19982019
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Research Output 1998 2019

1998

Aggregation Methods in Food Chains.

Kooi, B. W., Poggiale, J. C. & Auger, P., 1998, In : Mathematical and Computer Modelling. 27, 4, p. 109-120

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Food Chain
Aggregation
Agglomeration
Chemostats
Chemostat

Consequences of population models on the dynamics of food chains.

Kooi, B. W., Boer, M. P. & Kooijman, S. A. L. M., 1998, In : Mathematical Biosciences. 153, p. 99-124 25 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Food Chain
Population Model
food chain
Bifurcation Diagram
Population

Food chain dynamics in the chemostat.

Boer, M. P., Kooi, B. W. & Kooijman, S. A. L. M., 1998, In : Mathematical Biosciences. 150, p. 43-62 20 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Chemostats
Food Chain
Chemostat
food chain
Food Chain Model

On the use of the logistic equation in models of food chains.

Kooi, B. W., Boer, M. P. & Kooijman, S. A. L. M., 1998, In : Bulletin of Mathematical Biology. 60, p. 231-246

Research output: Contribution to JournalArticleAcademicpeer-review

Food Chain
Logistic Equation
food chain
Food Chain Model
Logistics
1999

Diffusion barriers limit the effect of mobile calcium buffers on exocytosis of large dense cored vesicles

Kits, K. S., de Vlieger, T. A., Kooi, B. W. & Mansvelder, H. D., 1999, In : Biophysical Journal. 76, 3, p. 1693-1705 13 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access

DIffusion barriers limit the effect of mobile calcium buffers on exocytosis of large dense cored vesicles.

Kits, K. S., de Vlieger, T. A., Kooi, B. W. & Mansvelder, H. D., 1999, In : Biophysical Journal. 76, p. 1693-1705

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access

Discrete event versus continuous approach to reproduction in structured population dynamics.

Kooi, B. W. & Kooijman, S. A. L. M., 1999, In : Theoretical Population Biology. 56, p. 91-105

Research output: Contribution to JournalArticleAcademicpeer-review

population dynamics
chemostat
Rotifera
dilution
egg

Homoclinic and heteroclinic orbits to a cycle in a tri-trophic food chain.

Boer, M. P., Kooi, B. W. & Kooijman, S. A. L. M., 1999, In : Journal of Mathematical Biology. 39, p. 19-38

Research output: Contribution to JournalArticleAcademicpeer-review

Modelling direct (photodegradation) and indirect (litter quality) effects of enhanced UV-B on litter decomposition.

Rozema, J., Kooi, B. W., Broekman, R. A. & Kuijper, L. D. J., 1999, Stratospheric ozone depletion: the effect of UV-B radiation on terrestrial oecosystems.. Rozema, J. (ed.). Leiden: Backhuys Publishers, p. 134-157

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Modelling direct (photodegradation) and indirect (litter quality) effects of enhanced UV-B on litter decomposition.

Rozema, J., Kooi, B. W., Broekman, R. A. & Kuijper, L. D. J., 1999, Stratospheric ozone depletion: the effects of enhanced UV-B radiation on terrestrial ecosystems.. Rozema, J. (ed.). Leiden: Backhuys Publishers, p. 135-157

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Resistance of a food chain to invasion by a top predator.

Kooi, B. W., Boer, M. P. & Kooijman, S. A. L. M., 1999, In : Mathematical Biosciences. 157, p. 217-236

Research output: Contribution to JournalArticleAcademicpeer-review

Food Chain
Invasion
Predator
food chain
predators

The application of mass and energy conservation laws in physiologically structured population models of heterotrophic organisms.

Kooijman, S. A. L. M., Kooi, B. W. & Hallam, T. G., 1999, In : Journal of Theoretical Biology. 197, p. 371-392

Research output: Contribution to JournalArticleAcademicpeer-review

energy conservation
Structured Populations
heterotrophs
Mass Conservation
Energy Conservation
2000

Invading species can stabilize simple trophic systems.

