Intracomplex general acid/base catalyzed cleavage of RNA phosphodiester bonds: the leaving group effect

The general acid/base catalyzed cleavage of a number of alkyl esters of uridine-3'- (and -5'-)phosphate has been studied by utilizing a cleaving agent, in which the catalytic moiety (a substituted 1,3,5-triazine) is tethered to an anchoring Zn(II):cyclen moiety. Around pH 7, formation of a strong ternary complex between uracil, Zn(II) and cyclen brings the general acid/base catalyst close to the scissile phosphodiester linkage, resulting in rate acceleration of 1-2 orders of magnitude with the uridine-3'-phosphodiesters. Curiously, no acceleration was observed with their 5'-counterparts. A β(lg) value of -0.7 has been determined for the general acid/base catalyzed cleavage, consistent with a proton transfer to the leaving group in the rate-limiting step.     

The role of MFC/NFC swelling in the rheological behavior and dewatering of high consistency furnishes

The influence of swelling on the rheological and dewatering properties of high consistency nanocellulose based furnishes is considered. Different consistencies of suspensions (1–4 %) and furnishes (5–15 %) were prepared made of two distinctly different grades of nanocellulose containing, micro fibrillated (MFC) and nanofibrillated (NFC) cellulose, and systematic comparison between the rheological and dewatering parameters was conducted. The characterization of the rheological and dewatering properties was performed with a stress controlled rheometer combined with an immobilization cell in parallel plate geometry, as well as with an independent gravimetric dewatering device. The surface charge of nanofibrillated cellulose was found to influence the rheological and dewatering properties of the evaluated suspensions and furnishes due to its impact on swelling and effectively bound water. Due to the complex behavior of the novel materials, the immobilization times were difficult to determine from the changes in the damping factor, as often used for coating colors. Instead, we propose a modified method for determination of immobilization times based on a rheological analysis adopting the rate of change in viscoelastic loss factor over time, d(tan δ = G′′/G′)/dt, describing the critical point(s) in the ratio of the viscous to elastic stress response moduli. With this approach we show that it is possible to characterize immobilization of these materials incorporating the concept of the combined physical interactions of the components and the non-removable bound water, without requiring a direct measure of the nanocellulose surface swelling. Based on the results, we hypothesize that fibrillar swelling impacts the dewatering of MFC and NFC suspensions, and furnishes containing them, by an interfiber pore connectivity blocking/sealing mechanism, which effectively defines the immobilization of the material matrix at the end point of free water extraction caused by the physical blocking imposed by the remaining bound water.     

The Hofmeister anion effect and the growth of polyelectrolyte multilayers

The influence of a variety of counteranions on the properties of polyelectrolyte multilayers deposited by layer-by-layer technique is studied by using ellipsometry and AFM. We found out that in thin dry multilayers (20-90 nm) ofpoly(4-styrenesulfonate) (PSS) and poly(diallyldimethylammonium) (PDADMA), the thickness follows reasonably well the position of the counteranion in the Hofmeister series. The polyelectrolyte-counteranion interaction is studied by means of viscosity measurements of semidilute solutions of PDADMA in the presence of different anions. The dynamic viscosities follow the Hofmeister series of anions and correlate with the thickness of multilayers. Two parameters describing the interaction of ions with water, the Jones-Dole viscosity B coefficient and the hydration entropy, are used to explain the anion effect on the developing multilayer thickness. Reasonably smooth and monotonic functional dependence is observed between the layer thickness and these two parameters.     

Characterization of the diradical *NSNSC-CNSSN* and [NSNSC-CNSSN][MF6]n (n=1, 2). The first observation of an excited triplet state in dimers of 7pi -CNSSN* radicals

