Protein solubility modeling.

A thermodynamic framework (UNIQUAC model with temperature dependent parameters) is applied to model the salt-induced protein crystallization equilibrium, i.e., protein solubility. The framework introduces a term for the solubility product describing protein transfer between the liquid and solid phase and a term for the solution behavior describing deviation from ideal solution. Protein solubility is modeled as a function of salt concentration and temperature for a four-component system consisting of a protein, pseudo solvent (water and buffer), cation, and anion (salt). Two different systems, lysozyme with sodium chloride and concanavalin A with ammonium sulfate, are investigated. Comparison of the modeled and experimental protein solubility data results in an average root mean square deviation of 5.8%, demonstrating that the model closely follows the experimental behavior. Model calculations and model parameters are reviewed to examine the model and protein crystallization process.     

Hydrolysis of soluble starch using Bacillus licheniformis alpha-amylase immobilized on superporous CELBEADS

In the present work, indigenously prepared rigid superporous (pore size of approximately 3 microm) cross-linked cellulose matrix (CELBEADS) has been used as a support for the immobilization of Bacillus licheniformis alpha-amylase (BLA). Optimum pH and temperature, and Michaelis-Menten constants were determined for both free and immobilized BLA. Immobilized BLA was observed to produce a different saccharide profile than free BLA at any value of dextrose equivalent. It was observed that pH, temperature, and initial starch concentration has a significant effect on the saccharide profile of starch hydrolysate produced using immobilized BLA in the batch mode, whereas the ratio of concentration of enzyme units to initial starch concentration has no influence on the same. Hence immobilized BLA can be used as an additional tool for production of maltodextrins with different saccharide profiles. Immobilized BLA has better thermostability than free BLA. Immobilized BLA was found to retain full activity even after eight batches of hydrolysis, each of 8h duration at 55 degrees C and 90 mg/mL initial starch concentration. A semiempirical model has been used for the prediction of saccharide composition of starch hydrolysate with respect to time.     

Theoretical Differential Phase Analysis for Characterization of Aqueous Solution Using Surface Plasmon Resonance

Surface plasmon resonance (SPR)-based differential phase analysis has been presented. Real as well as complex plane analysis of resonance parameters have been undertaken for the optimum selection of metal thicknesses in a bimetallic SPR configuration working under both angular and spectral regime. Theoretically, we can characterize the aqueous solution in terms of this differential phase variation due to the variation of sample parameters such as concentration and temperature. In this respect, two case studies, namely, concentration of hemoglobin in human blood and sensing of temperature of water have been demonstrated and proposed theoretically. By monitoring the change of differential phase, proposed approach leads to a very sensitive measurement of concentration and temperature.     

Ionic transport in lipid bilayer membranes.

The current-voltage relationships of model bilayer membranes have been measured in various phospholipid systems, under the influence of both a gradient of potential and an ionic concentration, in order to describe the ion translocation through hydrated transient defects (water channels) across the bilayer formed because of lipid structure fluctuations and induced by temperature. The results have been analyzed in the light of a statistical rate theory for the transport process across a lipid bilayer, recently proposed by Skinner et al. (1993). In order to take into account the observed I-V curves and in particular the deviation from an ohmic behavior observed at high potential values, the original model has been modified, and a new version has been proposed by introducing an additional kinetic process. In this way, a very good agreement with the experimental values has been obtained for all of the systems we have investigated (dimyristoylphosphatidyl ethanolamine bilayers and mixed systems composed by dimyristoylphosphatidyl ethanolamine/dimyristoylphosphatidylcholine mixtures and dimyristoylphosphatidyl ethanolamine/phosphatidic acid dipalmitoyl mixtures). The rate constants governing the reactions at the bilayer interfaces have been evaluated for K+ and Cl- ions, as a function of temperature, from 5 to 35 degrees C and bulk ionic concentrations from 0.02 to 0.2 M. Finally, a comparison between the original model of Skinner and the modified version is presented, and the advantages of this new formulation are briefly discussed.     

Temperature modulation of bovine hemoglobins

The functional properties of hemoglobin from Egyptian water buffalo have been characterized as a function of pH, temperature and chloride concentration. Alongside overall similarities shared with ox and Arctic ruminant hemoglobins, hemoglobin from buffalo shows significant differences with respect to the effect of temperature. The results obtained may suggest that the limited effect of temperature on oxygen binding recently reported for ox hemoglobin could be regarded as an interesting case of a reminiscence of a past glacial age.     