Kooi, B. W. & Kooijman, S. A. L. M., 2000, In : Ecological Modelling. 133, p. 57-72

Research output: Contribution to JournalArticleAcademicpeer-review

predator
bifurcation
nutrient
food web
invasibility

Numerical analysis and parameter estimation of a structured population model with discrete events in the life history.

Kelpin, F. L. D., Kirkilionis, M. & Kooi, B. W., 2000, In : Journal of Theoretical Biology. 207, p. 217-230

Research output: Contribution to JournalArticleAcademicpeer-review

Structured Populations
Discrete Event
Population Model
Parameter estimation
Parameter Estimation

The dynamic of tritrophic food chains.

Boer, M. P., 2000, Amsterdam. 97 p.

Research output: PhD ThesisPhD Thesis - Research VU, graduation VUAcademic

The role of intracellular components in food chain dynamics.

Hanegraaf, P. P. F., Kooi, B. W. & Kooijman, S. A. L. M., 2000, In : Life Sciences. 323, p. 99-111

Research output: Contribution to JournalArticleAcademicpeer-review

2001

Bifurcations in ecosystem models and their biological interpretation.

Kooi, B. W. & Boer, M. P., 2001, In : Applicable Analysis. 77, p. 29-59

Research output: Contribution to JournalArticleAcademicpeer-review

Bi-trophic food chain dynamics with multiple component populations.

Kooi, B. W. & Hanegraaf, P. P. F., 2001, In : Bulletin of Mathematical Biology. 63, p. 271-299

Research output: Contribution to JournalArticleAcademicpeer-review

Food Chain
food chain
Population
Food Web
Maintenance

Iterparous reproduction strategies and population dynamics.

Kooi, B. W., Hallam, T. G., Kelpin, F. L. D., Krohn, C. M. & Kooijman, S. A. L. M., 2001, In : Bulletin of Mathematical Biology. 63, p. 769-794

Research output: Contribution to JournalArticleAcademicpeer-review

Population dynamics
Population Dynamics
Population Model
Reproduction
population dynamics

Multiple attractors and boundary crises in a tri-trophic food chain.

Boer, M. P., Kooi, B. W. & Kooijman, S. A. L. M., 2001, In : Mathematical Biosciences. 169, 2, p. 109-128

Research output: Contribution to JournalArticleAcademicpeer-review

Food Chain
food chain
saddles
Limit Cycle
orbits
2002

Aggregation methods in food chains with nutrient recycling.

Kooi, B. W., Poggiale, J. C., Auger, P. & Kooijman, S. A. L. M., 2002, In : Ecological Modelling. 157, p. 69-86

Research output: Contribution to JournalArticleAcademicpeer-review

food chain
recycling
chemostat
nutrient
trophic level

Light-induced mass turnover in a mono-species community of mixotrophs.

Kooijman, S. A. L. M., Dijkstra, H. A. & Kooi, B. W., 2002, In : Journal of Theoretical Biology. 214, p. 233-254

Research output: Contribution to JournalArticleAcademicpeer-review

Nitrogen
Carbon
Light
autotrophs
carbon

Numerical bifurcation analysis of a tri-trophic food web with omnivory.

Kooi, B. W., Kuijper, L. D. J., Boer, M. P. & Kooijman, S. A. L. M., 2002, In : Mathematical Biosciences. 177-178, p. 201-228

Research output: Contribution to JournalArticleAcademicpeer-review

Food Web
Food Chain
omnivores
Bifurcation Analysis
Prey

The dynamics of a tri-trophic food chain with two-component populations from a biochemical perspective.

Hanegraaf, P. P. F. & Kooi, B. W., 2002, In : Ecological Modelling. 152, p. 47-64

Research output: Contribution to JournalArticleAcademicpeer-review

food chain
bifurcation
chemostat
predator-prey interaction
nutrient enrichment
2003

Chaotic behaviour of a predator-prey system.

Kooi, B. W. & Boer, M. P., 2003, In : Dynamics of Continuous, Discrete and Impulsive Systems Series B. Applications and Algorithms.. 10, p. 259-272

Research output: Contribution to JournalArticleAcademicpeer-review

Numerical bifurcation analysis of ecosystems in a spatially homogeneous environment.

