PubMed Health⌕ Search

Biomedical subjects

V A Jansen

Publications and source records attributed to V A Jansen.

17 recordsLinked to original sources
PubMed2001

Effector cytotoxic T lymphocyte numbers induced by vaccination should exceed levels in chronic infection for protection from HIV.

Recent technological advances have revolutionised our capacity to induce cytotoxic T lymphocyte (CTL) responses with a variety of vaccine formulations and delivery systems. However, the conditions required for a CTL-inducing vaccine to provide protection from infection or disease are poorly understood, and the results of challenge experiments have not been consistent. Here we use a mathematical model to examine the requirements necessary for successful vaccination against human immunodeficiency virus (HIV) through cellular immunity. We describe the interaction between cytotoxic T cells and infected lymphocytes, capturing the essence of a persistent infection of immune cells. We conclude that to protect from infection, the cellular immune response should be boosted to levels exceeding those in chronic infection. This requires either that effector CTL exceed this threshold before infection, or that a memory CTL population is established that can yield this level of effector CTL very quickly upon infection.

AIDS Vaccines↗
PubMed2001

The role of T cell help for anti-viral CTL responses.

Cytotoxic T lymphocyte (CTL or CD8) responses are a major branch of the immune system involved in controlling viral infections. Murine models have shown that the development of effective and sustained CD8 cell responses requires CD4 T cell help. However, the precise mechanism in which CD4 cells provide help for CD8 cell responses is still controversial. In the literature, mainly two mechanisms are discussed. According to the "classical" pathway, CD4 cells secrete cytokines, such as IL-2, which promote the responsiveness of the CD8 cells. According to the "CD4-APC-CD8" pathway, CD4 cells specifically activate antigen presenting cells (APCs), and APCs specifically interact with CD8 cells, thereby delivering help. Here, we derive kinetic models in order to describe and compare both pathways of help. We find that the two pathways might have different roles in different situations. The classical pathway is more efficient at inducing CD8 cell expansion at high virus loads, while the CD4-APC-CD8 pathway is more efficient at inducing CD8 cell proliferation at low virus loads. From this, it follows that the classical pathway might be needed in order to kick-start a CD8 cell response in the acute phase of the infection, while the CD4-APC-CD8 pathway is needed in order to ensure virus clearance when virus load is reduced by the immune system. These findings have implications for the interpretation of experimental data from virus infection in helper-deficient hosts. In particular, the models offer further suggestions for the development of treatment regimes aimed at achieving immunological control of HIV infection which has been shown to crucially depend on the availability of helper cell responses.

Acute Disease↗
PubMed2001

The measured level of prion infectivity varies in a predictable way according to the aggregation state of the infectious agent.

Transmissible spongiform encephalopathies are believed to be caused by an infectious form of the prion protein, designated PrP(Sc). The concentration of PrP(Sc) is often poorly correlated to the level of infectivity. Infectivity can be measured in two ways, namely endpoint titration and the incubation time assay, but patterns of infectivity vary depending on which method is used. These discrepancies can be explained by variation in the aggregation state of PrP(Sc). Both methods of measuring infectivity are modelled mathematically, and the theoretical results are in agreement with published data. It was found to be theoretically impossible to characterise prion infectivity by a multiple of a single quantity representing 'one prion', no matter how it is measured. Infectivity is instead characterised by both the number and sizes of the PrP(Sc) aggregates. Apparent discrepancies arise when these complexities are reduced to a single number.

Animals↗
PubMed2001

Understanding bacteriophage therapy as a density-dependent kinetic process.

Studies of bacteriophage as therapeutic agents have had mixed and unpredictable outcomes. We argue that interpretation of these apparently paradoxical results requires appreciation of various density-dependent threshold effects. We use a mathematical model to delineate different categories of outcome, including therapy by simple inundation, by active biocontrol, and by delayed active biocontrol. Counter-intuitively, there are situations in which earlier inoculation can be less efficacious, and simultaneous inoculation with antibiotics can be detrimental. Predictions of therapeutic responses are made using formulae dependent on biologically meaningful parameters; experimental measurement of the parameters will be a prerequisite of application of the model to particular study systems. Such modelling can point to which aspects of phage biology might most fruitfully be engineered so as to enhance the viability of bacteriophage therapy.

