Log in

Relevant bibliographies by topics / Dynamic Energy Budget (DEB) Model / Journal articles

To see the other types of publications on this topic, follow the link: Dynamic Energy Budget (DEB) Model.

Journal articles on the topic 'Dynamic Energy Budget (DEB) Model'

Author: Grafiati

Published: 4 June 2025

Last updated: 15 July 2025

Create a spot-on reference in APA, MLA, Chicago, Harvard, and other styles

Select a source type:

Consult the top 50 journal articles for your research on the topic 'Dynamic Energy Budget (DEB) Model.'

Next to every source in the list of references, there is an 'Add to bibliography' button. Press on it, and we will generate automatically the bibliographic reference to the chosen work in the citation style you need: APA, MLA, Harvard, Chicago, Vancouver, etc.

You can also download the full text of the academic publication as pdf and read online its abstract whenever available in the metadata.

Browse journal articles on a wide variety of disciplines and organise your bibliography correctly.

1

Liao, Baochao, Xiujuan Shan, Can Zhou, Yanan Han, Yunlong Chen, and Qun Liu. "A dynamic energy budget–integral projection model (DEB-IPM) to predict population-level dynamics based on individual data: a case study using the small and rapidly reproducing species Engraulis japonicus." Marine and Freshwater Research 71, no. 4 (2020): 461. http://dx.doi.org/10.1071/mf19158.

Full text

Abstract:

The coupling of a dynamic energy budget (DEB) model with an integral projection model (IPM; i.e. generating a DEB-IPM) is a promising new method to predict the population-level dynamics of species based on individuals. In a single framework, the DEB component provides links to the individual-level physiological processes, and the IPM component provides an alternative way to investigate ecological changes in quantitative life history characteristics and population dynamics. In this paper we present a DEB-IPM to analyse a Japanese anchovy (Engraulis japonicus) population in Chinese seas. The coupled model describes the dynamics of a population of individuals, where each individual follows an energy budget. Primary model parameters (e.g. energy conductance, ὺ; allocation coefficient, κ; and volume-specific somatic maintenance, [ṗM]) were estimated. The mean population growth rate (rp) was calculated to be 3.4year–1. The predicted demographic rates (e.g. growth, survival and reproduction) were well within observed ranges, and fit within average recorded values, and captured known seasonal trends. DEB-IPMs could be a useful tool to capture the dynamics of biodiversity amidst global environmental changes.

APA, Harvard, Vancouver, ISO, and other styles

2

Jager, Tjalling, and Chris Klok. "Extrapolating toxic effects on individuals to the population level: the role of dynamic energy budgets." Philosophical Transactions of the Royal Society B: Biological Sciences 365, no. 1557 (2010): 3531–40. http://dx.doi.org/10.1098/rstb.2010.0137.

Full text

Abstract:

The interest of environmental management is in the long-term health of populations and ecosystems. However, toxicity is usually assessed in short-term experiments with individuals. Modelling based on dynamic energy budget (DEB) theory aids the extraction of mechanistic information from the data, which in turn supports educated extrapolation to the population level. To illustrate the use of DEB models in this extrapolation, we analyse a dataset for life cycle toxicity of copper in the earthworm Dendrobaena octaedra . We compare four approaches for the analysis of the toxicity data: no model, a simple DEB model without reserves and maturation (the Kooijman–Metz formulation), a more complex one with static reserves and simplified maturation (as used in the DEBtox software) and a full-scale DEB model (DEB3) with explicit calculation of reserves and maturation. For the population prediction, we compare two simple demographic approaches (discrete time matrix model and continuous time Euler–Lotka equation). In our case, the difference between DEB approaches and population models turned out to be small. However, differences between DEB models increased when extrapolating to more field-relevant conditions. The DEB3 model allows for a completely consistent assessment of toxic effects and therefore greater confidence in extrapolating, but poses greater demands on the available data.

APA, Harvard, Vancouver, ISO, and other styles

3

Nisbet, Roger M., Edward McCauley, and Leah R. Johnson. "Dynamic energy budget theory and population ecology: lessons from Daphnia." Philosophical Transactions of the Royal Society B: Biological Sciences 365, no. 1557 (2010): 3541–52. http://dx.doi.org/10.1098/rstb.2010.0167.

Full text

Abstract:

Dynamic energy budget (DEB) theory offers a perspective on population ecology whose starting point is energy utilization by, and homeostasis within, individual organisms. It is natural to ask what it adds to the existing large body of individual-based ecological theory. We approach this question pragmatically—through detailed study of the individual physiology and population dynamics of the zooplankter Daphnia and its algal food. Standard DEB theory uses several state variables to characterize the state of an individual organism, thereby making the transition to population dynamics technically challenging, while ecologists demand maximally simple models that can be used in multi-scale modelling. We demonstrate that simpler representations of individual bioenergetics with a single state variable (size), and two life stages (juveniles and adults), contain sufficient detail on mass and energy budgets to yield good fits to data on growth, maturation and reproduction of individual Daphnia in response to food availability. The same simple representations of bioenergetics describe some features of Daphnia mortality, including enhanced mortality at low food that is not explicitly incorporated in the standard DEB model. Size-structured, population models incorporating this additional mortality component resolve some long-standing questions on stability and population cycles in Daphnia . We conclude that a bioenergetic model serving solely as a ‘regression’ connecting organismal performance to the history of its environment can rest on simpler representations than those of standard DEB. But there are associated costs with such pragmatism, notably loss of connection to theory describing interspecific variation in physiological rates. The latter is an important issue, as the type of detailed study reported here can only be performed for a handful of species.