Modeling and optimising of dextrose fermentation using a fluorosensor

Dextrose has been fermented in a Tokyo Rikakikai fermentor at five different temperatures ranging from 28 to 31v°C with Saccharomyces cerevisiae (Baker's yeast) as seeding. The progress of the reaction was recorded by measuring the fluorescence signal due to intracellular reduced nicotinamide adenine di nucleotide (NADH) present in the cells with a Dr. Ingold (Switzerland) fluorosensor which has an excitation wavelength of 360 nm and measurement wavelength of 450 nm. The optimum temperature which gave maximum growth rate and maximum biomass concentration in minimum time was found to be 28v°C. The fluorescent voltage data fitted a first order model with an average absolute deviation of less than one percent. Development of this model is useful in design of model predictive controllers.     

苦参配方的醇提工艺优化及抑菌活性研究

利用响应面法设计实验优化苦参抑菌配方的回流提取工艺,以配方对金黄色葡萄球菌抑菌率作为响应值,通过考察提取工艺的单因素:浸泡时间、回流时间、水浴温度、液料比、乙醇体积分数等,选取具有显著影响的参数作为响应面实验设计变量。经过数学模型预测与验证实验确定最优提取工艺为:乙醇体积分数80. 5%、回流时间1. 6h、水浴温度95℃。在0. 003 g/m L生药给药条件下,最优工艺的醇提物的抑菌率达到94. 29%。验证结果稳定且与预测值偏差低于2%,该工艺合理可行。优化后的工艺下,所提浸膏对枯草芽孢杆菌有良好的抑制作用,对大肠杆菌抑制作用较弱。     

The reversible heat denaturation of chymotrypsinogen

Within a restricted range of pH and protein concentration crystalline chymotrypsinogen undergoes thermal denaturation which is wholly reversed upon cooling. At a given temperature an equilibrium exists between native and reversibly denatured protein. Within the pH range 2 to 3 the amount of denatured protein is a function of the third power of the hydrogen ion activity. The presence of small amounts of electrolyte causes aggregation of the reversibly denatured protein. A specific anion effect has been observed at pH 2 but not at pH 3. Both the reversible denaturation reaction and the reversal reaction have been found to be first order reactions with respect to protein and the kinetic and thermodynamic constants for both reactions have been approximated at pH 2 and at pH 3. Renatured chymotrypsinogen has been found to be identical with native chymotrypsinogen with respect to crystallizability, solubility, activation to δ-chymotrypsin, sedimentation rate, and behavior upon being heated. Irreversible denaturation of chymotrypsinogen has been found to depend on pH, temperature, protein concentration, and time of heating. Irreversible denaturation results in an aggregation of the denatured protein.     

A Process-Based Mathematical Model on Methane Production with Emission Indices for Control

In this paper, a process-based mathematical model is developed for the production of methane through biodegradation. It is a three-dimensional model given by ordinary differential equations. The results of the analysis of the model are interpreted through three emission indices, which are introduced for the first time. The estimation of either one or all of them can interpret the feasibility of the equilibrium and the long-term emission tendency of methane. The vulnerability of the methane production process with respect to soil temperature effects in methanogenic phase has been discussed and a feasible condition within a specified temperature range has defined for the nonvulnerability of the methane production process and also it has shown that under the same condition, zero-emission process of methane will be nonvulnerable with respect to the soil temperature effects in methanogenic phase. Lastly, condition for zero emission of methane is also obtained and it is interpreted through the emission indices.     

Determination of unbound concentration of the novel anti-tumour agent 5,6-dimethylxanthenone-4-acetic acid in human plasma by ultrafiltration followed by high-performance liquid chromatography with fluorimetric detection

The novel anti-tumour agent 5,6-dimethylxanthenone-4-acetic acid (DMXAA) is a highly protein bound drug with narrow therapeutic window. We report a simple HPLC method with fluorimetric detection for the determination of free DMXAA concentration in human plasma. Sample preparation involves the ultrafiltration of plasma by a Centrisart device for 30 min at 2000 g and extraction with acetonitrile: methanol mixture. The method was validated with respect to recovery, selectivity, linearity, precision, and accuracy. Calibration curves for DMXAA were constructed at the concentration range of 0.5–40 μM in blank plasma and phosphate buffer. The difference between the theoretical and calculated concentration and the relative standard deviation were less than 10% at all quality control (QC) concentrations. The HPLC method has been used for the analysis of preclinical studies.     

