ALBERT

Notes: Abstract In Xenopus and Drosophila, the nucleocytoplasmic ratio controls many aspects of cell-cycle remodeling during the transitory period that leads from fast and synchronous cell divisions of early development to the slow, carefully regulated growth and divisions of somatic cells. After the fifth cleavage in sea urchin embryos, there are four populations of differently sized blastomeres, whose interdivision times are inversely related to size. The inverse relation suggests nucleocytoplasmic control of cell division during sea urchin development as well. To investigate this possibility, we developed a mathematical model based on molecular interactions underlying early embryonic cell-cycle control. Introducing the nucleocytoplasmic ratio explicitly into the molecular mechanism, we are able to reproduce many physiological features of sea urchin development.

Notes: Abstract The irregular sequence of counts of a microbial population, in the absence of observable corresponding environmental changes (e.g., temperature), can be regarded as reflecting the interplay of several unknown or random factors that favor or inhibit growth. Since these factors tend to balance one another, the fluctuations usually remain within bounds, and only by a coincidence—when all or most act in unison—does an ‘outburst’ occur. This situation can be represented mathematically as a sequence of independent random variables governed by a probability distribution. The concept was applied to reported microbial counts of ground meat and wastewater. It is found that the lognormal distribution could serve as a model, and that simulations from this model are indistinguishable from actual records. The parameters of the lognormal (or other) distribution can then be used to estimate the probability of a population outburst, i.e., an increase above a given threshold. Direct estimation of the outburst probability based on frequency of occurrence is also possible, but in some situations requires an impractically large number of observations. We compare the efficiency of these two methods of estimation. Such methods enable translation of irregular records of microbial counts into actual probabilities of an outburst of a given magnitude. Thus, if the environment remains ’stable’ or in dynamic equilibrium, the fluctuations should not be regarded merely as noise, but as a source of information and an indicator of potential population outbursts even where obvious signs do not exist.

Notes: Abstract During an immune response, the affinity of antibodies that react with the antigen that triggered the response increases with time, a phenomenon known as affinity maturation. The molecular basis of affinity maturation has been partially elucidated. It involves the somatic mutation of immunoglobulin V-region genes within antigen-stimulated germinal center B cells and the subsequent selection of high affinity variants. This mutation and selection process is extremely efficient and produces large numbers of high affinity variants. Studies of the architecture of germinal centers suggested that B cells divide in the dark zone of the germinal center, then migrate to the light zone, where they undergo selection based on their interaction with antigen-loaded follicular dendritic cells, after which they exit the germinal center through the mantle zone. Kepler and Perelson questioned this architecturally driven view of the germinal center reaction. They, as well as others, argued that the large number of point mutations observed in germinal center B cell V-region genes, frequently 5 to 10 and sometimes higher, would most likely render cells incapable of binding the antigen, if no selection step was interposed between rounds of mutations. To clarify this issue, we address the question of whether a mechanism in which mutants are generated and then selected in one pass, with no post-selection amplification, can account for the observed efficiency of affinity maturation. We analyse a set of one-pass models of the germinal center reaction, with decaying antigen, and mutation occurring at transcription or at replication. We show that under all the scenarios, the proportion of high affinity cells in the output of a germinal center varies logarithmically with their selection probability. For biologically realistic parameters, the efficiency of this process is in clear disagreement with the experimental data. Furthermore, we discuss a set of, possibly counterintuitive, more general features of one-pass selection models that follow from our analysis. We believe that these results may also provide useful intuitions in other cases where a population is subjected to selection mediated by a selective force that decays over time.

Notes: Abstract Simple predator-prey models often predict extreme instability in interactions where the prey are depressed well below their carrying capacity. Although the behaviour of some laboratory systems conforms to this pattern, field and mesocosm studies generally show prolonged co-existence of prey and predator. Prominent among the possible causes of this discrepancy are the effects of spatial heterogeneity. In this paper we show that both discrete and continuous representations of the spatial Rosenzweig-McArthur model with immobile prey can be stabilized by self-organized prey heterogeneity. This concordance of behaviour closely parallels that which we have previously established in the context of invasion waves. We use the continuous model variant to calculate the characteristic spatial scales of the self-organized structures. The discrete variant forms the basis of a simulation study demonstrating the variety of stable structures and elucidating their relation to the history of the system. We note that all stable prey distributions take the form of a network of occupied patches separated by prey-free regions, and liken the process which generates such assemblages to the formation of a landscape mozaic.

Notes: Abstract Multistage mathematical models of carcinogenesis (when applied to tumor incidence data) have historically assumed that the growth kinetics of cells in the malignant state are disregarded and the formation of a single malignant cell is equated with the emergence of a detectable tumor. The justification of this simplification is, from a mathematical point of view, to make the estimation of tumor incidence rates tractable. However, analytical forms are not mandatory in the estimation of tumor incidence rates. Portier et al. (1996b, Math. Biosci. 135, 129–146) have demonstrated the utility of the Kolmogorov backward equations in numerically calculating tumor incidence. By extending their results, the cumulative distribution function of the time to a small observable tumor may be numerically obtained.

Notes: Abstract An analytic formalism developed earlier to describe the time evolution of the basic enzyme reaction is extended to fully competitive systems. Time-dependent closed form solutions are derived for the three nominal cases of competition: even, slow and fast inhibitors, allowing for the first time the complete characterization of the reactions. In agreement with previous work, the time-independent Michaelis-Menten approach is shown to be inaccurate when a fast inhibitor is present. The validity of the quasi-steady-state approximation on which the present framework is based is also revised.

Notes: Abstract A simple model of macroparasitic infections has been used to evaluate the potential use of parasites as biological tags of fish populations. In the model, the parasite-host interaction is regulated by a birth-death process, and parasites can only be acquired by the non-specific migratory host population in a particular area of the space domain. In this case, we show that parasites can be succesfully used for stocks identification and to describe the migratory routes taken by some marine fish species.

Notes: Abstract We investigate the effect of migration between local populations of a single discrete-generation species living in a ring or an array of habitats. The commonly used symmetric dispersal assumption is relaxed to include the biologically more reasonable asymmetric dispersion. It is demonstrated analytically that density independent migration has no effect on the equilibrium stability of individual populations. However, the positive equilibrium may be destabilizing if the migration is density dependent in such a way that it increases with increasing population density at the source patch.

Notes: Abstract A continuum model for a heterogeneous collection of excitable cells electrically coupled through gap junctions is introduced and analysed using spatial averaging, asymptotic and numerical techniques. Heterogeneity is modelled by imposing a spatial dependence on parameters which define the single cell model and a diffusion term is used to model the gap junction coupling. For different parameter values, single cell models can exhibit bursting, beating and a myriad of other complex oscillations. A procedure for finding asymptotic estimates of the thresholds between these (synchronous) behaviors in the cellular aggregates is described for the heterogeneous case where the coupling strength is strong. This procedure is tested on a model of a strongly coupled heterogeneous collection of bursting and beating cells. Since isolated pancreatic β-cells have been observed to both burst and beat, this test of the spatial averaging techniques provides a possible explanation to measured discrepancies between the electrical activities of isolated β-cells and coupled collections (islets) of β-cells.

Notes: Abstract We describe the dynamics of competing species in terms of interactions between spatial moments. We close the moment hierarchy by employing a Gaussian approximation which assumes that fluctuations are independent and distributed normally about the mean values. The Gaussian approximation provides the lowest-order systematic correction to the mean-field approximation by incorporating the effect of fluctuations. When there are no fluctuations in the system, the mean equations agree with the Gaussian approximation as the fluctuations are weak. As the fluctuations gain strength, they influence the mean quantities and hence the Gaussian approximation departs from the mean-field approximation. At large fluctuation levels, the Gaussian approximation breaks down, as may be explained by the bimodality and skewness of the fluctuation distribution of the partial differential equation.

Notes: Abstract The multipole approach to the inverse electrocardiological problem consists of estimating the multipole components of the cardiac electric generator, starting from the measured body surface potential. This paper presents a critical investigation of the basic premise for the applicability of the multipole approach, namely the convergence of the multipole equivalent generator for the heart on the surface of an inhomogeneous body conductor. As an extension to multipole theory, a criterion for the convergence is derived. Based on realistic models for the body conductor and the cardiac electric generator, we observe that the criterion is not strictly satisfied in realistic conditions. Numerical simulations with the same models point out that the multipole equivalent generator is indeed not convergent in the strict mathematical sense. On the other hand, we show that the multipole equivalent generator yields a rather close approximation of the electrocardiological potential for intermediate values of the order of the multipole generator. A discussion is given on how to explain the apparently ambiguous results for the estimation of cardiac multipole components.

Notes: Abstract The continuous model of Anderson et al. (1981), Nature 289, 765–771, is successful in describing certain characteristics of rabies epizootics, in particular, the secondary recurrences which follow the initial outbreak; however, it also predicts the occurrence of exponentially small minima in the infected population, which would realistically imply extinction of the virus. Here we show that inclusion of a more realistic distribution of incubation times in the model can explain why extinction will not occur, and we give explicit parametric estimates for the minimum infected fox density which will occur in the model, in terms of the incubation time distribution.