APA, Harvard, Vancouver, ISO, and other styles

4

Monaco, Cristián J., David S. Wethey, and Brian Helmuth. "A Dynamic Energy Budget (DEB) Model for the Keystone Predator Pisaster ochraceus." PLoS ONE 9, no. 8 (2014): e104658. http://dx.doi.org/10.1371/journal.pone.0104658.

Full text

APA, Harvard, Vancouver, ISO, and other styles

5

Lorena, António, Gonçalo M. Marques, S. A. L. M. Kooijman, and Tânia Sousa. "Stylized facts in microalgal growth: interpretation in a dynamic energy budget context." Philosophical Transactions of the Royal Society B: Biological Sciences 365, no. 1557 (2010): 3509–21. http://dx.doi.org/10.1098/rstb.2010.0101.

Full text

Abstract:

A dynamic energy budget (DEB) model for microalgae is proposed. This model deviates from the standard DEB model as it needs more reserves to cope with the variation of assimilation pathways, requiring a different approach to growth based on the synthesizing unit (SU) theory for multiple substrates. It is shown that the model is able to accurately predict experimental data in constant and light-varying conditions with most of the parameter values taken directly from the literature. Also, model simulations are shown to be consistent with stylized facts (SFs) concerning N∶C ratio. These SFs are reinterpreted and the general conclusion is that all forcing variables (dilution rate, temperature and irradiance) impose changes in the nitrogen or carbon limitation status of the population, and consequently on reserve densities. Model predictions are also evaluated in comparison with SFs on chlorophyll concentration. It is proposed that an extra structure, more dependent on the nitrogen reserve, is required to accurately model chlorophyll dynamics. Finally, SFs concerning extracellular polymeric substances (EPSs) production by benthic diatoms are collected and interpreted and a formulation based on product synthesis and rejection flux is proposed for the EPSs production rate.

APA, Harvard, Vancouver, ISO, and other styles

6

Nisbet, R. M., M. Jusup, T. Klanjscek, and L. Pecquerie. "Integrating dynamic energy budget (DEB) theory with traditional bioenergetic models." Journal of Experimental Biology 215, no. 6 (2012): 892–902. http://dx.doi.org/10.1242/jeb.059675.

Full text

APA, Harvard, Vancouver, ISO, and other styles

7

Nisbet, R. M., M. Jusup, T. Klanjscek, and L. Pecquerie. "Integrating dynamic energy budget (DEB) theory with traditional bioenergetic models." Journal of Experimental Biology 215, no. 7 (2012): 1246. http://dx.doi.org/10.1242/jeb.071845.

Full text

APA, Harvard, Vancouver, ISO, and other styles

8

Rico-Villa, B., I. Bernard, R. Robert, and S. Pouvreau. "A Dynamic Energy Budget (DEB) growth model for Pacific oyster larvae, Crassostrea gigas." Aquaculture 305, no. 1-4 (2010): 84–94. http://dx.doi.org/10.1016/j.aquaculture.2010.04.018.

Full text

APA, Harvard, Vancouver, ISO, and other styles

9

Grossowicz, Michal, Gonçalo M. Marques, and George A. K. van Voorn. "A dynamic energy budget (DEB) model to describe population dynamics of the marine cyanobacterium Prochlorococcus marinus." Ecological Modelling 359 (September 2017): 320–32. http://dx.doi.org/10.1016/j.ecolmodel.2017.06.011.

Full text

APA, Harvard, Vancouver, ISO, and other styles

10

Vinga, S., A. R. Neves, H. Santos, B. W. Brandt, and S. A. L. M. Kooijman. "Subcellular metabolic organization in the context of dynamic energy budget and biochemical systems theories." Philosophical Transactions of the Royal Society B: Biological Sciences 365, no. 1557 (2010): 3429–42. http://dx.doi.org/10.1098/rstb.2010.0156.

Full text

Abstract:

The dynamic modelling of metabolic networks aims to describe the temporal evolution of metabolite concentrations in cells. This area has attracted increasing attention in recent years owing to the availability of high-throughput data and the general development of systems biology as a promising approach to study living organisms. Biochemical Systems Theory (BST) provides an accurate formalism to describe biological dynamic phenomena. However, knowledge about the molecular organization level, used in these models, is not enough to explain phenomena such as the driving forces of these metabolic networks. Dynamic Energy Budget (DEB) theory captures the quantitative aspects of the organization of metabolism at the organism level in a way that is non-species-specific. This imposes constraints on the sub-organismal organization that are not present in the bottom-up approach of systems biology. We use in vivo data of lactic acid bacteria under various conditions to compare some aspects of BST and DEB approaches. Due to the large number of parameters to be estimated in the BST model, we applied powerful parameter identification techniques. Both models fitted equally well, but the BST model employs more parameters. The DEB model uses similarities of processes under growth and no-growth conditions and under aerobic and anaerobic conditions, which reduce the number of parameters. This paper discusses some future directions for the integration of knowledge from these two rich and promising areas, working top-down and bottom-up simultaneously. This middle-out approach is expected to bring new ideas and insights to both areas in terms of describing how living organisms operate.

APA, Harvard, Vancouver, ISO, and other styles

11

Saraiva, S., Meer van der M, SALM Kooijman, et al. "Validation of a Dynamic Energy Budget (DEB) model for the blue mussel Mytilus edulis." Marine Ecology Progress Series 463 (August 30, 2012): 141–58. http://dx.doi.org/10.3354/meps09801.

Full text

APA, Harvard, Vancouver, ISO, and other styles

12

Talbot, S. Elizabeth, Stephen Widdicombe, Chris Hauton, and Jorn Bruggeman. "Adapting the dynamic energy budget (DEB) approach to include non-continuous growth (moulting) and provide better predictions of biological performance in crustaceans." ICES Journal of Marine Science 76, no. 1 (2018): 192–205. http://dx.doi.org/10.1093/icesjms/fsy164.