Bacterial Infections↗
PubMed2001

The dynamics of two diffusively coupled predator-prey populations.

I analyze the dynamics of predator and prey populations living in two patches. Within a patch the prey grow logistically and the predators have a Holling type II functional response. The two patches are coupled through predator migration. The system can be interpreted as a simple predator-prey metapopulation or as a spatially explicit predator-prey system. Asynchronous local dynamics are presumed by metapopulation theory. The main question I address is when synchronous and when asynchronous dynamics arise. Contrary to biological intuition, for very small migration rates the oscillations always synchronize. For intermediate migration rates the synchronous oscillations are unstable and I found periodic, quasi-periodic, and intermittently chaotic attractors with asynchronous dynamics. For large predator migration rates, attractors in the form of equilibria or limit cycles exist in which one of the patches contains no prey. The dynamical behavior of the system is described using bifurcation diagrams. The model shows that spatial predator-prey populations can be regulated through the interplay of local dynamics and migration.

Animals↗
PubMed2001

Host life history and the evolution of parasite virulence.

We present a general epidemiological model of host-parasite interactions that includes various forms of superinfection. We use this model to study the effects of different host life-history traits on the evolution of parasite virulence. In particular, we analyze the effects of natural host death rate on the evolutionarily stable parasite virulence. We show that, contrary to classical predictions, an increase in the natural host death rate may select for lower parasite virulence if some form of superinfection occurs. This result is in agreement with the experimental results and the verbal argument presented by Ebert and Mangin (1997). This experiment is discussed in the light of the present model. We also point out the importance of superinfections for the effect of nonspecific immunity on the evolution of virulence. In a broader perspective, this model demonstrates that the occurrence of multiple infections may qualitatively alter classical predictions concerning the effects of various host life-history traits on the evolution of parasite virulence.

Animals↗
PubMed2000

Designing drugs to stop the formation of prion aggregates and other amyloids.

Amyloid protein aggregates are implicated in many neurodegenerative diseases, including Alzheimer's disease and the prion diseases. Therapeutics to block amyloid formation are often tested in vitro, but it is not clear how to extrapolate from these experiments to a clinical setting, where the effective drug dose may be much lower. Here we address this question using a theoretical kinetic model to calculate the growth rate of protein aggregates as a function of the dose of each of three categories of drug. We find that therapeutics which block the growing ends of amyloids are the most promising, as alternative strategies may be ineffective or even accelerate amyloid formation at low drug concentrations. Our mathematical model can be used to identify and optimise an end-blocking drug in vitro. Our model also suggests an alternative explanation for data previously thought to prove the existence of an entity known as protein X.

Amyloid↗
PubMed2000

The evolution of syntactic communication.

Animal communication is typically non-syntactic, which means that signals refer to whole situations. Human language is syntactic, and signals consist of discrete components that have their own meanings. Syntax is a prerequisite for taking advantage of combinatorics, that is, "making infinite use of finite means. The vast expressive power of human language would be impossible without syntax, and the transition from non-syntactic to syntactic communication was an essential step in the evolution of human language. We aim to understand the evolutionary dynamics of this transition and to analyse how natural selection can guide it. Here we present a model for the population dynamics of language evolution, define the basic reproductive ratio of words and calculate the maximum size of a lexicon. Syntax allows larger repertoires and the possibility to formulate messages that have not been learned beforehand. Nevertheless, according to our model natural selection can only favour the emergence of syntax if the number of required signals exceeds a threshold value. This result might explain why only humans evolved syntactic communication and hence complex language.

