DNA electrophoresis in agarose gels: a simple relation describing the length dependence of mobility

Electrophoretic mobilities of DNA molecules ranging in length from 100 to 10 000 base pairs (bp) were measured in gels of eleven concentrations of agarose from 0.5 to 1.5%. Excellent fits of the dependence of mobility on DNA length were obtained with the relationship [equation: see text] showing an e(-L/gamma) crossover, where L is the length of a DNA fragment and gamma is a crossover length ranging from 8000 to 12000 bp. The other parameters in the fit are mu(s) the mobility of short DNA with unit charge in the limit as length is extrapolated to zero, and muI, the mobility of long DNA as length is extrapolated to infinity. This exponential relationship should be a useful interpolation function for determining DNA lengths over a wide range. The simplicity of this relationship may be of more fundamental significance and suggests that some common feature dominates the electrophoresis of double stranded DNA fragments in agarose gels, regardless of length.     

Heat transfer and rheological properties of transformer oil-oxidized MWCNT nanofluid

Power transformers play a key role in power and electrical industries and thus boosting their efficiency is necessary. In this study, the effect of oxidized multi-walled carbon nanotubes on transformer oil thermophysical properties was experimentally investigated. The maximum amount of carbon nanotubes was chosen up to 0.01 mass% to assure the maximum purity of transformer oil. Heat transfer characteristics of transformer oil and nanofluids in two cases of free and forced convection were studied. Breakdown voltage, flash point, pour point, density, electrical and thermal conductivities, viscosity and shear stress, as eight important quality parameters, were determined. According to the experimental results, the Breakdown voltage decreased through concentration increasing. Electrical conductivity is not changed considerable with increasing concentration and temperature. Thermal conductivity of nanofluids and transformer oil changed with increasing temperature and concentration. Furthermore, at all concentrations and temperatures, the viscosity of the nanofluids was lower than that of transformer oil.     

Synthesis and structural characterization of mixed-metal complexes of Cu(I) with MOS3 cores (M = Mo, W) and of an unusual polymeric AgI/mercaptoimidazole complex with five different Ag(I) coordination environments

Reaction of (NH(4))(2)[MO(2)S(2)] (M = Mo or W) with KI, CuCl and 1,3-diazepane-2-thione (Diap) in acetone affords air- and moisture-stable mixed-metal cluster compounds [MOS(3)(CuDiap)(3)]I (1 and 2). Attempts to produce [WS(4)Ag(2)(Mim(Ph))(4)] (Mim(Ph) = 2-mercapto-1-phenylimidazole) led to the unexpected polymeric compound [Ag(5)I(5)(Mim(Ph))(4)](n) (4), subsequently obtained from a rational direct reaction between AgI and Mim(Ph) in chloroform. The complexes have been characterized by IR, (1)H and (13)C NMR spectroscopy, and single-crystal diffraction. 1 and 2 have crystallographic threefold rotation symmetry, with an incomplete distorted cube MS(3)Cu(3) core bearing terminal oxo and Diap ligands on M and Cu, respectively. The cube vertex opposite M is empty, giving an overall +1 cationic cluster and a separate I(-) anion too distant from the three Cu atoms to be considered as covalently bonded and resulting in discrete ion pairs in the crystal structures. This arrangement is different from previously reported related OMS(3)(CuL)(3)X complexes (L = monodentate ligand, X = halide), in which X, when present, is directly bonded to one, two or three Cu atoms. 4 has a one-dimensional polymeric chain structure in which silver displays five different approximately tetrahedral coordination environments, iodide ions serve as μ(2), μ(3) and μ(4) bridges, and the thione ligands are each either terminal or bridging. This unusually complex structure for a relatively simple chemical formula represents only the fifth example of a complex (AgI)(n)L(m) in which L is a neutral S-donor ligand, and the five structures display a wide range of individual features. In all three of the new structures, N-H···S and/or N-H···I hydrogen bonds are found.     

Reaction of Primary Alkylamines,Heterocumulenes, and Isatoic Anhydride,Catalyzed by Magnetic Fe3O4 Nanoparticles in H2O

An efficient protocol for the one‐pot reaction of isatoic anhydride (=1,2‐dihydro‐4H‐3,1‐benzoxazine‐2,4‐dione), primary alkylamines, and heterocumulenes (isothiocyanates and isocyanates) in H₂O catalyzed by magnetically recoverable Fe₃O₄ nanoparticles is described.     