Full text

Abstract:

Abstract Dynamic energy budget (DEB) theory offers a comprehensive framework for understanding the overall physiological performance (growth, development, respiration, reproduction, etc.) of an organism over the course of its life cycle. We present here a simplified DEB model for the swimming crab Liocarcinus depurator. To the best of our knowledge, this is the first to be presented for this species. Most applications of the standard DEB model assume continuous growth in all size metrics (length, wet mass, carbon content) of the modelled species. However, in crustaceans growth, measured as an increase of carapace length/width, occurs periodically via moult. To account for this, we have extended the model to track the continuous increase in carbon mass as well as the episodic increase in physical size. Model predictions were consistent with the patterns in the observed data, predicting both the moult increment and the intermoult period of an individual. In addition to presenting the model itself, we also make recommendations for further development, and evaluate the potential applications of such a model, both at the individual level (e.g. aquaculture) and as a potential tool for population level dynamics (e.g. fisheries stock assessment).

APA, Harvard, Vancouver, ISO, and other styles

13

ZHANG, Jihong, Wenguang WU, Yi LIU, Fan LIN, Wei WANG, and Yali NIU. "A dynamic energy budget (DEB) growth model for Japanese scallop Patinopecten yessoensis cultured in China." Journal of Fishery Sciences of China 24, no. 3 (2017): 497. http://dx.doi.org/10.3724/sp.j.1118.2017.16227.

Full text

APA, Harvard, Vancouver, ISO, and other styles

14

Dong, Shipeng, Dapeng Liu, Boshan Zhu, Liye Yu, Hongwei Shan, and Fang Wang. "A Dynamic Energy Budget Model for Kuruma Shrimp Penaeus japonicus: Parameterization and Application in Integrated Marine Pond Aquaculture." Animals 12, no. 14 (2022): 1828. http://dx.doi.org/10.3390/ani12141828.

Full text

Abstract:

Individual growth models can form the basis of population dynamics assessment and ecosystem model construction. In order to provide a basic module for an ecosystem model of an integrated marine aquaculture pond, an individual growth model was constructed for kuruma shrimp (Penaeus japonicus) based on dynamic energy budget (DEB) theory. The model was first parameterized based on a covariation method using the Add-my-Pet (AmP) procedure. The parametric estimation model underestimated the ultimate abdominal length for female shrimp, and the predicted values of other zero-variate parameters were generally consistent with observed values. The relative errors of the predicted and observed values of the univariate data set within three geographical regions showed acceptable goodness of fit. Parameter estimation achieved an overall goodness of fit with a mean relative error of 0.048 and a symmetric mean squared error of 0.066. A DEB model was constructed using the estimated parameters, and the goodness-of-fit indicators (R square, mean bias and absolute and relative root mean square error) showed that the model was able to reproduce the growth of kuruma shrimp in terms of total length and wet weight with high accuracy. The results provide data to support the subsequent development of integrated aquaculture management at the ecosystem level.

APA, Harvard, Vancouver, ISO, and other styles

15

Einarsson, Baldvin, Björn Birnir, and Sven Sigurðsson. "A dynamic energy budget (DEB) model for the energy usage and reproduction of the Icelandic capelin (Mallotus villosus)." Journal of Theoretical Biology 281, no. 1 (2011): 1–8. http://dx.doi.org/10.1016/j.jtbi.2011.03.031.

Full text

APA, Harvard, Vancouver, ISO, and other styles

16

Agüera, Antonio, In-Young Ahn, Charlène Guillaumot, and Bruno Danis. "A Dynamic Energy Budget (DEB) model to describe Laternula elliptica (King, 1832) seasonal feeding and metabolism." PLOS ONE 12, no. 8 (2017): e0183848. http://dx.doi.org/10.1371/journal.pone.0183848.

Full text

APA, Harvard, Vancouver, ISO, and other styles

17

KULMINSKI, A., K. MANTON, I. AKUSHEVICH, and A. YASHIN. "THE EFFECT OF THE ORGANISMS' BODY SIZE AND ENERGY RESERVES IN MODELS FOR POPULATION DYNAMICS." Journal of Biological Systems 12, no. 04 (2004): 419–37. http://dx.doi.org/10.1142/s0218339004001336.

Full text

Abstract:

We present two models suitable for describing dynamics of a population of unicellular organisms residing in chemostat. These models are based on biologically motivated Dynamic Energy Budget (DEB) theory and take into account the dynamics of mean energy reserves and body length of organisms in the population. The difference between the models is in the construction of the reproduction rate. In model A it is the ordinary reproduction rate used in DEB theory. In model B it is adjusted to take into account a saturation effect in the dynamics of mean body length. Our modeling approach is illustrated by considering population of E. coli developing in the chemostat. We consider realistic situations of growth of population of E. coli at fixed and varied environmental and biological factors. We show that unlike model B in model A the dynamics of body length does not affect directly population development. Nevertheless, taking such dynamics into account is essential in both models since it provides additional constrains to population development. The models can be easily extended to include description of individual characteristics other than body size (e.g., reproduction rate, mortality rate). The models predict two types of transient dynamics: one type is similar to that in a logistic model; the other type is damped oscillations. The essential difference between the models is that model B better predicts the extinction threshold of the population.

APA, Harvard, Vancouver, ISO, and other styles

18

Kooijman, S. A. L. M. "Quantitative aspects of metabolic organization: a discussion of concepts." Philosophical Transactions of the Royal Society of London. Series B: Biological Sciences 356, no. 1407 (2001): 331–49. http://dx.doi.org/10.1098/rstb.2000.0771.