Nest temperature, incubation period, and investment decisions of incubating wood ducks Aix sponsa

Incubating birds must balance their energetic demands with the time needed to provide care to developing embryos. Reduced care by incubating parents can result in longer incubation periods that increase predation risk and potentially influence neonate phenotype. We measured nest temperature, incubation period, and body mass dynamics of female wood ducks Aix sponsa , and used an information-theoretic approach to investigate effects of several explanatory variables on incubation period and thermal characteristics of nests. A model that included clutch size and standard deviation of nest temperature best explained the variation in incubation period. Parameter estimates indicated that incubation period increased with increases in clutch size and standard deviation of nest temperature. Next, we examined relationships between maternal effects and the standard deviation of the nest temperature. The best fitting model included initiation date of incubation. There was little support for including early incubation body mass of females, incubation constancy, and percent change in female body mass in the model. The parameter estimate showed that standard deviation of nest temperature declined as initiation date of incubation advanced. Female body mass at the start of incubation was not related to structural size suggesting that heavy females were in better physical condition than were light females. Heavy females nested earlier and lost more body mass during incubation than light females, but heavy females did not reduce variation in nest temperature to decrease the incubation period. The fact that early nesting females in good physical condition did not shorten incubation periods by keeping nest temperatures less variable could have been due to either energetic limitations or restraints. Experimental manipulations of incubation costs will be needed to distinguish between these hypotheses.     

Kinetic co-operativity of monomeric mnemonical enzymes. The significance of the kinetic Hill coefficient

The expression of the kinetic Hill coefficient for a two-substrate, two-product mnemonical enzyme has been derived. Its relation with the gamma coefficient, that is the slope of the reciprocal plots for 1/[A]----O, has been established. The variation of this Hill coefficient, as a function of the second substrate and product concentrations, has been studied theoretically. Whereas the gamma coefficient does not vary as a function of the substrate and first product concentrations, the kinetic Hill coefficient does. If the enzyme is positively co-operative, the Hill coefficient increases upon increasing the second substrate concentration and decreases if the first product concentration is increased. The converse is expected to occur if the enzyme displays a negative co-operativity. The last product may either reverse a positive co-operativity into a negative one or, alternatively, strengthen an already negative co-operativity. The co-operativity generated by the mnemonical model has been compared to the kinetic behaviour of a random model. These two models have been shown to be discriminated on the basis of the departure they show with respect to the Michaelis-Menten behaviour. These theoretical considerations have been applied to previously published data, obtained with wheat germ hexokinase LI. This monomeric enzyme has a negative co-operativity with respect to the preferred substrate, glucose. The Hill coefficient decreases with MgATP concentration, increases with MgADP concentration and decreases with glucose-6-phosphate concentration. This is exactly what is to be expected on the basis of the above theory of kinetic co-operativity.     

Hierarchical modelling of acclimatory processes

The term acclimation has been used with several connotations in the field of acclimatory physiology. An attempt has been made, in this paper, to define precisely the term “acclimation” for effective modelling of acclimatory processes. Acclimation is defined with respect to a specific variable, as cumulative experience gained by the organism when subjected to a step change in the environment. Experimental observations on a large number of variables in animals exposed to sustained stress, show that after initial deviation from the basal value (defined as “growth”), the variables tend to return to basal levels (defined as “decay”). This forms the basis for modelling biological responses in terms of their growth and decay.Hierarchical systems theory as presented by Mesarovic, Macko & Takahara (1970) facilitates modelling of complex and partially characterized systems. This theory, in conjunction with “growth-decay” analysis of biological variables, is used to model temperature regulating system in animals exposed to cold. This approach appears to be applicable at all levels of biological organization. Regulation of hormonal activity which forms a part of the temperature regulating system, and the relationship of the latter with the “energy” system of the animal of which it forms a part, are also effectively modelled by this approach. It is believed that this systematic approach would eliminate much of the current circular thinking in the area of acclimatory physiology.     

Modeling and optimization of alpha-amylase production in a recombinant yeast fed-batch culture taking account of the cell cycle population distribution.

A simple mathematical model describing the cell cycle dependency of rice alpha-amylase production by a recombinant yeast was constructed to investigate the efficiency of cell cycle population control. First, the effects of the glucose concentration and cultivation temperature on the specific growth rate, the specific production rate of rice alpha-amylase, and the distribution of the cell cycle population were studied under balanced growth conditions. On the basis of the results, parameter values for the mathematical model were then estimated. The proposed model was shown to be applicable for unbalanced as well as balanced growth phases. The optimal control strategy in respect of temperature and glucose concentration for maximum rice alpha-amylase production, taking into account the cell cycle population, was determined and the result was compared with that obtained by a simple mathematical model in which cell cycle distribution was not considered. Finally, the effect of the initial population of each cell cycle phase on the final amount of the product under optimal operational conditions was investigated. The simulation and experimental data coincided well with each other, and the model was used to optimize the control strategy for maximum alpha-amylase production.     