Kooi, B. W., 2003, In : Acta Biotheoretica. 51, p. 189-222

Research output: Contribution to JournalArticleAcademicpeer-review

Bifurcation Analysis
bifurcation
Ecosystem
Ecosystems
Numerical Analysis

Omnivory and food web dynamics

Kuijper, L. D. J., Kooi, B. W., Zonneveld, C. & Kooijman, S. A. L. M., 2003, In : Ecological Modelling. 163, p. 19-32

Research output: Contribution to JournalArticleAcademicpeer-review

omnivory
intraguild predation
food web
nutrient enrichment
predator

Quantitative steps in symbiogenesis and the evolution of homeostasis.

Kooijman, S. A. L. M., Auger, P., Poggiale, J. C. & Kooi, B. W., 2003, In : Biological Reviews. 78, p. 435-463

Research output: Contribution to JournalArticleAcademicpeer-review

homeostasis
Homeostasis
Budgets
Substrates
symbionts

Structured population dynamics, a modeling perspective.

Kooi, B. W. & Kelpin, F. L. D., 2003, In : Comments on Theoretical Biology. 8, p. 125-168

Research output: Contribution to JournalArticleAcademicpeer-review

2004

Consequences of symbiosis for food web dynamics.

Kooi, B. W., Kuijper, L. D. J. & Kooijman, S. A. L. M., 2004, In : Journal of Physical Chemistry A. 3, p. 227-271

Research output: Contribution to JournalArticleAcademicpeer-review

Dynamic energy budget representations of stoichiometric constraints to population models.

Kooijman, S. A. L. M., Andersen, T. R. & Kooi, B. W., 2004, In : Ecology. 85, p. 1230-1243

Research output: Contribution to JournalArticleAcademicpeer-review

Inducible defences and the paradox of enrichment.

Vos, M., Kooi, B. W., Mooij, W. M. & DeAngelis, D. L., 2004, In : Oikos. 105, p. 471-480

Research output: Contribution to JournalArticleAcademicpeer-review

food chain
polymorphism
persistence
primary productivity
extinction

Inducible defences and trophic structure.

Vos, M., Verschoor, A. M., Kooi, B. W., Wackers, F. L., DeAngelis, D. L. & Mooij, W. M., 2004, In : Ecology. 85, 10, p. 2783-2794

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
File
trophic structure
trophic level
bottom-up control
top-down control
ecological theory

Stoichiometry and food chain dynamics.

Kuijper, L. D. J., Kooi, B. W., Anderson, T. R. & Kooijman, S. A. L. M., 2004, In : Theoretical Population Biology. 66, p. 323-339

Research output: Contribution to JournalArticleAcademicpeer-review

stoichiometry
food chain
chemostat
nitrogen
carbon

The relationship between elimination rates and partition coefficients of chemical compounds.

Kooijman, S. A. L. M., Jager, D. T. & Kooi, B. W., 2004, In : Chemosphere. 57, p. 745-753

Research output: Contribution to JournalArticleAcademicpeer-review

Chemical compounds
chemical compound
partition coefficient
Daphnia
Octanols

The role of trophic flows in food web dynamics.

Kuijper, L. D. J., 2004, 125 p.

Research output: PhD ThesisPhD Thesis - Research VU, graduation VUAcademic

2005

Ecological specialization of mixotrophic plankton in a mixed water column.

Troost, T. A., Kooi, B. W. & Kooijman, S. A. L. M., 2005, In : The American Naturalist. 166, p. E45-E61

Research output: Contribution to JournalArticleAcademicpeer-review

Global change effects on a mechanistic decomposer food web model

Kuijper, L. D. J., Berg, M. P., Morrien, E., Kooi, B. W. & Verhoef, H. A., 2005, In : Global Change Biology. 11, p. 249-265

Research output: Contribution to JournalArticleAcademicpeer-review

Carbon Monoxide
Fungi
Refractory materials
global change
Ecosystems

When do mixotrophs specialize? Adaptive dynamics theory applied to a dynamic energy budget model.