Full text

Abstract:

Metabolic organization of individual organisms follows simple quantitative rules that can be understood from basic physical chemical principles. Dynamic energy budget (DEB) theory identifies these rules, which quantify how individuals acquire and use energy and nutrients. The theory provides constraints on the metabolic organization of subcellular processes. Together with rules for interaction between individuals, it also provides a basis to understand population and ecosystem dynamics. The theory, therefore, links various levels of biological organization. It applies to all species of organisms and offers explanations for body–size scaling relationships of natural history parameters that are otherwise difficult to understand. A considerable number of popular empirical models turn out to be special cases of the DEB model, or very close numerical approximations. Strong and weak homeostasis and the partitionability of reserve kinetics are cornerstones of the theory and essential for understanding the evolution of metabolic organization.

APA, Harvard, Vancouver, ISO, and other styles

19

Sarà, G., V. Palmeri, V. Montalto, A. Rinaldi, and J. Widdows. "Parameterisation of bivalve functional traits for mechanistic eco-physiological dynamic energy budget (DEB) models." Marine Ecology Progress Series 480 (April 22, 2013): 99–117. http://dx.doi.org/10.3354/meps10195.

Full text

APA, Harvard, Vancouver, ISO, and other styles

20

van der Meer, Jaap. "An introduction to Dynamic Energy Budget (DEB) models with special emphasis on parameter estimation." Journal of Sea Research 56, no. 2 (2006): 85–102. http://dx.doi.org/10.1016/j.seares.2006.03.001.

Full text

APA, Harvard, Vancouver, ISO, and other styles

21

Diekmann, O., and J. A. J. Metz. "How to lift a model for individual behaviour to the population level?" Philosophical Transactions of the Royal Society B: Biological Sciences 365, no. 1557 (2010): 3523–30. http://dx.doi.org/10.1098/rstb.2010.0100.

Full text

Abstract:

The quick answer to the title question is: by bookkeeping; introduce as p(opulation)-state a measure telling how the individuals are distributed over their common i(ndividual)-state space, and track how the various i-processes change this measure. Unfortunately, this answer leads to a mathematical theory that is technically complicated as well as immature. Alternatively, one may describe a population in terms of the history of the population birth rate together with the history of any environmental variables affecting i-state changes, reproduction and survival. Thus, a population model leads to delay equations. This delay formulation corresponds to a restriction of the p-dynamics to a forward invariant attracting set, so that no information is lost that is relevant for long-term dynamics. For such equations there exists a well-developed theory. In particular, numerical bifurcation tools work essentially the same as for ordinary differential equations. However, the available tools still need considerable adaptation before they can be practically applied to the dynamic energy budget (DEB) model. For the time being we recommend simplifying the i-dynamics before embarking on a systematic mathematical exploration of the associated p-behaviour. The long-term aim is to extend the tools, with the DEB model as a relevant goal post.

APA, Harvard, Vancouver, ISO, and other styles

22

Matyja, Konrad, Justyna Rybak, Beata Hanus-Lorenz, Magdalena Wróbel, and Radosław Rutkowski. "Effects of polystyrene diet on Tenebrio molitor larval growth, development and survival: Dynamic Energy Budget (DEB) model analysis." Environmental Pollution 264 (September 2020): 114740. http://dx.doi.org/10.1016/j.envpol.2020.114740.

Full text

APA, Harvard, Vancouver, ISO, and other styles

23

Maury, Olivier. "An overview of APECOSM, a spatialized mass balanced “Apex Predators ECOSystem Model” to study physiologically structured tuna population dynamics in their ecosystem." Progress in oceanography 84, no. 1-2 (2010): 113–17. https://doi.org/10.1016/j.pocean.2009.09.013.

Full text

Abstract:

This paper gives an overview of the ecosystem model APECOSM (Apex Predators ECOSystem Model) which is developed in the framework of the GLOBEC-CLIOTOP Programme. APECOSM represents the flow of energy through the ecosystem with a size-resolved structure in both space and time. The uptake and use of energy for growth, maintenance and reproduction by the organisms are modelled according to the DEB (dynamic energy budget) theory (Kooijmann, 2000) and the size-structured nature of predation is explicit. The pelagic community is divided into epipelagic and mesopelagic groups, the latter being subdivided into vertically migrant and non-migrant species. The model is mass-conservative. Energy is provided as the basis of the model through primary production and transferred through 3D spatially explicit size-spectra. Focus species (tunas at present, but any predator species can be considered) are “extracted” from the global size-spectra without losing mass balance and represented with more physiological and behavioural details. The forcing effects of temperature, currents, light, oxygen, primary production and fishing are explicitly taken into account.

APA, Harvard, Vancouver, ISO, and other styles

24

Jiang, Weiwei, Fan Lin, Meirong Du, et al. "Simulation of Yesso scallop, Patinopecten yessoensis, growth with a dynamic energy budget (DEB) model in the mariculture area of Zhangzidao Island." Aquaculture International 28, no. 1 (2019): 59–71. http://dx.doi.org/10.1007/s10499-019-00447-6.

Full text

APA, Harvard, Vancouver, ISO, and other styles

25

Stubbs, Jessica L., Nicola J. Mitchell, Nina Marn, Mathew A. Vanderklift, Richard D. Pillans, and Starrlight Augustine. "A full life cycle Dynamic Energy Budget (DEB) model for the green sea turtle (Chelonia mydas) fitted to data on embryonic development." Journal of Sea Research 143 (January 2019): 78–88. http://dx.doi.org/10.1016/j.seares.2018.06.012.

Full text

APA, Harvard, Vancouver, ISO, and other styles

26

Stamataki, Natalia, Yannis Hatzonikolakis, Kostas Tsiaras, et al. "Modelling mussel (<i>Mytilus spp.</i>) microplastic accumulation." Ocean Science 16, no. 4 (2020): 927–49. http://dx.doi.org/10.5194/os-16-927-2020.