Notes: Abstract The processes whereby developing neurones acquire morphological features that are common to entire populations (thereby allowing the definition of neuronal types) are still poorly understood. A mathematical model of neuronal arborizations may be useful to extract basic parameters or organization rules, hence helping to achieve a better understanding of the underlying growth processes. We present a parsimonious statistical model, intended to describe the topological organization of neuritic arborizations with a minimal number of parameters. It is based on a probability of splitting which depends only on the centrifugal order of segments. We compare the predictions made by the model of several topological properties of neurones with the corresponding actual values measured on a sample of honeybee (olfactory) antennal lobe neurones grown in primary culture, described in a previous study. The comparison is performed for three populations of segments corresponding to three neuronal morphological types previously identified and described in this sample. We show that simple assumptions together with the knowledge of a very small number of parameters allow the topological reconstruction of representative (bi-dimensional) biological neurones. We discuss the biological significance (in terms of possible factors involved in the determinism of neuronal types) of both common properties and cell-type specific features, observed on the neurones and predicted by the model.

Notes: Abstract We re-visit previous analyses of the classical Michaelis-Menten substrate-enzyme reaction and, with the aid of the reverse quasi-steady-state assumption, we challenge the approximation d[C]/dt ≈ 0 for the basic enzyme reaction at high enzyme concentration. For the first time, an approximate solution for the concentrations of the reactants uniformly valid in time is reported. Numerical simulations are presented to verify this solution. We show that an analytical approximation can be found for the reactants for each initial condition using the appropriate quasi-steady-state assumption. An advantage of the present formalism is that it provides a new procedure for fitting experimental data to determine reaction constants. Finally, a new necessary criterion is found that ensures the validity of the reverse quasi-steady-state assumption. This is verified numerically.

Notes: Abstract We analytically study the dynamics of evolving populations that exhibit metastability on the level of phenotype or fitness. In constant selective environments, such metastable behavior is caused by two qualitatively different mechanisms. On the one hand, populations may become pinned at a local fitness optimum, being separated from higher-fitness genotypes by a fitness barrier of low-fitness genotypes. On the other hand, the population may only be metastable on the level of phenotype or fitness while, at the same time, diffusing over neutral networks of selectively neutral genotypes. Metastability occurs in this case because the population is separated from higher-fitness genotypes by an entropy barrier: the population must explore large portions of these neutral networks before it discovers a rare connection to fitter phenotypes. We derive analytical expressions for the barrier crossing times in both the fitness barrier and entropy barrier regime. In contrast with ‘landscape’ evolutionary models, we show that the waiting times to reach higher fitness depend strongly on the width of a fitness barrier and much less on its height. The analysis further shows that crossing entropy barriers is faster by orders of magnitude than fitness barrier crossing. Thus, when populations are trapped in a metastable phenotypic state, they are most likely to escape by crossing an entropy barrier, along a neutral path in genotype space. If no such escape route along a neutral path exists, a population is most likely to cross a fitness barrier where the barrier is narrowest, rather than where the barrier is shallowest.

Notes: Abstract Measures of sexual dimorphism have been used extensively to predict the social organization and ecology of animal and human populations. There is, however, no universally accepted measure of phenotypic differences between the sexes. Most indices of sexual dimorphism fail to incorporate all of the information contained in a random data set. In an attempt to have a better alternative, an index is proposed to measure sexual dimorphism in populations that are distributed according to a probabilistic mixture model with two normal components. The index calculates the overlap between two functions that represent the contribution of each sex in the mixture. In order to assess such an index, sample means, variances and sizes of each sex are needed. As a consequence, the sample information used is greater than that used by other indices that take intrasexual variability into account. By evaluating some examples, our proposed index appears to be a more realistic measure of sexual dimorphism than other measures currently used.

Notes: Abstract While retinal defocus is believed to be myopigenic in nature, the underlying mechanism has remained elusive. We recently constructed a theory of refractive error development to investigate its fundamental properties. Our Incremental Retinal-Defocus Theory is based on the principle that the change in retinal-defocus magnitude during an increment of genetically-programmed ocular growth provides the requisite sign for the appropriate alteration in subsequent environmentally-induced ocular growth. This theory was tested under five experimental conditions: lenses, diffusers, occlusion, crystalline lens removal, and prolonged nearwork. Predictions of the theory were consistent with previous animal and human experimental findings. In addition, simulations using a MATLAB/SIMULINK model supported our theory by demonstrating quantitatively the appropriate directional changes in ocular growth rate. Thus, our Incremental Retinal-Defocus Theory provides a simple and logical unifying concept underlying the mechanism for the development of refractive error.

Notes: Abstract A dynamic energy budget (DEB) model describes the rates at which organisms assimilate and utilize energy from food for maintenance, growth, reproduction and development. We study the dynamic behavior of one particular DEB model, Kooijman’s κ rule model, whose key assumption is that somatic and reproductive tissues are competing for energy. We assume an environment in which the food density fluctuates either periodically or stochastically (pink noise). Both types of fluctuations stimulate growth; the magnitude of the (average) increase in size depends on both the strength and duration of the fluctuations. In a stochastic environment, the risk of mortality due to starvation increases with increasing fluctuation intensity. The mean lifespan is also a function of the model parameter κ characterizing the partitioning of energy between somatic and reproductive tissues. Organisms committing a large fraction of resources to reproduction endure periods of food shortage relatively well. The effects of food fluctuations on reproduction are complex. With stochastic food, reproduction in survivors increases with increasing fluctuation intensities, but lifetime reproduction decreases. Periodic fluctuations may enhance reproduction, depending on the value of κ. Thus, a variable food supply stimulates growth, increases mortality and may enhance reproduction, depending on life history.

Notes: Abstract Parathyroid hormone (PTH) paradoxically causes net bone loss (resorption) when administered in a continuous fashion, and net bone formation (deposition) when administered intermittently. Currently no pharmacological formulations are available to promote bone formation, as needed for the treatment of osteoporosis. The paradoxical behavior of PTH confuses endocrinologists, thus, a model bone resorption or deposition dependent on the timing of PTH administration would de-mystify this behavior and provide the basis for logical drug formulation. We developed a mathematical model that accounts for net bone loss with continuous PTH administration and net bone formation with intermittent PTH administration, based on the differential effects of PTH on the osteoblastic and osteoclastic populations of cells. Bone, being a major reservoir of body calcium, is under the hormonal control of PTH. The overall effect of PTH is to raise plasma levels of calcium, partly through bone resorption. Osteoclasts resorb bone and liberate calcium, but they lack receptors for PTH. The preosteoblastic precursors and preosteoblasts possess receptors for PTH, upon which the hormone induces differentiation from the precursor to preosteoblast and from the preosteoblast to the osteoblast. The osteoblasts generate IL-6; IL-6 stimulates preosteoclasts to differentiate into osteoclasts. We developed a mathematical model for the differentiation of osteoblastic and osteoclastic populations in bone, using a delay time of 1 hour for differentiation of preosteoblastic precursors into preosteoblasts and 2 hours for the differentiation of preosteoblasts into osteoblasts. The ratio of the number of osteoblasts to osteoclasts indicates the net effect of PTH on bone resorption and deposition; the timing of events producing the maximum ratio would induce net bone deposition. When PTH is pulsed with a frequency of every hour, the preosteoblastic population rises and decreases in nearly a symmetric pattern, with 3.9 peaks every 24 hours, and 4.0 peaks every 24 hours when PTH is administered every 6 hours. Thus, the preosteoblast and osteoblast frequency depends more on the nearly constant value of the PTH, rather than on the frequency of the PTH pulsations. Increasing the time delay gradually increases the mean value for the number of osteoblasts. The osteoblastic population oscillates for all intermittent administrations of PTH and even when the PTH infusion is constant. The maximum ratio of osteoblasts to osteoclasts occurs when PTH is administered in pulses of every 6 hours. The delay features in the model bear most of the responsibility for the occurrence of these oscillations, because without the delay and in the presence of constant PTH infusions, no oscillations occur. However, with a delay, under constant PTH infusions, the model generates oscillations. The osteoblast oscillations express limit cycle behavior. Phase plane analysis show simple and complex attractors. Subsequent to a disturbance in the number of osteoblasts, the osteoblasts quickly regain their oscillatory behavior and cycle back to the original attractor, typical of limit cycle behavior. Further, because the model was constructed with dissipative and nonlinear features, one would expect ensuing oscillations to show limit cycle behavior. The results from our model, increased bone deposition with intermittent PTH administration and increased bone resorption with constant PTH administration, conforms with experimental observations and with an accepted explanation for osteoporosis.

Notes: Abstract Density-independent and density-dependent, stochastic and deterministic, discrete-time, structured models are formulated, analysed and numerically simulated. A special case of the deterministic, density-independent, structured model is the well-known Leslie age-structured model. The stochastic, density-independent model is a multitype branching process. A review of linear, density-independent models is given first, then nonlinear, density-dependent models are discussed. In the linear, density-independent structured models, transitions between states are independent of time and state. Population extinction is determined by the dominant eigenvalue λ of the transition matrix. If λ ≤ 1, then extinction occurs with probability one in the stochastic and deterministic models. However, if λ 〉 1, then the deterministic model has exponential growth, but in the stochastic model there is a positive probability of extinction which depends on the fixed point of the system of probability generating functions. The linear, density-independent, stochastic model is generalized to a nonlinear, density-dependent one. The dependence on state is in terms of a weighted total population size. It is shown for small initial population sizes that the density-dependent, stochastic model can be approximated by the density-independent, stochastic model and thus, the extinction behavior exhibited by the linear model occurs in the nonlinear model. In the deterministic models there is a unique stable equilibrium. Given the population does not go extinct, it is shown that the stochastic model has a quasi-stationary distribution with mean close to the stable equilibrium, provided the population size is sufficiently large. For small values of the population size, complete extinction can be observed in the simulations. However, the persistence time increases rapidly with the population size.

