Molecular structure of organic micro-crystals characterised by atomic force microscopy

In this study we show that the spin-coating technique can be used to prepare micrometer-sized crystals of organic molecules. Hydrophilic silicon wafers were spin-coated with chloroform solutions of rodlike bicyclohexylidene oximes 1–3. Atomic force microscopy images show that well-defined micro-crystals of 1 and 3 deposit on the silicon surface, which can be imaged with molecular resolution. The crystallographic dimensions derived from the atomic force microscope images correspond well with single crystal X-ray diffraction data.     

Chromatographic methods for the determination of toxicants in faeces.

Modern chromatographic techniques and their application in the determination of toxic compounds in faeces are reviewed. Faecal analysis may be of importance in toxicokinetic studies of xenobiotics in order to determine factors such as metabolism, body burden and major routes of elimination. Compounds of interest include various food constituents, drugs and occupational or environmental factors. Further, various mutagenic or carcinogenic compounds which are excreted by faeces have been indicated to represent risk factors for colorectal cancer. In this context, the chromatographic determination of the endogenously generated fecapentaenes and bile acids, both postulated etiological factors in colorectal carcinogenesis, is reviewed. For fecapentaene determination, several high-performance liquid chromatographic (HPLC) methods are available; however, the applicability of some of these methods is limited owing to insufficient separation of various isomeric forms or discrimination between fecapentaenes and their precursors. For the determination of bile acids in faeces, many chromatographic procedures have been reported, and the characteristics of the most relevant methods are compared and discussed. It is concluded that separation by gas chromatography (GC) in combination with mass spectrometry provides the highest selectivity and sensitivity. A relatively rapid alternative analysis for the determination of total and aqueous faecal bile acids is proposed. Further, methods for the determination of polycyclic aromatic hydrocarbons (PAHs) are reviewed. Although the use of radiolabelled PAHs in animal studies has many advantages, it cannot be applied for human biological monitoring and HPLC and GC provide sensitive alternatives. An HPLC method for the determination of non-metabolized PAHs in faeces is described.     

Nonconventional morphologies in two-length scale block copolymer systems beyond the weak segregation theory

The order-disorder and order-order transitions (ODT and OOT) in the linear multiblock copolymers with two-length scale architecture A(fmN)(B(N2)A(N2))(n)B((1-f)mN) are studied under intermediate cooling below the ODT critical point where a nonconventional sequence of the OOTs was predicted previously [Smirnova et al., J. Chem. Phys. 124, 054907 (2006)] within the weak segregation theory (WST). To describe the ordered morphologies appearing in block copolymers (BCs) under cooling, we use the pseudospectral version of the self-consistent field theory (SCFT) with some modifications providing a good convergence speed and a high precision of the solution due to using the Ng iterations [J. Chem. Phys. 61, 2680 (1974)] and a reasonable choice of the predefined symmetries of the computation cell as well as initial guess for the iterations. The WST predicted sequence of the phase transitions is found to hold if the tails of the BCs under consideration are symmetric enough (mid R:0.5-fmid R:0.05, a large region of the face-centered cubic phase stability is found (up to our knowledge, first within the SCFT framework) inside of the body-centered cubic phase stability region. Occurrence of the two-dimensional and three-dimensional phases with the micelles formed, unlike the conventional diblock copolymers, by the longer (rather than shorter) tails, and its relationship to the BC architecture is first described in detail. The calculated spectra of the ordered phases show that nonmonotonous temperature dependence of the secondary peak scattering intensities accompanied by their vanishing and reappearance is rather a rule than exception.     

Finding the center reliably: robust patterns of developmental gene expression

We investigate a mechanism for the robust identification of the center of a developing biological system. We assume the existence of two morphogen gradients, an activator emanating from the anterior, and a corepressor from the posterior. The corepressor inhibits the action of the activator in switching on target genes. We apply this system to Drosophila embryos, where we predict the existence of a hitherto undetected posterior corepressor. Using mathematical modeling, we show that a symmetric activator-corepressor model can quantitatively explain the precise midembryo expression boundary of the hunchback gene, and the scaling of this pattern with embryo size.     

Simulating biochemical networks at the particle level and in time and space: Green's function reaction dynamics

We present a technique, called Green's function reaction dynamics (GFRD), for particle-based simulations of reaction-diffusion systems. GFRD uses a maximum time step such that only single particles or pairs of particles have to be considered. For these particles, the Smoluchowski equations are solved analytically using Green's functions, which are used to set up an event-driven algorithm. We apply the technique to a model of gene expression. Under biologically relevant conditions, GFRD is up to 5 orders of magnitude faster than conventional particle-based schemes.