Full text

Abstract:

Abstract. Microplastics (MPs) are a contaminant of growing concern due to their widespread distribution and interactions with marine species, such as filter feeders. To investigate the MPs accumulation in wild and cultured mussels, a dynamic energy budget (DEB) model was developed and validated with the available field data of Mytilus edulis (M. edulis, wild) from the North Sea and Mytilus galloprovincialis (M. galloprovincialis, cultured) from the northern Ionian Sea. Towards a generic DEB model, the site-specific model parameter, half-saturation coefficient (Xk), was applied as a power function of food density for the cultured mussel, while for the wild mussel it was calibrated to a constant value. The DEB-accumulation model simulated the uptake and excretion rate of MPs, taking into account environmental characteristics (temperature and chlorophyll a). An accumulation of MPs equal to 0.53 particles per individual (fresh tissue mass 1.9 g) and 0.91 particles per individual (fresh tissue mass 3.3 g) was simulated for the wild and cultured mussel after 4 and 1 years respectively, in agreement with the field data. The inverse experiments investigating the depuration time of the wild and cultured mussel in a clean-from-MPs environment showed a 90 % removal of MPs load after 2.5 and 12 d respectively. Furthermore, sensitivity tests on model parameters and forcing functions highlighted that besides MPs concentration, the accumulation is highly dependent on temperature and chlorophyll a of the surrounding environment. For this reason, an empirical equation was found, directly relating the environmental concentration of MPs, with the seawater temperature, chlorophyll a, and the mussel's soft tissue MPs load.

APA, Harvard, Vancouver, ISO, and other styles

27

Filgueira, Ramón, Rune Rosland, and Jon Grant. "A comparison of scope for growth (SFG) and dynamic energy budget (DEB) models applied to the blue mussel (Mytilus edulis)." Journal of Sea Research 66, no. 4 (2011): 403–10. http://dx.doi.org/10.1016/j.seares.2011.04.006.

Full text

APA, Harvard, Vancouver, ISO, and other styles

28

Stamataki, Natalia, Yannis Hatzonikolakis, Kostas Tsiaras, et al. "Modelling mussel (Mytilus spp.) microplastic accumulation." Ocean Science 16 (August 3, 2020): 927–49. https://doi.org/10.5281/zenodo.5044851.

Full text

Abstract:

Microplastics (MPs) are a contaminant of growing concern due to their widespread distribution and interactions with marine species, such as filter feeders. To investigate the MPs accumulation in wild and cultured mussels, a dynamic energy budget (DEB) model was developed and validated with the available field data of <em>Mytilus edulis</em> (<em>M. edulis</em>, wild) from the North Sea and <em>Mytilus galloprovincialis</em> (<em>M. galloprovincialis</em>, cultured) from the northern Ionian Sea. Towards a generic DEB model, the site-specific model parameter, half-saturation coefficient (<em>X</em><sub><em>k</em></sub>), was applied as a power function of food density for the cultured mussel, while for the wild mussel it was calibrated to a constant value. The DEB-accumulation model simulated the uptake and excretion rate of MPs, taking into account environmental characteristics (temperature and chlorophyll <em>a</em>). An accumulation of MPs equal to 0.53 particles per individual (fresh tissue mass 1.9 g) and 0.91 particles per individual (fresh tissue mass 3.3 g) was simulated for the wild and cultured mussel after 4 and 1 years respectively, in agreement with the field data. The inverse experiments investigating the depuration time of the wild and cultured mussel in a clean-from-MPs environment showed a 90 % removal of MPs load after 2.5 and 12 d respectively. Furthermore, sensitivity tests on model parameters and forcing functions highlighted that besides MPs concentration, the accumulation is highly dependent on temperature and chlorophyll <em>a</em> of the surrounding environment. For this reason, an empirical equation was found, directly relating the environmental concentration of MPs, with the seawater temperature, chlorophyll <em>a</em>, and the mussel's soft tissue MPs load.

APA, Harvard, Vancouver, ISO, and other styles

29

Agüera, Antonio, Marie Collard, Quentin Jossart, Camille Moreau, and Bruno Danis. "Parameter Estimations of Dynamic Energy Budget (DEB) Model over the Life History of a Key Antarctic Species: The Antarctic Sea Star Odontaster validus Koehler, 1906." PLOS ONE 10, no. 10 (2015): e0140078. http://dx.doi.org/10.1371/journal.pone.0140078.

Full text

APA, Harvard, Vancouver, ISO, and other styles

30

van der Molen, J., J. van Beek, S. Augustine, et al. "Modelling survival and connectivity of <i>Mnemiopsis leidyi</i> in the south-western North Sea and Scheldt estuaries." Ocean Science 11, no. 3 (2015): 405–24. http://dx.doi.org/10.5194/os-11-405-2015.

Full text

Abstract:

Abstract. Three different models were applied to study the reproduction, survival and dispersal of Mnemiopsis leidyi in the Scheldt estuaries and the southern North Sea: a high-resolution particle tracking model with passive particles, a low-resolution particle tracking model with a reproduction model coupled to a biogeochemical model, and a dynamic energy budget (DEB) model. The results of the models, each with its strengths and weaknesses, suggest the following conceptual situation: (i) the estuaries possess enough retention capability to keep an overwintering population, and enough exchange with coastal waters of the North Sea to seed offshore populations; (ii) M. leidyi can survive in the North Sea, and be transported over considerable distances, thus facilitating connectivity between coastal embayments; (iii) under current climatic conditions, M. leidyi may not be able to reproduce in large numbers in coastal and offshore waters of the North Sea, but this may change with global warming; however, this result is subject to substantial uncertainty. Further quantitative observational work is needed on the effects of temperature, salinity and food availability on reproduction and on mortality at different life stages to improve models such as used here.