Notes: Abstract Spatial pattern formation is one of the key issues in developmental biology. Some patterns arising in early development have a very small spatial scale and a natural explanation is that they arise by direct cell—cell signalling in epithelia. This necessitates the use of a spatially discrete model, in contrast to the continuum-based approach of the widely studied Turing and mechanochemical models. In this work, we consider the pattern-forming potential of a model for juxtacrine communication, in which signalling molecules anchored in the cell membrane bind to and activate receptors on the surface of immediately neighbouring cells. The key assumption is that ligand and receptor production are both up-regulated by binding. By linear analysis, we show that conditions for pattern formation are dependent on the feedback functions of the model. We investigate the form of the pattern: specifically, we look at how the range of unstable wavenumbers varies with the parameter regime and find an estimate for the wavenumber associated with the fastest growing mode. A previous juxtacrine model for Delta-Notch signalling studied by Collier et al. (1996, J. Theor. Biol. 183, 429–446) only gives rise to patterning with a length scale of one or two cells, consistent with the fine-grained patterns seen in a number of developmental processes. However, there is evidence of longer range patterns in early development of the fruit fly Drosophila. The analysis we carry out predicts that patterns longer than one or two cell lengths are possible with our positive feedback mechanism, and numerical simulations confirm this. Our work shows that juxtacrine signalling provides a novel and robust mechanism for the generation of spatial patterns.

Notes: Abstract Bioconvection occurs as the result of the collective behaviour of many microorganisms swimming in a fluid and is realized as patterns similar to those of thermal convection which occur when a layer of fluid is heated from below. We consider the phenomenon of pattern formation due to gyrotaxis, an orientation mechanism which results from the balance of gravitational and viscous torques acting on bottom-heavy micro-organisms. The continuum model of Pedley et al. (1988, J. Fluid. Mech. 195, 223–237) is used to describe the suspension. The system is governed by the Navier-Stokes equations for an incompressible fluid coupled with a micro-organism conservation equation. These equations are solved numerically using a conservative finite-difference scheme. To examine the dependence of the horizontal pattern wavelengths on the parameters, we consider two-dimensional solutions in a wide chamber using rigid side walls. The wavelengths of the numerical computations are in good agreement with the experimental observations and we provide the first computational examples of the commonly seen ‘bottom-standing’ plumes.

Notes: Abstract This article demonstrates how perceptual constraints of predators and the possibility that predators encounter prey both sequentially (one prey type at a time) and simultaneously (two or more prey types at a time) may influence the predator attack decisions, diet composition and functional response of a behavioural predator-prey system. Individuals of a predator species are assumed to forage optimally on two prey types and to have exact knowledge of prey population numbers (or densities) only in a neighbourhood of their actual spatial location. The system characteristics are inspected by means of a discrete-time, discrete-space, individual-based model of the one-predator-two-prey interaction. Model predictions are compared with ones that have been obtained by assuming only sequential encounters of predators with prey and/or omniscient predators aware of prey population densities in the whole environment. It is shown that the zero-one prey choice rule, optimal for sequential encounters and omniscient predators, shifts to abruptly changing partial preferences for both prey types in the case of omniscient predators faced with both types of prey encounters. The latter, in turn, become gradually changing partial preferences when predator omniscience is considered only local.

Notes: Abstract Mathematical models are useful for providing a framework for integrating data and gaining insights into the static and dynamic behavior of complex biological systems such as networks of interacting genes. We review the dynamic behaviors expected from model gene networks incorporating common biochemical motifs, and we compare current methods for modeling genetic networks. A common modeling technique, based on simply modeling genes as ON—OFF switches, is readily implemented and allows rapid numerical simulations. However, this method may predict dynamic solutions that do not correspond to those seen when systems are modeled with a more detailed method using ordinary differential equations. Until now, the majority of gene network modeling studies have focused on determining the types of dynamics that can be generated by common biochemical motifs such as feedback loops or protein oligomerization. For example, these elements can generate multiple stable states for gene product concentrations, state-dependent responses to stimuli, circadian rhythms and other oscillations, and optimal stimulus frequencies for maximal transcription. In the future, as new experimental techniques increase the ease of characterization of genetic networks, qualitative modeling will need to be supplanted by quantitative models for specific systems.

Notes: Abstract This paper introduces a simple stochastic model for waterfowl movement. After outlining the properties of the model, we focus on parameter estimation. We compare three standard least squares estimation procedures with maximum likelihood (ML) estimates using Monte Carlo simulations. For our model, little is gained by incorporating information about the covariance structure of the process into least squares estimation. In fact, misspecifying the covariance produces worse estimates than ignoring heteroscedasticity and autocorrelation. We also develop a modified least squares procedure that performs as well as ML. We then apply the five estimators to field data and show that differences in the statistical properties of the estimators can greatly affect our interpretation of the data. We conclude by highlighting the effects of density on per capita movement rates.

Notes: Abstract Models of particular epidemiological systems can rapidly become complicated by biological detail which can obscure their essential features and behaviour. In general, we wish to retain only those components and processes that contribute to the dynamics of the system. In this paper, we apply asymptotic techniques to an SEI-type model with primary and secondary infection in order to reduce it to a much simpler form. This allows the identification of parameter groupings discriminating between regions of contrasting dynamics and leads to simple approximations for the model’s transient behaviour. These can be used to follow the evolution of the developing infection process. The techniques examined in this paper will be applicable to a large number of similar models.

Notes: Abstract Theoretical and empirical arguments are used to support the growth kinetics of disseminated tumors. Employing viable hypotheses, it is established that Gompertzian growth of disseminated cancer cells can be derived from a number of theoretical considerations. Empirical methods are used to validate and confirm the theoretical assertions with the use of available data.

Notes: Abstract This article presents and analyses several cases in which the use of the cut-off effect is useful. It starts from the fact that an anesthetic effect of homologous agents is always expressible as a function of their chain lengths and that the cut-off point is a point at which the function vanishes. We then investigate four categories of results: (i) whole body effects. (ii) Cases in which the anesthetics affect the Hodgkin-Huxley parameters of a nerve. (iii) Molecular mechanisms of anesthetic action. (iv) The physical chemistry of the anesthetic process. Our discussion shows that it is possible to incorporate these apparently remote results into one framework. It also shows how to compare results that were gathered by independent measuring methods. In some instances we suggest an interpretation, in others we suggest a further gathering of experimental data. One of the deductions indicates that a weakness exists in the lipid theories of anesthesia.

Notes: Abstract A frequently used measure for the extent of cooperativity in ligand binding by allosteric proteins is the Hill coefficient. Hill coefficients can be measured for steady-state kinetic data and also for transient kinetic data. Here, the relationship between the two types of Hill coefficients is analysed. It is shown that a value of 1 for the ratio of the two Hill coefficients is a test for a concerted ligand-induced transition between two conformations of the protein, in accordance with the Monod-Wyman-Changeux model. A value of 1 for this ratio has recently been observed for a series of chaperonin GroEL mutants suggesting that ATP-induced allosteric transitions in this protein are concerted.

Notes: Abstract We consider a spatially explicit metapopulation model with interaction among the two nearest neighbors to relate, with a simple mathematical expression, chaos in the local, uncoupled, populations, the degree of interaction among patches, size of the metapopulation, and the stability of the synchronized attractor. Since synchronism is strongly correlated with extinction, our results can provide useful information on factors leading to population extinction.

Notes: Abstract A group of individuals resolve their disputes by a knockout tournament. In each round of the tournament, the remaining contestants form pairs which compete, the winners progressing to the next round and the losers being eliminated. The payoff received depends upon how far the player has progressed and a cost is incurred only when it is defeated. We only consider strategies in which individuals are constrained to adopt a fixed play throughout the successive rounds. The case where individuals can vary their choice of behaviour from round to round will be treated elsewhere. The complexity of the system is investigated and illustrated both by special cases and numerical examples.

Notes: Abstract Can we express biophysical neuronal models as integrate-and-fire (IF) models with leakage coefficients which are no longer constant, as in the conventional leaky IF model, but functions of membrane potential and other biophysical variables? We illustrate the answer to this question using the FitzHugh-Nagumo (FHN) model as an example. A novel IF type model, the IF-FHN model, which approximates to the FHN model, is obtained. The leakage coefficient derived in the IF-FHN model has nonmonotonic relationship with membrane potential, revealing at least in part the intrinsic mechanisms underlying the FHN models. The IF-FHN model correspondingly exhibits more complex behaviour than the standard IF model. For example, in some parameter regions, the IF-FHN model has a coefficient of variation of the output interspike interval which is independent of the number of inhibitory inputs, being close to unity over the whole range, comparable to the FHN model as we noted previously (Brown et al., 1999).

Notes: Abstract The biased random walk undergone by chemotactic bacteria such as Escherichia coli will be influenced at the microscopic level by flow in the ambient medium. In this paper, we model swimming bacteria being advected and rotated by a simple shear flow. Under certain scaling assumptions, we obtain an advection—diffusion equation for cell density, when the chemotactic response is small, which shows a coupling between the rotation and chemotaxis. We also present an alternative method for calculating the chemotactic flux in an unbounded region which is valid for more general chemotactic responses.

Notes: Abstract The formation of the primitive streak in early avian development marks the onset of gastrulation, during which large scale cell movement leads to a trilaminar blastoderm comprising prospective endodermal, mesodermal and ectodermal tissue. During streak formation a specialized group of cells first moves anteriorly as a coherent column, beginning from the posterior end of the prospective anterior-posterior axis (a process called progression), and then reverses course and returns to the most posterior point on the axis (a process called regression). To date little is known concerning the mechanisms controlling either progression or regression. Here we develop a model in which chemotaxis directs the cell movement and which is capable of reproducing the principal features connected with progression and regression of the primitive streak. We show that this model exhibits a number of experimentally-observed features of normal and abnormal streak development, and we propose a number of experimental tests which may serve to illuminate the mechanisms. This paper represents the first attempt to model the global features of primitive streak formation, and provides an initial stage in the development of a more biologically-realistic discrete cell model that will allow for variation of properties between cells and control over movement of individual cells.