Hydrogen-bonding interactions in ferrocene-peptide conjugates containing valine

The synthesis and characterization of a series of ferrocene (Fc) peptide conjugates containing the amino acid valine is reported, where the peptide substituents are part of the hydrophobic sequence of the amyloid β-peptide. The hydrogen-bonding (H-bonding) interaction in these compounds is studied by variable temperature ¹H NMR spectroscopy. The solid-state structures, determined by single crystal X-ray crystallography, of two of the conjugates (Fc[CO-Leu-Val-OMe]₂1 and Fc[CO-Gly-Val-OH]₂6) are reported. Both structures are stabilized by intramolecular H-bonds exhibiting the familiar “Herrick motif” involving the proximal amide NH and the amide CO of the adjacent amino acid. This motif is sufficiently rigid and is maintained in solution as suggested by CD studies. However, the intermolecular H-bonding patterns observed on conjugates 1 and 6 are significantly different resulting in very different supramolecular architectures. For conjugate 1, a more conventional set of head-to-tail stacking interactions which is stabilized by β-sheet-like H-bonding interactions between the individual molecules is observed. However, for conjugate 6, the presence of the C-terminal acid group and presumably the flexibility of the Gly linker enables the formation of a more open structure that contains hydrophobic channels occupied by solvent molecules.     

Characterization of interactions in aqueous solutions of hydroxyethylcellulose and its hydrophobically modified analogue in the presence of a cyclodextrin derivative

The formation of associative networks in semidilute aqueous solutions of hydrophobically modified hydroxyethylcellulose (HM-HEC) is dependent on intermolecular hydrophobic interactions. Addition of hydroxypropyl-beta-cyclodextrin (HP-beta-CD) monomers to the system provides decoupling of these associations via inclusion complex formation with the polymer hydrophobic tails. Results from viscosity, polymer NMR self-diffusion, and dynamic light scattering (DLS) measurements show that the hydrophobic interactions in HM-HEC solutions are effectively suppressed when the level of HP-beta-CD addition increases. Small-angle neutron scattering (SANS) results reveal that the large-scale association complexes in HM-HEC solutions are strongly diminished when the concentration of HP-beta-CD rises. The time correlation data obtained from the DLS experiments unveiled the existence of two relaxation modes: one single exponential at short times followed by a stretched exponential at longer times. The fast mode is always diffusive, whereas the slow mode exhibits progressively stronger wavevector dependence as the intensity of the hydrophobic interactions increases. This feature, as well as the accompanying drop of the stretched exponential beta as the HP-beta-CD concentration decreases, is attributed to enhanced hydrophobic interactions and can be well rationalized in the framework of the coupling model of Ngai.     

Structural and dynamical characterization of poly-gamma-glutamic acid-based cross-linked nanoparticles

This work describes the formation of water-soluble hydrophilic nanoparticles from biosynthetic poly-γ-glutamic acid (PGA). Nanoparticles were formed by cross-linking using 2,2′-(ethylenedioxy) diethylamine in the presence of water-soluble carbodiimide. The structure was determined by nuclear magnetic resonance spectroscopy and the particle size by transmission electron microscopy (TEM), size exclusion chromatography (SEC), and dynamic light-scattering (DLS) measurements. The results from TEM, SEC, and DLS reveal that the particle size depends on the ratio of cross-linking. Particle size values measured by TEM were between 20 and 90 nm. Formation of cross-linked nanoparticles results in a dramatic viscosity drop compared to the viscosity of the corresponding solution of the parent PGA. The viscosity and DLS experiments disclose an intriguing interplay between intrachain and interchain cross-linking of the polymer chains, depending on the cross-linker density and polymer concentration. The SEC measurements show that the retention time of the major portion of particles increase because of the higher cross-linking ratio. At moderate cross-linker concentration, intramolecular cross-linking is the dominant process, whereas at higher cross-linker densities, the interpolymer cross-linking plays an important role. As a result, large clusters are also formed.