APA, Harvard, Vancouver, ISO, and other styles

31

van der Molen, J., J. van Beek, S. Augustine, et al. "Modelling survival and connectivity of <i>Mnemiopsis leidyi</i> in the southern North Sea and Scheldt estuaries." Ocean Science Discussions 11, no. 3 (2014): 1561–611. http://dx.doi.org/10.5194/osd-11-1561-2014.

Full text

Abstract:

Abstract. Three different models were applied to study the reproduction, survival and dispersal of Mnemiopsis leidyi in the Scheldt estuaries and the southern North Sea: a high-resolution particle tracking model with passive particles, a low resolution particle tracking model with a reproduction model coupled to a biogeochemical model, and a dynamic energy budget (DEB) model. The results of the models, each with its strengths and weaknesses, suggest the following conceptual situation: (i) the estuaries possess enough retention capability to keep an overwintering population, and enough exchange with coastal waters of the North Sea to seed offshore populations; (ii) M. leidyi can survive in the North Sea, and be transported over considerable distances, thus facilitating connectivity between coastal embayments; (iii) under current climatic conditions, M. leidyi may not be able to reproduce in large numbers in coastal and offshore waters of the North Sea, but this may change with global warming – however this result is subject to substantial uncertainty. Further quantitative observational work is needed on the effects of temperature, salinity and food availability on reproduction and on mortality at different life stages to improve models such as used here.

APA, Harvard, Vancouver, ISO, and other styles

32

Sardi, Adriana E., José M. Moreira, Lisa Omingo, et al. "Simulating the Effects of Temperature and Food Availability on True Soles (Solea spp.) Early-Life History Traits: A Tool for Understanding Fish Recruitment in Future Climate Change Scenarios." Fishes 8, no. 2 (2023): 68. http://dx.doi.org/10.3390/fishes8020068.

Full text

Abstract:

Research on recruitment variability has gained momentum in the last years, undoubtedly due to the many unknowns related to climate change impacts. Knowledge about recruitment—the process of small, young fish transitioning to an older, larger life stage—timing and success is especially important for commercial fish species, as it allows predicting the availability of fish and adapting fishing practices for its sustainable exploitation. Predicting tools for determining the combined effect of temperature rise and food quality and quantity reduction (two expected outcomes of climate change) on early-life history traits of fish larvae are valuable for anticipating and adjusting fishing pressure and policy. Here we use a previously published and validated dynamic energy budget (DEB) model for the common sole (Solea solea) and adapt and use the same DEB model for the Senegalese sole (S. senegalensis) to predict the effects of temperature and food availability on Solea spp. early life-history traits. We create seven simulation scenarios, recreating RCP 4.5 and 8.5 Intergovernmental Panel on Climate Change (IPCC) scenarios and including a reduction in food availability. Our results show that temperature and food availability both affect the age at metamorphosis, which is advanced in all scenarios that include a temperature rise and delayed when food is limited. Age at puberty was also affected by the temperature increase but portrayed a more complex response that is dependent on the spawning (batch) period. We discuss the implications of our results in a climate change context.

APA, Harvard, Vancouver, ISO, and other styles

33

Klagkou, Evridiki, Andre Gergs, Christian U. Baden, and Konstadia Lika. "Modeling the Bioenergetics and Life History Traits of Chironomus riparius–Consequences of Food Limitation." Insects 15, no. 11 (2024): 848. http://dx.doi.org/10.3390/insects15110848.

Full text

Abstract:

Chironomids have a number of characteristics that make them a useful group for investigating the impact of environmental and chemical stressors on their life cycle stages. It is crucial to first understand sensitivities to environmental factors and provide a basis for interpreting the results of toxicity tests. We focused on Chironomus riparius–one of the most studied species in aquatic toxicity tests—to understand the changes during the larval stage under conditions of food abundance and limitation. We developed a model based on Dynamic Energy Budget (DEB) theory, a framework to capture the entire life cycle of an individual under varying food and temperature conditions. Available information from this study and the literature pointed out that the first three larval instars are immature and the fourth larval instar is mature, during which the organism saves, in two phases, energy for essential processes occurring during the subsequent non-feeding stages. The model can successfully predict the observed prolonged fourth instar duration under food limitation, the times of life history events (e.g., pupation and emergence), and egg production. This model has the potential to be integrated with toxicokinetic–toxicodynamic models to study the effects of toxicants on a variety of biological traits.

APA, Harvard, Vancouver, ISO, and other styles

34

Eichinger, M., R. Sempéré, G. Grégori, B. Charrière, J. C. Poggiale, and D. Lefèvre. "Increased bacterial growth efficiency with environmental variability: results from DOC degradation by bacteria in pure culture experiments." Biogeosciences Discussions 7, no. 1 (2010): 787–822. http://dx.doi.org/10.5194/bgd-7-787-2010.

Full text

Abstract:

Abstract. This paper assesses how considering variation in DOC availability and cell maintenance in bacterial models affects Bacterial Growth Efficiency (BGE) estimations. For this purpose, we conducted two biodegradation experiments simultaneously. In experiment one, a given amount of substrate was added to the culture at the start of the experiment whilst in experiment two, the same amount of substrate was added, but using periodic pulses over the time course of the experiment. Three bacterial models, with different levels of complexity, (the Monod, Marr-Pirt and the dynamic energy budget (DEB) model), were used, and calibrated using the above experiments. BGE has been estimated using the experimental values obtained from discrete samples and from model generated data. Cell maintenance was derived experimentally, from respiration rate measurements. The results showed that the Monod model did not reproduce the experimental data accurately, whereas the Marr-Pirt and DEB models demonstrated a good level of reproducibility, probably because cell maintenance was built into their formula. Whatever estimation method was used, the BGE value was always higher in experiment two (the periodically pulsed substrate) as compared to the initially one-pulsed-substrate experiment. Moreover, BGE values estimated without considering cell maintenance (Monod model and empirical formula) were always smaller than BGE values obtained from models taking cell maintenance into account. Since BGE is commonly estimated using constant experimental systems and ignore maintenance, we conclude that these typical methods underestimate BGE values. On a larger scale, and for biogeochemical cycles, this would lead to the conclusion that, for a given DOC supply rate and a given DOC consumption rate, these BGE estimation methods overestimate the role of bacterioplankton as CO2 producers.