Notes: Abstract The effect of recombination on genotypes can be represented in the form of P-structures, i.e., a map from the set of pairs of genotypes to the power set of genotypes. The interpretation is that the P-structure maps the pair of parental genotypes to the set of recombinant genotypes which result from the recombination of the parental genotypes. A recombination fitness landscape is then a function from the genotypes in a P-structure to the real numbers. In previous papers we have shown that the eigenfunctions of (a matrix associated with) the P-structure provide a basis for the Fourier decomposition of arbitrary recombination landscapes. Here we generalize this framework to include the effect of genotype frequencies, assuming linkage equilibrium. We find that the autocorrelation of the eigenfunctions of the population-weighted P-structure is independent of the population composition. As a consequence we can directly compare the performance of mutation and recombination operators by comparing the autocorrelations on the finite set of elementary landscapes. This comparison suggests that point mutation is a superior search strategy on landscapes with a low order and a moderate order of interaction p 〈 n/3 (n is the number of loci). For more complex landscapes 1-point recombination is superior to both mutation and uniform recombination, but only if the distance among the interacting loci (defining length) is minimal. Furthermore we find that the autocorrelation on any landscape is increasing as the distribution of genotypes becomes more extreme, i.e., if the population occupies a location close to the boundary of the frequency simplex. Landscapes are smoother the more biased the distribution of genotype frequencies is. We suggest that this result explains the paradox that there is little epistatic interaction for quantitative traits detected in natural populations if one uses variance decomposition methods while there is evidence for strong interactions in molecular mapping studies for quantitative trait loci.

Notes: Abstract We investigate bursting behaviour generated in an electrophysiological model of pituitary corticotrophs. The active and silent phases of this mode of bursting are generated by moving between two stable oscillatory solutions. The bursting is indirectly driven by slow modulation of the endoplasmic reticulum Ca2+ concentration. The model exhibits different modes of bursting, and we investigate mode transitions and similar modes of bursting in other Hodgkin-Huxley models. Bifurcation analysis and the use of null-surfaces facilitate a geometric interpretation of the model bursting modes and action potential generation, respectively.

Notes: Abstract Mean fitness is non-decreasing in the symmetry sector of the frequency trajectory followed in competitive replication at sublinear propagation rates (parabolic time course). This sector contains the pairwise symmetric distribution of species frequencies and its neighboring states, and represents at least half the possible states of an evolving sublinear system. States in the non-symmetry sector produce a negative rate of change in mean fitness. The heterogeneous steady state attained in a finite sublinear system is destabilized by formation of a variant with above-threshold fitness. Evolution in the post-steady-state interval elevates the fitness threshold for coexistence. Contrary to the proposition that ‘parabolic growth invariably results in the survival of all competing species’, only species with sufficient fitness to avoid subthreshold fitness survive.

Notes: Abstract Restriction-modification (RM) systems are cognate gene complexes that code for an endonuclease and a methylase. They are often thought to have developed in bacteria as protection against invading genetic material, e.g., phage DNA. The high diversity of RM systems, as observed in nature, is often ascribed to the coevolution of RM systems (which ‘invent’ novel types) and phages. However, the extent to which phages are insensitive to RM systems casts doubts on the effectiveness of RM systems as protection against infection and thereby on the reason for the diversity of RM systems. We present an eco-evolutionary model in order to study the evolution of the diversity of RM systems. The model predicts that in general diversity of RM systems is high. More importantly, the diversity of the RM systems is expressed either at the individual level or at the population level. In the first case all individuals carry RM systems of all sequence specificities, whereas in the second case they carry only one RM system or no RM systems at all. Nevertheless, in the second case the same number of sequence specificities are present in the population.

Notes: Abstract Autoinhibition of neurotransmitter release occurs via binding of transmitter to appropriate receptors. Experiments have provided evidence suggesting that the control of neurotransmitter release in fast systems is mediated by these inhibitory autoreceptors. Earlier, the authors formulated and analysed a mathematical model for a theory of release control in which these autoreceptors played a key role. The key experimental findings on which the release-control theory is based are: (i) the inhibitory autoreceptor has high affinity for transmitter under rest potential and shifts to low affinity upon depolarization; (ii) the bound (with transmitter) autoreceptor associates with exocytotic machinery Ex and thereby blocks it, preventing release of neurotransmitter. Release commences when depolarization shifts the autoreceptor to a low-affinity state and thereby frees Ex from its association with the autoreceptors. Here we extend the model that describes control of release so that it also accounts for release autoinhibition. We propose that inhibition is achieved because addition of transmitter, above its rest level, causes transition of the complex of autoreceptor and Ex to a state of stronger association. Relief of Ex from this state requires higher depolarization than from the weakly associated complex. In contrast to the weakly associated complex that only requires binding of transmitter to the autoreceptor to be formed, the transition to the strongly associated complex is induced by a second messenger, which is produced as a result of the receptor binding to transmitter. The theory explains the following experimental results (among others): for inhibition via transmitter or its agonists, the magnitude of inhibition decreases with depolarization; a plot of inhibition as a function of the concentration of muscarine (an acetylcholine agonist) yields an S-shaped curve that shifts to the right for higher depolarizations; the time course of release does not change when transmitter is added; the time course of release also does not change when transmitter antagonists are added, although quantal content increases; however, addition of acetylcholine esterase (an enzyme that hydrolyses acetylcholine) prolongs release.

Notes: Abstract Simple predator-prey type models have brought much insight into the dynamics of both nonspecific and antigen-specific immune responses. However, until now most attention has been focused on examining how the dynamics of interactions between the parasite and the immune system depends on the nature of the function describing the rate of activation or proliferation of immune cells in response to the parasite. In this paper we focus on the term describing the killing of the parasite by cell-mediated immune responses. This term has previously been assumed to be a simple mass-action term dependent solely on the product of the densities of the parasite and the immune cells and does not take into account a handling time (which we define as the time of interaction between an immune cell and its target, during which the immune cell cannot interact with and/or destroy additional targets). We show how the handling time (i) can be incorporated into simple models of nonspecific and specific immunity and (ii) how it affects the dynamics of both nonspecific and antigen-specific immune responses, and in particular the ability of the immune response to control the infection.

Notes: Abstract The contact process is used as a simple spatial model in many disciplines, yet because of the buildup of spatial correlations, its dynamics remain difficult to capture analytically. We introduce an empirically based, approximate method of characterizing the spatial correlations with only a single adjustable parameter. This approximation allows us to recast the contact process in terms of a stochastic birth-death process, converting a spatiotemporal problem into a simpler temporal one. We obtain considerably more accurate predictions of equilibrium population than those given by pair approximations, as well as good predictions of population variance and first passage time distributions to a given (low) threshold. A similar approach is applicable to any model with a combination of global and nearest-neighbor interactions.

Notes: Abstract The paper looks at a formulation of physiologically structured population models within which individual development is affected by a special form of demographic stochasticity, accounting for random success or failure at exploiting available resources. This frees models from the requirement that individual development is uniquely determined by physiology and environmental conditions. An expression is derived which describes the motion of cohorts through individual state space, and the results are applied to an idealized model of Daphnia feeding on algae.

Notes: Abstract A class of autocatalytic reaction networks based on template-dependent ligation and higher-order catalysis is analysed. Apart from an irreversible ligation reaction we consider only reversible aggregation steps that provide a realistic description of molecular recognition. The overall dynamics can be understood by means of replicator equations with highly non-linear interaction functions. The dynamics depends crucially on the total concentration c 0 of replicating material. For small c 0, in the hyperbolic growth regime, we recover the familiar dynamics of second-order replicator equations with its wealth of complex dynamics ranging from multi-stability to periodic and strange attractors as well as to heteroclinic orbits. For large c 0, in the parabolic growth regime, product inhibition becomes dominating and we observe a single globally stable equilibrium tantamount to permanent coexistence. In an intermediate parameter range we sometimes observe a behavior that is reminiscent of ’survival of the fittest’. Independently replicating species (Schlögl’s model) and the hypercycle are discussed in detail.

Notes: Abstract All organisms are composed of multiple chemical elements such as carbon, nitrogen and phosphorus. While energy flow and element cycling are two fundamental and unifying principles in ecosystem theory, population models usually ignore the latter. Such models implicitly assume chemical homogeneity of all trophic levels by concentrating on a single constituent, generally an equivalent of energy. In this paper, we examine ramifications of an explicit assumption that both producer and grazer are composed of two essential elements: carbon and phosphorous. Using stoichiometric principles, we construct a two-dimensional Lotka-Volterra type model that incorporates chemical heterogeneity of the first two trophic levels of a food chain. The analysis shows that indirect competition between two populations for phosphorus can shift predator—prey interactions from a (+, −) type to an unusual (−, −) class. This leads to complex dynamics with multiple positive equilibria, where bistability and deterministic extinction of the grazer are possible. We derive simple graphical tests for the local stability of all equilibria and show that system dynamics are confined to a bounded region. Numerical simulations supported by qualitative analysis reveal that Rosenzweig’s paradox of enrichment holds only in the part of the phase plane where the grazer is energy limited; a new phenomenon, the paradox of energy enrichment, arises in the other part, where the grazer is phosphorus limited. A bifurcation diagram shows that energy enrichment of producer—grazer systems differs radically from nutrient enrichment. Hence, expressing producer—grazer interactions in stoichiometrically realistic terms reveals qualitatively new dynamical behavior.