Animal Communication↗
PubMed2000

Intra-host competition between nef-defective escape mutants and wild-type human immunodeficiency virus type 1.

Various forms of nef genes with deletions at conserved positions along the sequence have been reported to persist in human immunodeficiency virus type 1 infected patients. We investigate the forces maintaining such variants in the proviral population. The main selection pressures are preservation of function and host immune response. The crippled Nef protein might have fewer epitopes, and as such be less visible to the specific immune response, but it will lose some function. Does a trade-off between avoidance of the immune response and loss of function explain the dynamics of the crippled virus found in the patients? To answer this question, we formulated a deterministic model of the virus-host interactions. We found that when the crippled protein presents few epitopes and suffers little loss of function, the two viral types can coexist. Otherwise, the wild-type comes to prevail. The mutant form might initially dominate, but as the selective pressure by the CD84+ T cells decreases over the course of infection, the advantage for the crippled form of losing epitopes disappears. Hence, we go from a situation of coexistence of wild-type and mutant, to a situation of only full-length nef. The results are discussed in the context of the suggested use of live attenuated vaccines having deletions in nef.

Genes, nef↗
PubMed2000

Local stability analysis of spatially homogeneous solutions of multi-patch systems.

Multi-patch systems, in which several species interact in patches connected by dispersal, offer a general framework for the description and analysis of spatial ecological systems. This paper describes how to analyse the local stability of spatially homogeneous solutions in such systems. The spatial arrangement of the patches and their coupling is described by a matrix. For a local stability analysis of spatially homogeneous solutions it turns out to be sufficient to know the eigenvalues of this matrix. This is shown for both continuous and discrete time systems. A bookkeeping scheme is presented that facilitates stability analyses by reducing the analysis of a k-species, n-patch system to that of n uncoupled k-dimensional single-patch systems. This is demonstrated in a worked example for a chain of patches. In two applications the method is then used to analyse the stability of the equilibrium of a predator-prey system with a pool of dispersers and of the periodic solutions of the spatial Lotka-Volterra model.

Animals↗
PubMed2000

Phage therapy: the peculiar kinetics of self-replicating pharmaceuticals.

The specter of antibiotic-resistant bacteria has provoked renewed interest in the possible use of bacteriophages to control bacterial infections. We argue that clinical application of phage therapy has been held back by a failure to appreciate the extent to which the pharmacokinetics of self-replicating agents differ from those of normal drugs. For self-replicating pharmaceutical agents, treatment outcome depends critically on various density-dependent thresholds, often with apparently paradoxical consequences. An ability to predict these thresholds and associated critical time points is a necessity if phage therapy is to become clinically practicable.

Animals↗
PubMed1999

The kinetics of proteinase K digestion of linear prion polymers.

Transmissible spongiform encephalopathies such as scrapie are caused by a protein-only infectious agent, known as a prion. It is not clear how a protein can be capable of replicating itself, and the mechanism remains controversial. One influential model hypothesizes that prions are nucleated, macroscopically linear polymers. We investigated the theoretical kinetics of this model and derived predictions which could be used to test the model. In the model, the polymerization and depolymerization rates are independent polymer size. This leads to an exponential size distribution at equilibrium. In agreement with a prediction stemming from this size distribution, the average size of PrP-res polymers was proportional to the square root of the concentration of PrP-res in a published study of in vitro conversion. Prion digestion by proteinase K (PK) is predicted to be biphasic. The second phase of digestion should be virtually independent of the PK concentration and should depend on the initial size distribution of prion polymers. For initially equilibrated polymers with an exponential size distribution, phase two digestion is exponential at a predicted rate. This rate varies in a defined way with the concentration used for equilibration and with other parameters which affect the average polymer size.

Biopolymers↗
PubMed1999

Quantifying the kinetic parameters of prion replication.