APA, Harvard, Vancouver, ISO, and other styles

35

Eichinger, M., R. Sempéré, G. Grégori, B. Charrière, J. C. Poggiale, and D. Lefèvre. "Increased bacterial growth efficiency with environmental variability: results from DOC degradation by bacteria in pure culture experiments." Biogeosciences 7, no. 6 (2010): 1861–76. http://dx.doi.org/10.5194/bg-7-1861-2010.

Full text

Abstract:

Abstract. This paper assesses how considering variation in DOC availability and cell maintenance in bacterial models affects Bacterial Growth Efficiency (BGE) estimations. For this purpose, we conducted two biodegradation experiments simultaneously. In experiment one, a given amount of substrate was added to the culture at the start of the experiment whilst in experiment two, the same amount of substrate was added, but using periodic pulses over the time course of the experiment. Three bacterial models, with different levels of complexity, (the Monod, Marr-Pirt and the dynamic energy budget – DEB – models), were used and calibrated using the above experiments. BGE has been estimated using the experimental values obtained from discrete samples and from model generated data. Cell maintenance was derived experimentally, from respiration rate measurements. The results showed that the Monod model did not reproduce the experimental data accurately, whereas the Marr-Pirt and DEB models demonstrated a good level of reproducibility, probably because cell maintenance was built into their formula. Whatever estimation method was used, the BGE value was always higher in experiment two (the periodically pulsed substrate) as compared to the initially one-pulsed-substrate experiment. Moreover, BGE values estimated without considering cell maintenance (Monod model and empirical formula) were always smaller than BGE values obtained from models taking cell maintenance into account. Since BGE is commonly estimated using constant experimental systems and ignore maintenance, we conclude that these typical methods underestimate BGE values. On a larger scale, and for biogeochemical cycles, this would lead to the conclusion that, for a given DOC supply rate and a given DOC consumption rate, these BGE estimation methods overestimate the role of bacterioplankton as CO2 producers.

APA, Harvard, Vancouver, ISO, and other styles

36

Malishev, Matthew, and David J. Civitello. "Linking Bioenergetics and Parasite Transmission Models Suggests Mismatch Between Snail Host Density and Production of Human Schistosomes." Integrative and Comparative Biology 59, no. 5 (2019): 1243–52. http://dx.doi.org/10.1093/icb/icz058.

Full text

Abstract:

Abstract The consequences of parasite infection for individual hosts depend on key features of host–parasite ecology underpinning parasite growth and immune defense, such as age, sex, resource supply, and environmental stressors. Scaling these features and their underlying mechanisms from the individual host is challenging but necessary, as they shape parasite transmission at the population level. Translating individual-level mechanisms across scales could inherently improve the way we think about feedbacks among parasitism, the mechanisms driving transmission, and the consequences of human impact and disease control efforts. Here, we use individual-based models (IBMs) based on general metabolic theory, Dynamic Energy Budget (DEB) theory, to scale explicit life-history features of individual hosts, such as growth, reproduction, parasite production, and death, to parasite transmission at the population level over a range of resource supplies focusing on the major human parasite, Schistosoma mansoni, and its intermediate host snail, Biomphalaria glabrata. At the individual level, infected hosts produce fewer parasites at lower resources as competition increases. At the population level, our DEB–IBM predicts brief, but intense parasite peaks early during the host growth season when resources are abundant and infected hosts are few. The timing of these peaks challenges the status quo that high densities of infected hosts produce the highest parasite densities. As expected, high resource supply boosts parasite output, but parasite output also peaks at modest to high host background mortality rates, which parallels overcompensation in stage-structured models. Our combined results reveal the crucial role of individual-level physiology in identifying how environmental conditions, time of the year, and key feedbacks within host–parasite ecology interact to define periods of elevated risk. The testable forecasts from this physiologically-explicit epidemiological model can inform disease management to reduce human risk of schistosome infection.

APA, Harvard, Vancouver, ISO, and other styles

37

Liao, Baochao, Xiujuan Shan, Can Zhou, Yanan Han, Yunlong Chen, and Qun Liu. "Retraction notice to 'A dynamic energy budget–integral projection model (DEB-IPM) to predict population-level dynamics based on individual data: a case study using the small and rapidly reproducing species Engraulis japonicus'." Marine and Freshwater Research 73, no. 2 (2022): 282. http://dx.doi.org/10.1071/mf19158_re.

Full text

APA, Harvard, Vancouver, ISO, and other styles

38

Schatteman, Brian. "Positive Niche Construction: Incorporating Facilitative Microhabitat into Mechanistic Niche Modeling." McGill Science Undergraduate Research Journal 1, no. 1 (2025): 27–33. https://doi.org/10.26443/msurj.v1i1.216.

