Solvent effects on charge spatial extent in DNA and implications for transfer

To clarify the role played by water in facilitating long-range DNA charge transport, carefully designed, state-of-the-art, self-interaction corrected density-functional quantum mechanical and molecular mechanical (SIC-QM/MM) simulations are performed for the first time on two ionized adenine:thymine bridge models in explicit water solvent at finite temperature. For random solvent configurations, the charge is partially delocalized. However, a charge localization on different, well-separated adenines can be induced and is correlated with a restructuring of their first solvation shells. Thus, the importance of water in the mechanism of long-range charge transport is explicitly demonstrated, and the microscopic conditions for a charge localization are revealed.     

Antisense-mediated isoform switching of steroid receptor coactivator-1 in the central nucleus of the amygdala of the mouse brain

Background

Antisense oligonucleotide (AON)-mediated exon skipping is a powerful tool to manipulate gene expression. In the present study we investigated the potential of exon skipping by local injection in the central nucleus of the amygdala (CeA) of the mouse brain. As proof of principle we targeted the splicing of steroid receptor coactivator-1 (SRC-1), a protein involved in nuclear receptor function. This nuclear receptor coregulator exists in two splice variants (SRC-1a and SRC-1e) which display differential distribution and opposing activities in the brain, and whose mRNAs differ in a single SRC-1e specific exon.

Methods

For proof of principle of feasibility, we used immunofluorescent stainings to study uptake by different cell types, translocation to the nucleus and potential immunostimulatory effects at different time points after a local injection in the CeA of the mouse brain of a control AON targeting human dystrophin with no targets in the murine brain. To evaluate efficacy we designed an AON targeting the SRC-1e-specific exon and with qPCR analysis we measured the expression ratio of the two splice variants.

Results

We found that AONs were taken up by corticotropin releasing hormone expressing neurons and other cells in the CeA, and translocated into the cell nucleus. Immune responses after AON injection were comparable to those after sterile saline injection. A successful shift of the naturally occurring SRC-1a:SRC-1e expression ratio in favor of SRC-1a was observed, without changes in total SRC-1 expression.

Conclusions

We provide a proof of concept for local neuropharmacological use of exon skipping by manipulating the expression ratio of the two splice variants of SRC-1, which may be used to study nuclear receptor function in specific brain circuits. We established that exon skipping after local injection in the brain is a versatile and useful tool for the manipulation of splice variants for numerous genes that are relevant for brain function.     

The Lyapunov Exponent of Products of Random 2×2 Matrices Close to the Identity

We study products of arbitrary random real 2×2 matrices that are close to the identity matrix. Using the Iwasawa decomposition of SL(2,?), we identify a continuum regime where the mean values and the covariances of the three Iwasawa parameters are simultaneously small. In this regime, the Lyapunov exponent of the product is shown to assume a scaling form. In the general case, the corresponding scaling function is expressed in terms of Gauss’ hypergeometric function. A number of particular cases are also considered, where the scaling function of the Lyapunov exponent involves other special functions (Airy, Bessel, Whittaker, elliptic). The general solution thus obtained allows us, among other things, to recover in a unified framework many results known previously from exactly solvable models of one-dimensional disordered systems.     

Air-dispersion measurement by second-harmonic heterodyne interferometry

Interferometers with long optical paths in air usually require knowledge and control of air dispersion. In addition, the measurements at several wavelengths and the dispersion properties of air allow errors caused by air turbulence to be compensated for. An innovative technique for air-dispersion measurement is described for long-baseline ground-based stellar interferometers. The technique combines second-harmonic interferometry and heterodyne detection to permit high-resolution measurement even for low optical powers. Experimental results show measurements of air dispersion in good agreement with the values predicted from the Edlén equation.     

On the Strategy of NMR Spectral Analysis. The 1H-NMR Spectrum of Amphetamine

The successive steps of the computer analysis of a NMR spectrum are examined. Better results can be obtained by direct simulation of tentative model spectra. As an example the ¹H-NMR spectrum of amphetamine is analysed.     

On the role of pressure in elasto-inertial turbulence

The dynamics of elasto-inertial turbulence is investigated numerically from the perspective of the coupling between polymer dynamics and flow structures. In particular, direct numerical simulations of channel flow with Reynolds numbers ranging from 1000 to 6000 are used to study the formation and dynamics of elastic instabilities and their effects on the flow. Based on the splitting of the pressure into inertial and polymeric contributions, it is shown that the polymeric pressure is a non-negligible component of the total pressure fluctuations, although the rapid inertial part dominates. Unlike Newtonian flows, the slow inertial part is almost negligible in elasto-inertial turbulence. Statistics on the different terms of the Reynolds stress transport equation also illustrate the energy transfers between polymers and turbulence and the redistributive role of pressure. Finally, the trains of cylindrical structures around sheets of high polymer extension that are characteristics of elasto-inertial turbulence are shown to be correlated with the polymeric pressure fluctuations.     

Theory of perpendicular arrays

The cryptographical theory of unconditional secrecy and authentication is based on design-like structures called perpendicular arrays in the combinatorial literature. In order to meet the cryptographical requirements some additional and rather natural homogeneity conditions have to be satisfied. We develop a theory of these structures. Topics include bounds on the size, recursive and direct constructions using designs and permutation groups, as well as a link to Room cubes. © 1994 John Wiley & Sons, Inc.     

Anderson localization for one- and quasi-one-dimensional systems

We prove almost-sure exponential localization of all the eigenfunctions and nondegeneracy of the spectrum for random discrete Schrödinger operators on one- and quasi-one-dimensional lattices. This paper provides a much simpler proof of these results than previous approaches and extends to a much wider class of systems; we remark in particular that the singular continuous spectrum observed in some quasiperiodic systems disappears under arbitrarily small local perturbations of the potential. Our results allow us to prove that, e.g., for strong disorder, the smallest positive Lyapunov exponent of some products of random matrices does not vanish as the size of the matrices increases to infinity.     

Reversible dynamics and the macroscopic rate law for a solvable Kolmogorov system: The three bakers' reaction

We investigate a piecewise linear (area-preserving) mapT describing two coupled baker transformations on two squares, with coupling parameter 0c1. The resulting dynamical system is Kolmogorov for anyc0. For rational values ofc, we construct a generating partition on whichT induces a Markov chain. This Markov structure is used to discuss the decay of correlation functions: exponential decay is found for a class of functions related to the partition. Explicit results are given forc=2^–n. The macroscopic analog of our model is a leaking process between two (badly) stirred containers: according to the Markov analysis, the corresponding progress variable decays exponentially, but the rate coefficients characterizing this decay are not those determined from the one-way flux across the cell boundary. The validity of the macroscopic rate law is discussed.