Resolution and uniqueness of estimated parameters of a model of thin filament regulation in solution

The estimation of chemical kinetic rate constants for any non-trivial model is complex due to the nonlinear effects of second order chemical reactions. We developed an algorithm to accomplish this goal based on the Damped Least Squares (DLS) inversion method and then tested the effectiveness of this method on the McKillop–Geeves (MG) model of thin filament regulation. The kinetics of MG model is defined by a set of nonlinear ordinary differential equations (ODEs) that predict the evolution of troponin–tropomyosin–actin and actin–myosin states. The values of the rate constants are estimated by integrating these ODEs numerically and fitting them to a series of stopped-flow pyrene fluorescence transients of myosin-S1 fragment binding to regulated actin in solution. The accuracy and robustness of the estimated rate constants are evaluated for DLS and two other methods, namely quasi-Newton (QN) and simulated annealing (SA). The comparison of these methods revealed that SA provides the best estimates of the model parameters because of its global optimization scheme. However it converges slowly and does quantify the uniqueness of the estimated parameters. On the other hand the QN method converges rapidly but only if the initial guess of the parameters is close to the optimum values, otherwise it diverges. Overall, the DLS method proves to be the most convenient method. It converges fast and was able to provide excellent estimates of kinetic parameters. Furthermore, DLS provides the model resolution matrix, which quantifies the interdependence of model parameters thereby evaluating the uniqueness of their estimated values. This property is essential for estimating of the dependence of the model parameters on experimental conditions (e.g. Ca²⁺ concentration) when it is assessed from noisy experimental data such as pyrene fluorescence from stopped-flow transients. The advantages of the DLS method observed in this study should be further examined in other physicochemical systems to firmly establish the observed effectiveness of DSL vs. the other parameter estimation methods.     

Linear interval inequalities

We prove that a system of linear inequalities with interval-valued data is weakly solvable (each system obtained by fixing coefficeints in the intervals prescribed has a solution) if and only if it is strongly solvable (all such systems have a solution in common) and desribe an algorithm for checking strong solvability.     

Monotonicity properties of operations on generalized topologies

Summary In the paper [5], several operations on generalized topologies are considered. They are not monotone in general, but an old result on monotonicity may be sharpened.     

Experimental characterisation, optimisation and design of erbium-doped silica fibre lasers

A new characterisation method is described using the new theoretical model for erbium-doped silica fibre lasers (EDSFLs) based on the energy conservation principle. Using this method, we obtained absorption and emission coefficients for the lasing wavelength at lasing operating conditions. After that, an experimental procedure to deduce the spectral profiles of the absorption and emission coefficients is also presented. This procedure allows us to obtain the values of these parameters for the whole fluorescence spectrum through measurements of gain profiles under the lasing operation. Once the absorption and emission coefficients are known, the new model can be applied and a comparison with experimental results for two different laser configurations is shown. The theoretical model is proved to be accurate and in addition some equations are developed to allow the design and optimisation of EDSFLs. This revised version was published online in March 2005. In the previous version, the published online date was missing     

A technique for mycelial development of ectomycorrhizal fungi on agar media

A technique was established to study ectomycorrhizal fungi on agar media. Petri dishes, 60 mm in diameter, containing 10 mL of culture medium covered with a cellophane disk were used for easy collection of the mycelium after growth. For analysis of fungal biomass production, a sterilized cellophane sheet was placed on the medium’s surface. Inoculation was achieved by placing a mycelial block onto the center of the cellophane sheet and then incubating at 25°C in the dark. Colony radial growth was measured and biomass dry wt was determined. Fresh mycelia were homogenized with 10 mL of acetate buffer (pH 5.5) for enzyme analysis. A crude extract was obtained by adding all culture medium to 90 mL of distilled water and homogenizing in a Potter. Reducing sugars, enzyme concentration, and pH were determined. Three fungal strains, Suillus collinitus, Pisosithus arrhizus, and Hebeloma cylindrosporum, were grown in different culture media (potato dextrose agar or Pintro’s medium). Parameters measured over time included glucose concentration, phosphatase activity, biomass, and pH.     

Fixed bed adsorption of benzothiophene over zeolites with faujasite structure

This work addresses the adsorption of benzothiophene (BT), as a model heterocyclic and aromatic sulphur compound present in road fuels, over agglomerated zeolites with faujasite structure. Several adsorbents based on zeolites with FAU structure have been prepared with different Si/Al molar ratios and exchange cations and then agglomerated. The influence of the zeolite basicity has been studied, both in equilibrium and dynamic liquid phase adsorption experiments. Basicity of the adsorbent increased as the Si/Al molar ratio and the electronegativity of the exchange cation decreased. In equilibrium experiments, the affinity towards the adsorbent increased as the Si/Al molar ratio decreased, showing the highest affinity for exchanged low silica X zeolites with medium basicity (A-KLSX-02). Dynamic experiments showed that the less zeolite basicity, the higher fractional bed utilization and adsorption capacity at breakthrough time. Besides, zeolites with high basicity did not reach the equilibrium capacity due to the low diffusivity of BT into the micropores. Thermogravimetric analyses of the spent adsorbents showed a stronger BT adsorption onto the more basic zeolites. As main conclusion, adsorbents with medium basicity could present the best performance in fuel desulphurization due to their high affinity with sulphur compounds, although diffusion problems should be taken into account.     

High Loading Efficiency and Controlled Release of Bioactive Immunotherapeutic Proteins Using Vaterite Nanoparticles

Nanoparticles may limit off-tumor/on-target ubiquitous activation of signaling by protein-based drugs. However, many challenges still exist in the design of a nanoparticle for protein delivery. In this study, conditions to establish vaterite nanoparticles as a pH-sensitive drug delivery system (DDS) for encapsulated protein drugs are comprehensively evaluated. Low coprecipitation pH of vaterite and protein prevents protein denaturation and yields high loading efficiency. Unprotected vaterite recrystallizes in aqueous solutions within 3 h to calcite and releases the loaded protein completely, but surface-modified particles with carboxyl groups containing polymers prove stable for more than 5 months. Notably, modification of vaterite with sulfonated polymers increases the loading of cationic proteins by a multiple. A system is developed for vaterite exposure to (pH) conditions under body-like-flow rates, with the dissolution of vaterite and simultaneous release of active proteins at tumor microenvironmental pH reaching up to 80% and only 20% at physiological pH within 2 h. Importantly, the immunomodulatory protein tumor necrosis factor preserves its native structure and fully retains functional activity in vitro after release from the particles. In conclusion, the studies described here provide a framework for the development of vaterite-based DDS as a carrier for bioactive protein-based therapeutics.