Multivariate models for prediction of rheological characteristics of filamentous fermentation broth from the size distribution

The main purpose of this article is to demonstrate that principal component analysis (PCA) and partial least squares regression (PLSR) can be used to extract information from particle size distribution data and predict rheological properties. Samples from commercially relevant Aspergillus oryzae fermentations conducted in 550 L pilot scale tanks were characterized with respect to particle size distribution, biomass concentration, and rheological properties. The rheological properties were described using the Herschel-Bulkley model. Estimation of all three parameters in the Herschel-Bulkley model (yield stress (tau(y)), consistency index (K), and flow behavior index (n)) resulted in a large standard deviation of the parameter estimates. The flow behavior index was not found to be correlated with any of the other measured variables and previous studies have suggested a constant value of the flow behavior index in filamentous fermentations. It was therefore chosen to fix this parameter to the average value thereby decreasing the standard deviation of the estimates of the remaining rheological parameters significantly. Using a PLSR model, a reasonable prediction of apparent viscosity (micro(app)), yield stress (tau(y)), and consistency index (K), could be made from the size distributions, biomass concentration, and process information. This provides a predictive method with a high predictive power for the rheology of fermentation broth, and with the advantages over previous models that tau(y) and K can be predicted as well as micro(app). Validation on an independent test set yielded a root mean square error of 1.21 Pa for tau(y), 0.209 Pa s(n) for K, and 0.0288 Pa s for micro(app), corresponding to R(2) = 0.95, R(2) = 0.94, and R(2) = 0.95 respectively.     

Two phase aqueous extraction

Rheological properties have been measured for aqueous solutions of dextran, polyethylene glycol and bovine serum albumin. Mixtures of these materials have also been studied. A rotating concentric cylinder viscometer was used to study the rheological properties of these materials over the temperature range 10 to 40°C. Over the range of concentrations, molecular weights, temperature and shear rates covered in this work, all aqueous solutions exhibited Newtonian behaviour. Correlations have been reported for viscosities of dextran, polyethylene glycol, and bovine serum albumin. The viscosity of mixtures of these materials is not linear with respect to concentration.     

Control in bioreactors showing gradients

In large-scale bioreactors gradients often occur as a result of non-ideal mixing. This phenomenon complicates design and control of large-scale bioreactors. Gradients in the oxygen concentration can be modeled with a two-compartment model of the liquid phase. Application of this model had been suggested for the control of the dissolved oxygen concentration with a batch gluconic acid fermentation process as the model system. The control system consists of a controller, an observer and a parameter estimator. In this work, the controller design is reconsidered and, in simulation experiments, the performance of the control system has been investigated. When the parameter values are known, the controller in combination with the observer works adequately. The parameter estimator, however, yields incorrect parameters, which are caused by a coupling between two parameters. This causes a deviation of the estimated states from the process states. The simulation results suggest that a priori knowledge of the parameters is required for application of the model for control and state estimation.     

Further investigations of the transient kinetics of alcohol oxidation catalysed by horse liver alcohol dehydrogenase

Due to the controversy over the half-of-the-sites reactivity of horse liver alcohol dehydrogenase during benzyl alcohol oxidation, we have re-investigated the transient kinetics, stoichiometry and rate parameters over a wide range of substrate concentrations (0.05 mm to 40 mm) at pH 7.0 and 8.5 and using newly determined extinction coefficients. Data were elaborated by computer analysis in order to separate the initial rapid step (burst) from the whole time-course of the reaction. It has been found that: (1) the dependence of the burst amplitude upon benzyl alcohol concentration is distinctly biphasic. In the range from 0.05 mm up to approximately 1 mm the burst amplitude is rather insensitive to changes in alcohol concentration and corresponds to 50% of the active sites of the enzyme; for alcohol concentrations greater than 1 mm this amplitude increases and reaches a value of approximately 90% when benzyl alcohol is 40 mm. (2) The steady-state initial rate is also biphasic with respect to alcohol concentration, indicative of substrate inhibition, which begins in the concentration range at which deviation from the half-burst also appears. In other words, burst amplitudes larger than 50% are concomitant with inhibition of the rate of enzyme turnover. (3) In the presence of isobutyramide the burst is larger than 50% for the whole range of concentration of the substrate and extrapolates at infinite substrate concentration to approximately 90% of the enzyme sites. (4) With deuteroethanol as substrate, the burst is larger than 50%, with or without isobutyramide, and extrapolates to approximately 95% of the enzyme sites at infinite substrate concentration. These data explain the discrepancy of results in the literature concerning the transient kinetics of alcohol oxidation. Mechanistic implications of the results (particularly the deviation from the halfof-the-sites behaviour of benzyl alcohol under inhibition conditions) are discussed.