Notes: Abstract In this paper three extensions of the Levins metapopulation model are discussed: (1) It is shown that the Levins model is still valid if patches contain local populations of different sizes with different colonization and extinction rates. (2) A more mechanistic formulation of the rescue effect is presented. (3) The addition of preference of dispersers for occupied or empty patches and its consequences for conservation strategies are studied.

Notes: Abstract Focal adhesions play a major role in maintaining the cell shape and motility, and in regulating numerous cellular processes. Observations suggest that the functioning of focal adhesions is possible due to their dynamic nature, yet the mechanisms that govern their motion are not well understood. This study addresses the process of focal adhesion remodeling using two distinct theoretical approaches. Namely, adhesion sites are modeled as clusters of integrins that are either bound to cytoskeletal elements or dissociated and temporarily free of any attachments. In the first approach effects of cluster size and permeability on the diffusion of mobile adhesion structures are studied using Brinkman’s effective medium approach. Diffusion coefficients calculated by this hydrodynamic model significantly decrease with the increase in contact area (the effective size of the focal adhesion). In the second approach focal adhesions are modeled as clusters of transmembrane proteins tightly connected to the cytoskeleton, but still capable of motion. The remodeling of these clusters is coupled to the deformation of the cytoskeleton by means of equating energies at the end states of a reversible elastodynamic interaction. Due to large uncertainty of the plasma membrane and the cytoskeleton properties, predicted diffusion coefficients vary within several orders of magnitude. However, a reasonable set of parameters for each model yields diffusion coefficients that compare favorably with those measured by single-particle tracking (SPT), fluorescence recovery after photobleaching (FRAP), and fluorescence digital imaging (FDI). The estimated Young’s modulus of the stress fibers is also in good agreement with measurements. To assess the relevance of the models to focal adhesion remodeling and to improve their predictions, further data on the morphology of focal adhesions and on properties of the plasma membrane and the cytoskeleton are required.

Notes: Abstract In this paper we discuss the effects of yearly temperature variation on the development and seasonal occurrence of poikiliothermic organisms with multiple life stages. The study of voltinism in the mountain pine beetle (Dendroctonus ponderosae Hopkins), an important forest insect living in extreme temperature environments and exhibiting no diapause, provides a motivational example. Using a minimal model for the rates of aging it is shown that seasonal temperature variation and minimal stage-specific differences in rates of aging are sufficient to create stable uni-and multi-voltine oviposition cycles. In fact, these cycles are attracting and therefore provide an exogenous mechanism for synchronizing whole populations of organisms. Structural stability arguments are used to extend the results to more general life systems.

Notes: Abstract A model describing the ciliary driven flow and motion of suspended particles in downstream suspension feeders is developed. The quasi-steady Stokes equations for creeping flow are solved numerically in an unbounded fluid domain around cylindrical bodies using a boundary integral formulation. The time-dependent flow is approximated with a continuous sequence of steady state creeping flow fields, where metachronously beating ciliary bands are modelled by linear combinations of singularity solutions to the Stokes equations. Generally, the computed flow fields can be divided into an unsteady region close to the driving ciliary bands and a steady region covering the remaining fluid domain. The size of the unsteady region appears to be comparable to the metachronal wavelength of the ciliary band. A systematic investigation is performed of trajectories of infinitely small (fluid) particles in the simulated unsteady ciliary driven flow. A fraction of particles appear to follow trajectories, that resemble experimentally observed particle capture events in the downstream feeding system of the polycheate Sabella penicillus, indicating that particles can be captured by ciliary systems without mechanical contact between particle and cilia. A local capture efficiency is defined and its value computed for various values of beat frequencies and other parameters. The results indicate that the simulated particle capture process is most effective when the flow field oscillates within timescales comparable to transit timescales of suspended particles passing the unsteady region near the ciliary bands. However, the computed retention efficiencies are found to be much lower than those obtained experimentally.

Notes: Abstract Several animal species have cyclic population dynamics with phase-related cycles in life history traits such as body mass, reproductive rate, and pre-reproductive period. Although many mechanisms have been proposed there is no agreement on the cause of these cycles, and no population equation that deduces both the abundance and the life history cycles from basic ecological constraints has been formulated. Here I deduce a population dynamic equation from the selection pressure of density dependent competitive interactions in order to explain the cyclic dynamics in abundance and life history traits. The model can explain cycles by evolutionary changes in the genotype or by plastic responses in the phenotype. It treats the population dynamic growth rate as an initial condition, and its density independent fundament is Fisher’s (1930, The Genetical Theory of Natural Selection, Oxford: Clarendon) fundamental theorem of natural selection that predicts a hyper-geometrical increase in abundance. The predicted periods coincide with the cyclic dynamics of Lepidoptera, and the Calder hypothesis, which suggests that the period of population cycles is proportional to the 1/4 power of body mass, follows from first principles of the proposed density dependent ecology.

Notes: Three soils with a history of creosote contamination (designated NB, TI and AC) were treated in bench-scale microcosms using conditions (nutrient amendment, moisture content and temperature) which had promoted mineralization of 14C-pyrene in a preliminary study. Bioremediation was monitored using the solid-phase Microtox test, seed germination and earthworm survival assays, SOS-chromotest, Toxi-chromotest and a red blood cell (RBC) haemolysis assay. Contaminant concentrations in the AC soil did not change after 150 days. Polycyclic aromatic hydrocarbon (PAH) concentrations decreased in the NB soil, and toxicity decreased overall according to the earthworm, seed germination and Microtox tests. Although total petroleum hydrocarbons (TPHs) in the TI soil were reduced following treatment, results of the earthworm, seed germination, RBC and Microtox tests suggested an initial increase in toxicity indicating that toxic intermediary metabolites may have formed during biodegradation. Toxicity testing results did not always correlate with contaminant concentrations, nor were the trends indicated by each test consistent for any one soil. Each test demonstrated a different capacity to detect reductions in soil contamination. Journal of Industrial Microbiology & Biotechnology (2000) 24, 132–139.

Notes: Accumulation of heavy metals by Pseudomonas fluorescens 4F39 was rapid and pH-dependent. The affinity series for bacterial accumulation of metal cations decreased in the order Ni〉〉Hg〉U〉〉As〉Cu〉Cd〉Co〉Cr〉Pb. Metal cations were grouped into those whose accumulation increased as the pH increased, with a maximum accumulation at the pH before precipitation (Ni, Cu, Pb, Cd, Co), and those whose maximum accumulation was not associated with precipitation (Cr, As, U, Hg). High Ni2+ accumulation was studied. Electron microscopy indicated that at pH 9, Ni2+ accumulated on the cell surface as needle and hexagon-like precipitates, whose crystalline structure was confirmed by electron diffraction analysis and corresponded to two different orientations of the nickel hydroxide crystals. Crystals on cells showed marked anisotropy by X-ray powder diffraction, which differentiated them from crystals observed in nickel solution at pH 10 and 11 and from commercial nickel hydroxide. Nickel biosorption by Pseudomonas fluorescens 4F39 was a microprecipitation consequence of an ion exchange. Journal of Industrial Microbiology & Biotechnology (2000) 24, 146–151.

Notes: Aspergillus nidulans produces echinocandin B, a neutral lipopeptide. A deacylase from Actinoplanes utahensis catalyzes cleavage of the linoleoyl group from echinocandin B, a key step in generating a potential antifungal agent. Virtually all (99.8%) deacylase activity was cell-associated. The deacylase was salt-solubilized, heat-treated and purified to apparent homogeneity by a 3-step chromatographic procedure. The enzyme was a heterodimer consisting of 63- and 18-to-20-kDa subunit, optimally active at pH 6.0, and at 60°C with salt. The K m of the deacylase for echinocandin B was 50 μM and its V max was 14.6 μmol cyclic hexapeptide min−1 mg−1protein. The substrate specificity of the enzyme was broad with respect to both acyl and cyclic peptide analogues of echinocandin B. The two deacylase subunit genes were cloned and over-expressed in Streptomyces lividans. The recombinant deacylase was purified from the culture filtrate to apparent homogeneity by a 1-step chromatographic procedure. Using the recombinant deacylase, an enzymatic deacylation of immobilized echinocandin B resulted in the generation of cyclic hexapeptide at gram-level. Journal of Industrial Microbiology & Biotechnology (2000) 24, 173–180.

Notes: Rhodobacter sphaeroides OU5 transformed anthranilate (2 mM) to an indole (0.7 mM) in a light-dependent process. Photobiotransformation was enhanced by tricarboxylic acid cycle intermediates and the indole formed was identified as 2,3 dihydroxy indole. Journal of Industrial Microbiology & Biotechnology (2000) 24, 219–221.

Notes: A repeated batch fermentation system was used to produce ethanol using an osmotolerant Saccharomyces cerevisiae (VS3) immobilized in calcium alginate beads. For comparison free cells were also used to produce ethanol by repeated batch fermentation. Fermentation was carried for six cycles with 125, 250 or 500 beads using 150, 200 or 250 g glucose L−1 at 30°C. The maximum amount of ethanol produced by immobilized VS3 using 150 g L−1 glucose was only 44 g L−1 after 48 h, while the amount of ethanol produced by free cells in the first cycle was 72 g L−1. However in subsequent fed batch cultures more ethanol was produced by immobilized cells compared to free cells. The amount of ethanol produced by free cells decreased from 72 g L−1 to 25 g L−1 after the fourth cycle, while that of immobilized cells increased from 44 to 72 g L−1. The maximum amount of ethanol produced by immobilized VS3 cells using 150, 200 and 250 g glucose L−1 was 72.5, 93 and 87 g ethanol L−1 at 30°C. Journal of Industrial Microbiology & Biotechnology (2000) 24, 222–226.