The mechanism of protein-only prion replication is controversial. A detailed mathematical model of prion replication by nucleated polymerisation is developed, and its parameters are estimated from published data. PrP-res decay is around two orders of magnitude slower than PrP-sen decay, a plausible ratio of two parameters estimated from very different experiments. By varying the polymer breakage rate, we reveal that systems of short polymers grow the fastest. Drugs which break polymers could therefore accelerate disease progression. Growth in PrP-res seems slower than growth in infectious titre. This can be explained either by a novel hypothesis concerning inoculum clearance from a newly infected brain, or by the faster growth of compartments containing smaller polymers. The existence of compartments can also explain why prion growth sometimes reaches a plateau. Published kinetic data are all compatible with our mathematical model, so the nucleated polymerisation hypothesis cannot be ruled out on dynamic grounds.

Animals↗
PubMed1999

Dynamics of macrophage and T cell infection by HIV.

We analyse mathematical models comparing the in vivo dynamics of macrophage- and T cell infection by HIV. Experiments suggest that HIV can only replicate in activated T cells whereas cell activation may not be required for successful replication in macrophages. These assumptions lead to fundamentally different conditions required to establish a persistent infection in the two cell types. While persistent replication in macrophages is achieved if the basic reproductive ratio of the virus, R0, exceeds unity, the establishment of T cell infection may depend on a complex balance between host and viral parameters as well as initial conditions. More specifically, the replication rate of HIV needs to lie above a threshold level and the immune responsiveness of the host below a certain threshold for persistent T cell infection to be possible. In addition, initial virus load has to be intermediate and the initial abundance of CTLs low. Mathematical models predict that macrophage infection may be essential for the successful establishment of HIV in the primary phase of the infection. Acting as a reservoir, they allow the virus to evolve towards increased replication kinetics as well as away from immune recognition, thus paving the way for the rise of exclusively T cell tropic strains using the CXCR4-coreceptor.

CD4-Positive T-Lymphocytes↗
PubMed1998

Populations can persist in an environment consisting of sink habitats only.

Populations that live in environments with different habitats have to distribute their offspring over these habitats. When population densities go to equilibrium, the evolutionary optimum is an ideal free distribution. Under an ideal free distribution, no offspring should be put into sink habitats. However, when the environmental conditions in a habitat are not constant but fluctuate, allocating offspring to sink habitats can increase the long term growth rate of a population. We demonstrate this principle in a simple model for offspring allocation. As a consequence, it is possible that populations persist in environments that only consist of sink habitats.

Animals↗
PubMed1997

The effects of a pool of dispersers on host-parasitoid systems.

When individuals migrate in a multi-patch environment, a considerable proportion of their lifetime might be spent in transit between patches. We investigate the effects such a pool of dispersers can have on local stability and dynamics for a variety of multi-patch host-parasitoid models. When an arbitrary number of patches with internal Lotka-Volterra dynamics is coupled via a global pool of dispersers, the equilibrium is globally stable. The global pool is stabilising if dispersal is by hosts only, by parasitoids only, or by both hosts and parasitoids. If dispersal is local such that individuals first enter a pool close to the patch where they originate and then disperse to adjacent pools, the equilibrium is locally stable. We also analyse the situation where the functional response of parasitoids within a patch is Holling type II which is known to destabilise host-parasitoid systems. Coupling this single patch to a pool of dispersers can produce a locally stable interaction, provided the handling time of hosts is not too long. However, the pool provides a biologically realistic example of an interaction that is locally stable but not permanent. The longer the handling time, the smaller the region of population densities within which populations converge to the equilibrium state. In a multi-patch environment with a global disperser pool, the dynamics of the system are not qualitatively different from the single patch case (i.e. the equilibrium can be locally stable but the system is not permanent). In a multi-patch environment with local disperser pools, true spatial interactions between patches can develop. In contrast to the global pool, local pools can destabilise the stable equilibrium of the single patch case. Limit cycles develop around this unstable equilibrium that lead to extremely complicated dynamics. In contrast to the global pool, a system of local pools can exhibit bounded fluctuations so that populations do not go extinct.

Animals↗