Preparation and full characterization of the main-group diradical *NSNSC-CNSSN*, 8, the MF6- salt (As, Sb) of radical cation +NSNSC-CNSSN*, 8*+, and the AsF6- salt of the dication +NSNSC-CNSSN+, 82+, are presented. 8, a=6.717 (4), b=11.701(2), c=8.269(3) A, alpha=gamma=90, beta=106.69(3) degrees, monoclinic, space group P21/n, Z=4, T=203 K; 8SbF6, a=6.523(2), b=7.780(2), c=12.012(4) A, alpha=91.994(4), beta=96.716(4), gamma=09.177(4) degrees, triclinic, space group P, Z=2, T=198 K; 8[AsF6]2, a=12.7919(14), b=9.5760(11), c=18.532(2) A, alpha=gamma=90, beta=104.034(2) degrees, monoclinic, space group Pn, Z=6, T=198 K. Preparation of 8MF6 was carried out via a reduction of [CNSNS]2[MF6]2 (M=As, Sb) with either ferrocene or a SbPh3-NBu4Cl mixture. In the solid state, diamagnetic 8SbF6 contains centrosymmetric dimers [8*+]2 linked via two-electron four-centered pi*-pi* interactions with a thermally excited triplet state as detected by electron paramagnetic resonance (EPR). This is the first observation of a triplet excited state for a 7pi 1,2,3,5-dithiadiazolyl radical dimer. The singlet-triplet gap of the [-CNSSN*]2 radical pair was -1800+/-100 cm(-1) (-22+/-1 kJ/mol) with the ZFS components |D|=0.0267(6) cm(-1) and |E|=0.0012(1) cm(-1), corresponding to an in situ dimerization energy of ca. -11 kJ/mol. Cyclic voltammetry measurements of 8[AsF6]2 showed two reversible waves associated with a stepwise reduction of the two isomeric rings [E1/2 (+2/+1)=1.03 V; E1/2 (+1/0)=0.47 V, respectively]. 8MF6 (M=As, Sb) was further reduced to afford the mixed main-group diradical 8, containing two isomeric radical rings. In solution, 8 is thermodynamically unstable with respect to *NSSNC-CNSSN*, but is isolable in the solid state because of its low solubility in SO2. Likewise, 8SbF6, 8 is dimeric, with pi*-pi* interactions between different isomeric rings, and consequently diamagnetic; however, a slight increase in paramagnetism was observed upon grinding [from C=6.5(3)x10(-4) emu.K/mol and temperature-independent paramagnetism (TIP)=1.3(1)x10(-4) emu/mol to C=3.2(1)x10(-3) emu.K/mol and TIP=9.0(1)x10(-4) emu/mol], accompanied by an increase in the lattice-defect S=1/2 sites [from 0.087(1) to 0.43(1)%]. Computational analysis using the multiconfigurational approach [CASSCF(6,6)/6-31G*] indicated that the two-electron multicentered pi*-pi* bonds in [8*+]2 and [8]2 have substantial diradical characters, implying that their ground states are diradicaloid in nature. Our results suggest that the electronic structure of organic-radical ion pairs, for example, [TTF*+]2, [TCNE*-]2, [TCNQ*-]2, [DDQ*-]2, and related pi dimers, can be described in a similar way.     

Inverse problems with partial data for a Dirac system: A Carleman estimate approach

We prove that the material parameters in a Dirac system with magnetic and electric potentials are uniquely determined by measurements made on a possibly small subset of the boundary. The proof is based on a combination of Carleman estimates for first and second order systems, and involves a reduction of the boundary measurements to the second order case. For this reduction a certain amount of decoupling is required. To effectively make use of the decoupling, the Carleman estimates are established for coefficients which may become singular in the asymptotic limit.     

Nucleation, Growth, and Scaling in Slow Combustion

We study the nucleation and growth of flame fronts in slow combustion. This is modeled by a set of reaction-diffusion equations for the temperature field, coupled to a background of reactants and augmented by a term describing random temperature fluctuations for ignition. We establish connections between this model and the classical theories of nucleation and growth of droplets from a metastable phase. Our results are in good agreement with theoretical predictions.     

Icosahedral Au(72): a predicted chiral and spherically aromatic golden fullerene

Quantum chemical calculations demonstrate the spherical aromaticity and high thermodynamic stability of Au(72), a predicted I-symmetric golden fullerene.     

Replacing the cholesterol hydroxyl group with the ketone group facilitates sterol flip-flop and promotes membrane fluidity

The 3alpha-hydroxyl group is a characteristic structural element of all membrane sterol molecules, while the 3-ketone group is more typically found in steroid hormones. In this work, we investigate the effect of substituting the hydroxyl group in cholesterol with the ketone group to produce ketosterone. Extensive atomistic molecular dynamics simulations of saturated lipid membranes with either cholesterol or ketosterone show that, like cholesterol, ketosterone increases membrane order and induces condensation. However, the effect of ketosterone on membrane properties is considerably weaker than that of cholesterol. This is largely due to the unstable positioning of ketosterone at the membrane-water interface, which gives rise to a small but significant number of flip-flop transitions, where ketosterone is exchanged between membrane leaflets. This is remarkable, as flip-flop motions of sterol molecules have not been previously reported in analogous lipid bilayer simulations. In the same context, ketosterone is found to be more tilted with respect to the membrane normal than cholesterol. The atomic level mechanism responsible for the increase of the steroid tilt and the promotion of flip-flops is the decrease in polar interactions at the membrane-water interface. Interactions between lipids or water and the ketone group are found to be weaker than in the case of the hydroxyl group, which allows ketosterone to penetrate through the hydrocarbon region of a membrane.     

Monitoring of yeast fermentation by ion mobility spectrometry measurement and data visualisation with Self-Organizing Maps

Ion mobility spectrometry (IMS) measurement combined with unsupervised neurocomputing is considered as a new potential method for on-line monitoring of fermentation and other processes producing volatile compounds that involve micro-organisms. This was demonstrated in a model system in which a strain of brewer’s yeast (Saccharomyces cerevisiae) was cultivated in a bench-top fermenter. Five phases of yeast growth could be detected from measurements of the exhaust gases from the fermenter, as indicated by the changes in ion mobility spectra analysed by computational methods.The data were first processed using the Self-Organizing Map (SOM) algorithm, the results showing that the phases of fermentation can be detected and identified. The cultivations were also shown by Sammon’s mapping to be comparable to a certain level of accuracy. Contaminated cultivation could be detected by its distinctive ion mobility spectrometry profile.