Notes: Exopolysaccharide (EPS) production was compared among three strains of lactobacilli. Lactobacillus rhamnosus strain 9595M can be classified among the highest EPS-producing strains of lactic acid bacteria reported to date with a maximum EPS production of 1275 mg L−1. Under controlled pH, no significant differences in the quantity of EPS produced could be detected between carbon source (glucose or lactose) or fermentation temperature (32 or 37°C). In milk, strains ATCC 9595M and R produced more than 280 mg L−1 EPS whereas strain Type V produced less than 80 mg L−1 EPS. Journal of Industrial Microbiology & Biotechnology (2000) 24, 251–255.

Notes: Immobilized biofilms are effective in heavy metal removal. The current studies investigated the use of rotating biological contactor (RBC) biofilms in treatment of a wastewater containing cadmium, copper and zinc, each at a concentration of 100 mg L−1. In particular, the influence of hydraulic retention time (HRT) on metal accumulation was studied. Longer HRTs (〉12 h) were associated with greater metal removal than short HRTs, particularly with regard to cadmium and zinc. The system was also shown to operate successfully over an extended period of time, at an HRT of 24 h, with removal efficiencies of approximately 34%, 85% and 57% for Cd2+, Cu2+ and Zn2+ respectively after 5–8 weeks contact. Journal of Industrial Microbiology & Biotechnology (2000) 24, 244–250.

Notes: Hydroxy fatty acids are plant self-defense substances (Masui et al, Phytochemistry1989). Three types of hydroxy fatty acids: 10-hydroxystearic acid (HSA), 7S,10S-dihydroxy-8(E)-octadecenoic acid (DOD), and 12,13,17-trihydroxy-9(Z)-octadecenoic acid (THOA) were tested against the following plant pathogenic fungi: Erysiphe graminis f sp tritici (common disease name, wheat powdery mildew); Puccinia recondita (wheat leaf rust); Pseudocercosporella herpotrichoides (wheat foot rot); Septoria nodorum (wheat glume blotch); Pyricularia grisea (rice blast); Rhizoctonia solani (rice sheath blight); Phytophthora infestans (potato late blight); and Botrytis cinerea (cucumber botrytis). At a concentration of 200 ppm, both HSA and DOD showed no fungal disease control activity. However, THOA at the same concentration showed weak activity and provided disease control (percent) of the following plant pathogenic fungi: Erysiphe graminis 77%; Puccinia recondita 86%; Phytophthora infestans 56%; and Botrytis cinerea 63%. The position of the hydroxy groups on the fatty acids seems to play an important role in activity against specific fungi. Journal of Industrial Microbiology & Biotechnology (2000) 24, 275–276.

Notes: Creosote was evaluated as an inexpensive carbon source for growing inocula of a polycyclic aromatic hydrocarbon (PAH)-degrading bacterial community (community five). Creosote was a poor growth substrate when provided as sole carbon source in a basal salts solution (BSM). Alternatively, peptone, yeast extract or glucose in BSM supported high growth rates, but community five could not subsequently degrade pyrene. A combination of creosote and yeast extract in BSM (CYEM) supported growth and maintained the pyrene-degrading capacity of community five. Optimum pyrene-degrading activity occurred when the inocula were grown in creosote and yeast extract concentrations of 2 ml L−1 and 1 g L−1 respectively: concentrations outside these values resulted in either low biomass yields or loss of PAH-degrading activity. CYEM-grown community five inocula degraded 250 mg L−1 of pyrene in BSM at a rate comparable to cultures inoculated with community five grown in BSM-pyrene. However, the CYEM-grown community showed a 40% lower rate of PAH degradation in a synthetic PAH mixture compared with pyrene-grown cells and there was an increase in the lag period before the onset of PAH degradation. This appears to reflect a weaker induction of PAH catabolism by CYEM compared to BSM-pyrene. Journal of Industrial Microbiology & Biotechnology (2000) 24, 277–284.

Notes: An alkaline protease produced by Pseudomonas aeruginosa MN1, isolated from an alkaline tannery waste water, was purified and characterized. The enzyme was purified 25-fold by gel filtration and ion exchange chromatography to a specific activity of 82350 U mg−1. The molecular weight of the enzyme was estimated to be 32000 daltons. The optimum pH and temperature for the proteolytic activity were pH 8.00 and 60°C, respectively. Enzyme activity was inhibited by EDTA suggesting that the preparation contains a metalloprotease. Enzyme activity was strongly inhibited by Zn2+, Cu2+ and Hg2+(5 mM), while Ca2+ and Mn2+ resulted in partial inhibition. The enzyme is different from other Pseudomonas aeruginosa alkaline proteases in its stability at high temperature; it retained more than 90% and 66% of the initial activity after 15 and 120 min incubation at 60°C. Journal of Industrial Microbiology & Biotechnology (2000) 24, 291–295.

Notes: Biotechnology is becoming an information-based field. In this article we describe some resources available to instructors, show how these resources are used in the biotechnology training program, and provide examples of activities used by non-science majors to increase their understanding of biology. We discuss some of the challenges we have encountered using these tools in the classroom. Journal of Industrial Microbiology & Biotechnology (2000) 24, 314–318.

Notes: This collaborative laboratory exercise integrates two upper division laboratory courses (Developmental Biology and Neurobiology) offered to biology majors at Wake Forest University. The laboratory exercise involves the use of the Xenopus oocyte expression system to study the function of specific membrane receptors and ligand-activated channels. cDNA or mRNA for receptor proteins is injected into Xenopus oocytes. The oocytes are assayed for expression of receptor proteins and two-electrode voltage clamping is done to determine whether the expressed proteins are functional in the oocyte system. This series of laboratory exercises is innovative in its interdisciplinary and collaborative approach to undergraduate teaching, and in its use of sophisticated molecular biological and physiological techniques in the undergraduate teaching laboratory. Students learn first-hand how these techniques have been used to achieve a new level of understanding of both development and neurobiology. Journal of Industrial Microbiology & Biotechnology (2000) 24, 353–358.

Notes: The green fluorescent protein (GFP) is a bioluminescent protein that can be expressed and easily detected as a fully fluorescent protein in both bacterial and eukaryotic cells. These properties, along with its ability to withstand exposure to denaturants, organic solvents, high temperature and a wide pH range, make GFP an ideal educational tool. To that end, two GFP-based laboratory modules are described that can be used to teach recombinant DNA and protein purification techniques to high school and undergraduate college students. Journal of Industrial Microbiology & Biotechnology (2000) 24, 323–326.

Notes: Undergraduate science education is based on a model developed in the decade following World War II. It has undergone no fundamental changes since then with courses that combine lectures and laboratory experiments. Traditional courses are typically based on individual performance and much of that performance is evaluated by tests and examinations. At the same time, the modern workplace has undergone revolutionary changes that are characterized by: interdisciplinary approaches; work in teams; the exponential growth of scientific information; the rapid turnover in projects; the need for continued retraining; multiple career tracks; the globalization of science and industry; and the pervasive use of electronic communications and information systems. Journal of Industrial Microbiology & Biotechnology (2000) 24, 310–313.

Notes: Three experiments are described; directional cloning of the luxR gene from the bioluminescent marine bacterium, Vibrio fischeri, directional cloning of the gfpgene from the marine jelly fish, Aequoria victoria, and the construction of a LuxR-GFP fusion protein. Experiments are presented using lux and gfp in an undergraduate biology curriculum. Journal of Industrial Microbiology & Biotechnology (2000) 24, 345–352.

Notes: Open circuit potentials of stainless steels increased when immersed in the Baltic Sea. The ennoblement potential was +200 mVsce in 40 to 50 days when sea water temperature was below 52°C and +300–400 mVsce within 〈40 days at around 102°C. Ennoblement occurred in a laboratory ecosystem at 232°C in 20 to 30 days, and at 262°C in 〈20 days, but no ennoblement occurred at A322°C within 40 days. By the time the ennoblement was complete, compact microcolonies covered 1–10% of the steel surface. Nutrient enrichment of Baltic Sea water by twofold above the natural levels increased microbial growth but attenuated open circuit potential increase of the stainless steels. Exposure of the ennobled stainless steels to similar levels of nutrients did not reverse the already developed open circuit potentials. Attenuation of the ennobling response of the stainless steels by increases of temperature and eutrophication suggests a role for microorganisms which is crucial for the electrochemical behaviour of steels in brackish Baltic Sea water. Journal of Industrial Microbiology & Biotechnology (2000) 24, 410–420.

Notes: Rapid screening of poultry houses for contamination is critical for Salmonella control. Use of air filter sampling has great potential for efficient and reliable monitoring of Salmonella spp., as it could represent an entire poultry house and solve sample-size problems. Two sampling methods (litter and air filter) were compared for detection in four chicken pens inoculated with a S. typhimurium antibiotic resistant strain. Salmonella levels in both litter and air filter samples were determined by PCR amplification and by conventional enrichment. Although amplified DNA was not directly detected, amplified DNA could be detected using a dual probe hybridization sensor. The ratio of the positive samples to total samples determined by gene amplification was much lower than that obtained by conventional enrichments (29/128 versus 102/128 samples). However, the ratio obtained by gene amplification with air filter samples was greater than that with litter samples (26/64 versus 3/64). These results demonstrate that the air filter sampling method is an alternative method of Salmonella detection in poultry house using PCR gene amplification protocol. Journal of Industrial Microbiology & Biotechnology (2000) 24, 379–382.