Full text

Abstract:

Researchers in the fields of conservation biology and invasion ecology aim to predict the dispersal of species in a reproducible manner, based on quantifiable relationships between target organisms and their environment, through a process known as mechanistic niche modelling. By identifying physiological constraints unique to an organism and calculating its budget of key resources in a given location, sophisticated estimates of potential activity and fecundity can be developed. These spatially-dependent dynamic energy budgets (DEBs) currently ignore the general phenomenon of biological facilitation and, in particular, positive niche construction, wherein a single species improves the suitability of their local habitat for future individuals by modifying their own microclimate. From bed-forming mussels to canopy-forming trees, diverse species can modify their own microclimates by increasing habitat complexity and, in doing so, ameliorate the same physical stressors explicitly considered in mechanistic niche models. To demonstrate the applicability of facilitative habitat in these models, this study selects two habitat-forming organisms and employs DEB-based hindcasting tools to simulate (1) the growth and allocation impacts of temperature regulation in Mytilus edulis (blue mussel) beds and (2) the near-ground micrometeorological impacts of Fagus (beech) tree canopy coverage. A significant reduction in growth and reproductive capacity in blue mussels beyond their optimal temperature and an overall amelioration of temperature and water stress below the beech canopy were observed. Although further research is required to refine the microclimate and micrometeorological impacts assumed for these model organisms, these results suggest that maturing around conspecifics can facilitate persistence in otherwise poor quality habitat. Thus, both species are predicted to have a significant Allee niche, demonstrating the need to incorporate facilitative habitat into mechanistic niche models, especially those used to predict climate change-induced range shifts.

APA, Harvard, Vancouver, ISO, and other styles

39

van Leeuwen, Ingeborg M. M., Julio Vera, and Olaf Wolkenhauer. "Dynamic energy budget approaches for modelling organismal ageing." Philosophical Transactions of the Royal Society B: Biological Sciences 365, no. 1557 (2010): 3443–54. http://dx.doi.org/10.1098/rstb.2010.0071.

Full text

Abstract:

Ageing is a complex multifactorial process involving a progressive physiological decline that, ultimately, leads to the death of an organism. It involves multiple changes in many components that play fundamental roles under healthy and pathological conditions. Simultaneously, every organism undergoes accumulative ‘wear and tear’ during its lifespan, which confounds the effects of the ageing process. The scenario is complicated even further by the presence of both age-dependent and age-independent competing causes of death. Various manipulations have been shown to interfere with the ageing process. Calorie restriction, for example, has been reported to increase the lifespan of a wide range of organisms, which suggests a strong relation between energy metabolism and ageing. Such a link is also supported within the main theories for ageing: the free radical hypothesis, for instance, links oxidative damage production directly to energy metabolism. The Dynamic Energy Budgets (DEB) theory, which characterizes the uptake and use of energy by living organisms, therefore constitutes a useful tool for gaining insight into the ageing process. Here we compare the existing DEB-based modelling approaches and, then, discuss how new biological evidence could be incorporated within a DEB framework.

APA, Harvard, Vancouver, ISO, and other styles

40

Liu, Dan, and Wei Bing Guan. "Research on Energy Value of Dynamic Energy Budget." Applied Mechanics and Materials 686 (October 2014): 683–88. http://dx.doi.org/10.4028/www.scientific.net/amm.686.683.

Full text

Abstract:

Dynamic Energy Budget software aims to identify simple quantitative rules for the organization of metabolism of individual organisms. It is always used to delineate reserves, as separate from structure. The energy density of Eriocheir sinensis was studied through DEB software in this paper. The results showed that Hepatopancreas energy density (32.17±3.77 KJ/g) was higher than gonad (23.19±2.86KJ/g), muscle (24.41±1.41 KJ/g) and carapace energy density (14.42±1.76 KJ/g). The difference between gonad (23.19±2.86KJ/g) and muscle energy density (4.41±1.41 KJ/g) of females and males was significant (P < 0.01), but not between muscle and carapace energy density (P > 0.05), and no difference between female and male individual in total energy (P = 0.887) at the stable stage. The linear relation between volume and weight of Eriocheir sinensis was gained by using regression analysis, V=6.104+1.117WW (R2=0.973, n=98), and the linear relation between total energy and dry weight was also gained, E=18.12DW-28.05 (R2=0.962 ,n=24).

APA, Harvard, Vancouver, ISO, and other styles

41

Freitas, Vânia, Joana F. M. F. Cardoso, Konstadia Lika, et al. "Temperature tolerance and energetics: a dynamic energy budget-based comparison of North Atlantic marine species." Philosophical Transactions of the Royal Society B: Biological Sciences 365, no. 1557 (2010): 3553–65. http://dx.doi.org/10.1098/rstb.2010.0049.

Full text

Abstract:

Temperature tolerance and sensitivity were examined for some North Atlantic marine species and linked to their energetics in terms of species-specific parameters described by dynamic energy budget (DEB) theory. There was a general lack of basic information on temperature tolerance and sensitivity for many species. Available data indicated that the ranges in tolerable temperatures were positively related to optimal growth temperatures. However, no clear relationships with temperature sensitivity were established and no clear differences between pelagic and demersal species were observed. The analysis was complicated by the fact that for pelagic species, experimental data were completely absent and even for well-studied species, information was incomplete and sometimes contradictory. Nevertheless, differences in life-history strategies were clearly reflected in parameter differences between related species. Two approaches were used in the estimation of DEB parameters: one based on the assumption that reserve hardly contributes to physical volume; the other does not make this assumption, but relies on body-size scaling relationships, using parameter values of a generalized animal as pseudo-data. Temperature tolerance and sensitivity seemed to be linked with the energetics of a species. In terms of growth, relatively high temperature optima, sensitivity and/or tolerance were related to lower relative assimilation rates as well as lower maintenance costs. Making the step from limited observations to underlying mechanisms is complicated and extrapolations should be carefully interpreted. Special attention should be devoted to the estimation of parameters using body-size scaling relationships predicted by the DEB theory.

APA, Harvard, Vancouver, ISO, and other styles

42

Picoche, