodium benzoate as a nucleating agent to the copolymer increased the crystallization rate and the mechanical properties. Received: 4 June 2001 Accepted: 31 October 2001     

2,3,7‐Triazabicyclo[3.3.0]octenes Prepared by Tandem Cascade Reaction of Allyl Azides and Olefinic Dipolarophiles

Tandem cascade reactions of allylazides and olefinic dipolarophiles to give cis‐fused 2,3,7‐triazabicyclo [3.3.0]octenes ( 5, 6 or 7 ) are reported. Therein, an intermolecular dipolar cycloaddition of azide and alkene gave a triazoline which was followed by isomerization of the triazoline to a diazoester ( 4 ) and then an intramolecular dipolar cycloaddition from the diazo functional group and the double bond in 4 to give 5 . Compound 5 may further more undergo a Michael addition to give 7‐substituted‐ 2,3,7‐ triazabicyclo [3.3.0]oct‐2‐ene ( 6 ) or a tautomerization to give 2,3,7‐triazabicyclo[3.3.0]oct‐3‐ene ( 7 ). The reaction may be manipulated to stop at a particular stage by adopting a suit able solvent or an appropriate temperature.     

Fluorescence Lifetime Spectroscopy of Glioblastoma Multiforme¶

Fluorescence spectroscopy of the endogenous emission of brain tumors has been researched as a potentially important method for the intraoperative localization of brain tumor margins. We investigated the use of time‐resolved, laser‐induced fluorescence spectroscopy for demarcation of primary brain tumors by studying the time‐resolved spectra of gliomas. The fluorescence of human brain samples (glioblastoma multiforme, cortex and white matter: six patients, 23 sites) was induced ex vivo with a pulsed nitrogen laser (337 nm, 3 ns). The time‐resolved spectra were detected in a 360–550 nm wavelength range using a fast digitizer and gated detection. Parameters derived from both the spectral‐ (intensities from narrow spectral bands) and the time domain (average lifetime) measured at 390 and 460 nm were used for tissue characterization. We determined that high‐grade gliomas are characterized by fluorescence lifetimes that varied with the emission wavelength (>3 ns at 390 nm, <1 ns at 460 nm) and their emission is overall longer than that of normal brain tissue. Our study demonstrates that the use of fluorescence lifetime not only improves the specificity of fluorescence measurements but also allows a more robust evaluation of data collected from brain tissue. Combined information from both the spectraland the time domain can enhance the ability of fluorescencebased techniques to diagnose and detect brain tumor margins intraoperatively.