Notes: Kinetics of kojic acid fermentation by Aspergillus flavus Link 44-1 using various sources of carbon [glucose, xylose, sucrose, starch, maltose, lactose or fructose] and nitrogen [NH4Cl, (NH4)2S2O8, (NH4)2NO3, yeast extract or peptone] were analyzed using models based on logistic and Luedeking–Piret equations. The highest kojic acid production (39.90 g l−1) in submerged batch fermentation was obtained when 100 g l−1 glucose was used as a carbon source. Organic nitrogen sources such as peptone and yeast extract were favorable for kojic acid production as compared to inorganic nitrogen sources. Yeast extract at 5 g l−1 was optimal. The optimal carbon to nitrogen (C/N) ratio for kojic acid fermentation was 93.3. In a resuspended cell system, the rate of glucose conversion to kojic acid by cell-bound enzymes increased with increasing glucose concentration up to 70 g l−1, suggesting that the reaction followed the Michaelis–Menten enzyme kinetic model. The value of K m and V max for the reaction was 18.47 g l−1 glucose and 0.154 g l−1 h−1, respectively. Journal of Industrial Microbiology & Biotechnology (2000) 25, 20–24.

Notes: Kinetic studies with Pseudomonas aeruginosa using actinides and lanthanides indicated a two-phase metal uptake. Equilibrium uptake data of all the metals studied could be fitted to Langmuir as well as Freundlich models. The Scatchard plots showed that there were mainly two types of receptor sites on the cell walls of P. aeruginosa having different affinities for the metal ions. EDAX studies revealed replacement of calcium and magnesium ions from biomass by sorbed metal. Around 85% of the adsorbed metal could be released using citrate buffer (pH 4.0, 0.2 M). Metal desorption was as high as 95% with HCl. Continuous flow studies using P. aeruginosa immobilized on activated alumina gave 80% enhancement of lanthanum removal efficiency compared to the control column. Regeneration of the column resulted in 80% of its initial capacity in succeeding cycles. Journal of Industrial Microbiology & Biotechnology (2000) 25, 1–7.

Notes: Certain bacteria of the Sphingomonas genus secrete structurally related capsular polysaccharides. Due to their unique properties, three (gellan, welan and rhamsan) are produced commercially by submerged fermentation and are used as modifiers of aqueous rheology and as gelling agents. However, conversion of glucose into these polysaccharides is relatively inefficient. To identify general methods for increasing the productivity of Sphingomonas, we augmented the normal chromosomal copy of the phosphoglucomutase gene (pgm) and the cluster of genes (sps) required for assembly of the carbohydrate repeat unit for strain S7 with multiple copies of plasmids carrying these genes. Although a sixfold increase in Pgm activity only lead to a small percentage increase in conversion of glucose to the S-7 polysaccharide, multiple sps genes caused a nearly 20% increase in the yield from glucose and an even larger increase in culture viscosity. The increased viscosity was accompanied by a change in the sugar composition of the secreted polymer. Journal of Industrial Microbiology & Biotechnology (2000) 25, 49–57.

Notes: The metabolism of n-alkylbenzenes (C3–C7), biphenyl, styrene and cumene by the tod pathway from Pseudomonas putida F1 was examined in terms of catabolism by the pathway enzymes and the inducibility of the tod operon. F1 cells grown on toluene exhibited oxygen consumption in the presence of the compounds examined. Toluene dioxygenase (TDO) catalyzed the formation of monol, cis-dihydrodiol and triol metabolites from the n-alkylbenzenes tested and the triol formed from n-propylbenzene was metabolized to the derivative, 2-hydroxy-6-oxohexa-2,4-dienoate (HOHD), by subsequent enzymes in the tod pathway. Biotransformation of the tested compounds with toluene-grown F1 cells resulted in the accumulation of ring cleavage HOHD derivatives; the metabolites were inefficiently metabolized by cell extracts of toluene-grown F1 cells, indicating that 6-methyl-HOHD hydrolase encoded by todF might be a determinant for the further degradation of the selected 1-substituted benzenes. The results obtained from enzyme activity assays and reverse transcription polymerase chain reaction (RT-PCR) showed that not only growth-supporting substrates, but also n-propylbenzene, styrene and cumene act as inducers of the tod operon. Journal of Industrial Microbiology & Biotechnology (2000) 25, 163–170.

Notes: Different strategies have been employed to achieve high-level expression of single-copy genes encoding secreted enzymes in Bacillus subtilis. A model system was developed which utilizes the aprL gene from Bacillus clausii as a reporter gene for monitoring expression levels during stationary phase. An exceptionally strong promoter was constructed by altering the nuceotide sequence in the −10 and −35 regions of the promoter for the amyQ gene of Bacillus amyloliquefaciens. In addition, two or three tandem copies of this promoter were shown to increase expression levels substantially in comparison to the monomer promoter alone. Finally, the promoter and mRNA stabilization sequences derived from the cry3A gene of Bacillus thuringiensis were used in combination with the mutant amyQ promoter to achieve the highest levels of aprL expression. These promoters were shown to be fully functional in a high-expressing Bacillus strain grown under industrial fermentation conditions. The ability to obtain maximum expression levels from a single copy gene now makes it feasible to construct environmentally friendly, marker-free industrial strains of B. subtilis. Journal of Industrial Microbiology & Biotechnology (2000) 25, 204–212.

Notes: Two processes for ethanol production from wheat straw have been evaluated — separate hydrolysis and fermentation (SHF) and simultaneous saccharification and fermentation (SSF). The study compares the ethanol yield for biomass subjected to varying steam explosion pretreatment conditions: temperature and time of pretreatment was 200°C or 217°C and at 3 or 10 min. A rinsing procedure with water and NaOH solutions was employed for removing lignin residues and the products of hemicellulose degradation from the biomass, resulting in a final structure that facilitated enzymatic hydrolysis. Biomass loading in the bioreactor ranged from 25 to 100 g l−1 (dry weight). The enzyme-to-biomass mass ratio was 0.06. Ethanol yields close to 81% of theoretical were achieved in the two-step process (SHF) at hydrolysis and fermentation temperatures of 45°C and 37°C, respectively. The broth required addition of nutrients. Sterilisation of the biomass hydrolysate in SHF and of reaction medium in SSF can be avoided as can the use of different buffers in the two stages. The optimum temperature for the single-step process (SSF) was found to be 37°C and ethanol yields close to 68% of theoretical were achieved. The SSF process required a much shorter overall process time (≈30 h) than the SHF process (96 h) and resulted in a large increase in ethanol productivity (0.837 g l−1 h−1 for SSF compared to 0.313 g l−1 h−1 for SHF). Journal of Industrial Microbiology & Biotechnology (2000) 25, 184–192.

Notes: In an attempt to clarify the function of l-aspartic acid and culture conditions in aspartate ammonia lyase induction, experiments were carried out on aspartase formation in Bacillus cereus cells. The enzyme was produced by microorganisms in response to l-aspartic acid, which is catabolized by direct deamination to fumarate. Enzyme synthesis by B. cereus was associated with physiological growth stages, which was confirmed by use of the protein synthesis inhibitor, chloramphenicol, whereas it did not influence synthesis when it was added directly to the reactor batch containing a biotransformation system. Aspartase activity was evaluated in a batch reactor by biotransformation of fumaric acid into l-aspartic acid catalyzed by whole B. cereus cells. The culture medium for the strain was optimized, which increased the initial aspartase activity threefold. B. cereus cells showed optimal aspartase activity at late log phase. Journal of Industrial Microbiology & Biotechnology (2000) 25, 225–228.

Notes: Growth and alginate production by Azotobacter vinelandii DSM576 as a function of initial ammonium sulphate concentration (0.45–1.05 g l−1) and agitation speed (300–700 rpm) were studied in batch fermentations at controlled pH. The time course of growth, alginate production and substrate consumption and the effect of nitrogen concentration and agitation speed on kinetic parameters and on maximum alginate molecular weight (MW) was modelled using empirical equations. The kinetics of growth, alginate production and polymerization were deeply affected by agitation speed and, to a lesser extent, by inorganic nitrogen concentration. Average and maximum specific growth rate and maximum alginate MW all increased with agitation speed, and were higher at intermediate ammonium sulphate concentration. Maximum alginate MW (〉250,000) was obtained at high agitation speed (600–700 rpm) and alginate depolymerization was limited or did not occur at all when the agitation speed was higher than 500 rpm, while at 400 rpm depolymerization significantly reduced the alginate. However, alginate yield was negatively affected by increasing agitation speed. A good compromise between alginate yield (〉2 g l−1) and quality (MW〉250,000) was obtained with agitation speed of 500–600 rpm and 0.75–0.90 g l−1 of ammonium sulphate. Journal of Industrial Microbiology & Biotechnology (2000) 25, 242–248.

Notes: Pyocyanin, a potential antimicrobial agent, was secreted by Xanthomonas campestris. Treatments with agents causing oxidative stress in the organism caused up to 4.4-fold increase in pyocyanin production. Pyocyanin added in the extracellular space did not affect growth rate of X. campestris, but decreased maximum cell concentration and specific product formation. However, the growth of Escherichia coli, the indicator target organism, was affected by pyocyanin. There was also a significant increase in the intracellular reactive oxygen species (ROS) concentration and antioxidant enzyme [catalase, superoxide dismutase (SOD)] concentrations, in the presence of pyocyanin. The intracellular ROS concentrations in E. coli formed upon exposure to pyocyanin, which is an indicator of the toxicity, was dependent on the growth phase of the organism. Studies with mutants of E. coli showed that intracellular ROS concentration was not significantly affected by the absence of the regulon OxyR, but, was significantly higher in cases when the regulon rpoS or the genes katG or katE were absent. Journal of Industrial Microbiology & Biotechnology (2000) 25, 266–272.