Troost, T. A., Kooi, B. W. & Kooijman, S. A. L. M., 2005, In : Mathematical Biosciences. 193, p. 159-182

Research output: Contribution to JournalArticleAcademicpeer-review

Dynamics (theory)
Adaptive Dynamics
Budgets
Cost functions
Nutrients

Yeast glycolytic oscillations that are not controlled by a single oscillophore: A new definition of oscillophore strength.

Reijenga, K. A., van Megen, Y. M. G. A., Kooi, B. W., Bakker, B. M., Snoep, J. L., van Verseveld, H. W. & Westerhoff, H. V., 2005, In : Journal of Theoretical Biology. 232, p. 385-398

Research output: Contribution to JournalArticleAcademicpeer-review

Yeast
oscillation
Yeasts
Enzymes
Oscillation
2006

Advantages of storage in a fluctuating environment.

Kooi, B. W. & Troost, T. A., 2006, In : Theoretical Population Biology. 70, p. 527-541

Research output: Contribution to JournalArticleAcademicpeer-review

energy
bifurcation
chemostat
multipliers
timescale

Bifurcation analysis of a predator-prey model with predators using hawk dove tactics.

Auger, P., Kooi, B. W., Bravo de la Parra, R. & Poggiale, J. C., 2006, In : Journal of Theoretical Biology. 238, p. 597-607

Research output: Contribution to JournalArticleAcademicpeer-review

Hawks
doves
hawks
Predator-prey Model
Bifurcation Analysis

Evolution of Community Metabolism

Troost, T. A., 2006, Gildeprint Drukkerijen. 167 p.

Research output: PhD ThesisPhD Thesis - Research VU, graduation VUAcademic

Open Access
File

Inducible defences in food webs.

Vos, M., Kooi, B. W., DeAngelis, D. L. & Mooij, W. M., 2006, Dynamic Food Webs: Multispecies assemblages, ecosystem development, and environmental change A volume of Theoretical Biology.. P.C. de Ruiter, V. Wolters and C.J. Moore (ed.). p. 114-127

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Multiparametric bifurcation analysis of a basic two stage population model.

Baer, S. M., Kooi, B. W., Kuznetsov, Y. A. & Thieme, H. R., 2006, In : SIAM journal on applied mathematics. 66, p. 1339-1365

Research output: Contribution to JournalArticleAcademic

Two-stage Model
Bifurcation Analysis
Population Model
Unfolding
Bogdanov-Takens Bifurcation
2007

A new class of non-linear stochastic population models with mass conservation.

Kooijman, S. A. L. M., Graman, J. & Kooi, B. W., 2007, In : Mathematical Biosciences. 210, p. 378-394

Research output: Contribution to JournalArticleAcademicpeer-review

Mass Conservation
Bifurcation Point
Population Model
Nutrients
Stochastic Model

A second-order, unconditionally positive, mass-conserving integration scheme for biochemical systems.

Bruggeman, J., Burchard, H., Kooi, B. W. & Sommeijer, B., 2007, In : Applied Numerical Mathematics. 57, p. 36-58

Research output: Contribution to JournalArticleAcademicpeer-review

Conservation
Chemical compounds
Positivity
High Order Accuracy
Conserve

Bifurcation analysis can unify ecological and evolutionary aspects of ecosystems.

Troost, T. A., Kooi, B. W. & Kooijman, S. A. L. M., 2007, In : Ecological Modelling. 204, p. 253-268

Research output: Contribution to JournalArticleAcademicpeer-review

bifurcation
ecosystem
timescale
invasibility
resident population

Effects of density-dependent migrations on stability of a two-patch predator-prey model.

Abdllaoui, A. E., Auger, P., Kooi, B. W., Bravo de la Parra, R. & Mchich, R., 2007, In : Mathematical Biosciences. 210, p. 335-354

Research output: Contribution to JournalArticleAcademicpeer-review

Predator-prey Model
Migration
Patch
predators
Predator