Notes: A bacteriophage-based biosorbent for Salmonella enteritidis was constructed, and bacterial bioluminescence was used for assessment of the efficiency of cell capture. A strain of S. enteritidis with bioluminescent phenotype was constructed by transformation with plasmid pT7 carrying the entire lux operon from Photorhabdus luminescens. The relation between relative light output (RLU) and colony-forming units (CFU/ml) of the bioluminescent strain was established. The bacteriophage specific to S. enteritidis was biotinylated, and the biotinylation procedure was optimized based on the maximum retention of phage infectivity. The biotinylated phages were then coated onto streptavidin-labeled magnetic beads, and were used to capture the bioluminescent S. enteritidis cells. Our preliminary results showed that the number of cells captured by constructed biosorbent was five times higher than that of the control, magnetic beads coated with nonbiotinylated phage, indicating the capture is specific. Journal of Industrial Microbiology & Biotechnology (2000) 25, 273–275.

Notes: Echinocandin B (ECB), a lipopolypeptide used as a starting material for chemical manufacture of the anti-Candida agent LY303366, is produced by fermentation using a strain of Aspergillus nidulans. In addition to ECB, the wild-type strain also produces a significant level of sterigmatocystin (ST), a potent carcinogen structurally related to the aflatoxins. Characterization of a mutant designated A42355-OC-1 (OC-1), which is blocked in ST biosynthesis, was the result of a chromosomal translocation. The chromosomal regions containing the breakpoints of the translocation were isolated and DNA sequencing and PCR analysis of the chromosomal breakpoints demonstrated the translocation occurred within the stcW gene of the ST biosynthetic pathway, resulting in disruption of the open reading frame for this gene. Biochemical feeding studies indicate the involvement of this gene product in the conversion of averufin to 1-hydroxy versicolorone. This work demonstrates an effective synergy between classical strain improvement methods and molecular genetics. Journal of Industrial Microbiology & Biotechnology (2000) 25, 333–341.

Notes: The production of citric and gluconic acids from fig by Aspergillus niger ATCC 10577 in solid-state fermentation was investigated. The maximal citric and gluconic acids concentration (64 and 490 g/kg dry figs, respectively), citric acid yield (8%), and gluconic acid yield (63%) were obtained at a moisture level of 75%, initial pH 7.0, temperature 30°C, and fermentation time in 15 days. However, the highest biomass dry weight (40 g/kg wet substrate) and sugar utilization (90%) were obtained in cultures grown at 35°C. The addition of 6% (w/w) methanol into substrate increased the concentration of citric and gluconic acid from 64 and 490 to 96 and 685 g/kg dry fig, respectively. Journal of Industrial Microbiology & Biotechnology (2000) 25, 298–304.

Notes: Aerobic glucose-limited chemostat cultivations were conducted with Saccharomyces cerevisiae strains NRRL Y132, ATCC 4126 and CBS 8066, using a complex medium. At low dilution rates all three strains utilised glucose oxidatively with high biomass yield coefficients, no ethanol production and very low steady-state residual glucose concentrations in the culture. Above a threshold dilution rate, respiro-fermentative (oxido-reductive) metabolism commenced, with simultaneous respiration and fermentation occurring, which is typical of Crabtree-positive yeasts. However, at high dilution rates the three strains responded differently. At high dilution rates S. cerevisiae CBS 8066 produced 7–8 g ethanol L−1 from 20 g glucose L−1 with concomitant low levels of residual glucose, which increased markedly only close to the wash-out dilution rate. By contrast, in the respiro-fermentative region both S. cerevisiae ATCC 4126 and NRRL Y132 produced much lower levels of ethanol (3–4 g L−1) than S. cerevisiae CBS 8066, concomitant with very high residual sugar concentrations, which was a significant deviation from Monod kinetics and appeared to be associated either with high growth rates or with a fermentative (or respiro-fermentative) metabolism. Supplementation of the cultures with inorganic or organic nutrients failed to improve ethanol production or glucose assimilation. Journal of Industrial Microbiology & Biotechnology (2000) 24, 231–236.

Notes: The process performance and metabolic rates of samples of activated sludge dosed with vitamin supplements have been compared. After initial screening, four vitamins and two metals as single supplements and in pairs, were dosed continuously into the mixed liquor of an activated sludge simulation. Toxicity, oxygen demand removal, respiration rates and suspended solids were measured to monitor the effect on process efficiency. It was confirmed experimentally that an industrial wastewater stream did not contain a sufficient supply of micronutrients for efficient biological treatment. This was concluded from the observation that control sludge batches (receiving no supplements) averaged chemical oxygen demand removal efficiency of 58%. Dosing micronutrients into the mixed liquor produced removal efficiencies of up to 69%. Some of the supplements increased the respiration rate of the sludge while some decreased it, indicating a range of stimulatory and inhibitory effects. Complex interactions between micronutrients that were dosed simultaneously were evident. Several positive effects led to the conclusion that micronutrients have the potential to optimise process performance of activated sludge plants treating industrial wastewater. The addition of phosphorus/niacin and molybdenum/lactoflavin removed wastewater components that were toxic to nitrifiers as indicated through toxicity testing, thus protecting downstream nitrification/denitrification treatment processes. Journal of Industrial Microbiology & Biotechnology (2000) 24, 267–274.

Notes: Zymograms of a crude protein extract from S. cerevisiae strain SCPP containing endopolygalacturonase were studied and compared to the purified enzyme by determining their physico-chemical properties. The results obtained with crude extract were similar to those of the purified enzyme. The endopolygalacturonase from both sources displayed a pH optimum between 3.0 and 4.0, and was active at temperatures between 4 and 50°C on a large panel of substrates. These characteristics make this S. cerevisiae endopolygalacturonase an attractive tool for the beverage industry. Journal of Industrial Microbiology & Biotechnology (2000) 24, 296–300.

Notes: Tetrahymena thermophila was cultivated on industrial by-product media. The composition of the best medium (with milk proteins) was optimised by a central composite design for growth and protease secretion. The optimal combination [1.07% (w/v) of yeast extract and 0.99% (w/v) of skimmed milk] improved biomass production by 46%. In a fermentation strategy, the pH must be regulated to produce no cell damage, lengthening the stationary phase and resulting in a more abundant protease production. To increase cell concentration and protease secretion, a continuous culture with cell recycling by microfiltration was successfully tested on ciliated protozoa. Journal of Industrial Microbiology & Biotechnology (2000) 24, 285–290.

Notes: A general education biology course entitled ‘Biotechnology Transforms Our World’ has been developed to illustrate biological concepts with advances from biotechnology. The contributions of molecular biology to understanding human genetics, evolution, plant and animal (including human) biology and ecology are illustrated with specific case studies. Journal of Industrial Microbiology & Biotechnology (2000) 24, 308–309.

Notes: The Biotechnology Certificate Program (BCP) at California State University, Hayward was initiated in 1986 in response to industry demands for qualified employees in the molecular life sciences. This 9-month post-baccalaureate program includes laboratory courses in recombinant DNA techniques, protein chemistry, PCR, DNA sequencing, animal cell culture as well as two lecture courses in molecular biology. Rigorous selection at both entry and exit stages of the program ensures knowledgeable graduates with a greater than 90% employment placement. Corporate participation has been a cornerstone of the BCP and we anticipate continued cooperation in the future as the program evolves to meet the expanding needs of the biotechnology industry. Journal of Industrial Microbiology & Biotechnology (2000) 24, 364–366.

Notes: Two microorganisms isolated from Amazonian forest soil samples and identified as Candida tropicalis and Alcaligenes faecalis were capable of degrading phenol (16 and 12 mM, respectively) at high salt concentrations (15% and 5.6%, respectively). Chromatographic and enzymatic studies revealed that each microorganism cleaved phenol at the ortho position with total phenol mineralization. 14C-phenol mineralization assays showed that both microorganisms assimilated about 30% of the total label. No phenol degradation metabolite (i.e., catechol, cis, cis-muconic acid) was detected in the intercellular medium. The presence of phenol hydroxylase (EC 1.14.13.7) and catechol 1,2-dioxygenase (EC 1.13.11.1) extracellular activity suggested that these microorganisms may secrete these enzymes into the extracellular medium. Journal of Industrial Microbiology & Biotechnology (2000) 24, 403–409.

Notes: Streptomyces sp. QG-11-3, which produces a cellulase-free thermostable xylanase (96 IU ml−1) and a pectinase (46 IU ml−1), was isolated on Horikoshi medium supplemented with 1% w/v wheat bran. Carbon sources that favored xylanase production were rice bran (82 IU ml−1) and birch-wood xylan (81 IU ml−1); pectinase production was also stimulated by pectin and cotton seed cake (34 IU ml−1 each). The partially purified xylanase and pectinase were optimally active at 60°C. Both enzymes were 100% stable at 50°C for more than 24 h. The half-lives of xylanase and pectinase at 70, 75 and 80°C were 90, 75 and 9 min, and 90, 53 and 7 min, respectively. The optimum pH values for xylanase and pectinase were 8.6 and 3.0, respectively, at 60°C. Xylanase and pectinase were stable over a broad pH range between 5.4 and 9.4 and 2.0 to 9.0, respectively, retaining more than 85% of their activity. Ca2+ stimulated the activity of both enzymes up to 7%, whereas Cd2+, Co2+, Cr3+, iodoacetic acid and iodoacetamide inhibited xylanase up to 35% and pectinase up to 63%; at 1 mM, Hg2+ inhibited both enzymes completely. Journal of Industrial Microbiology & Biotechnology (2000) 24, 396–402.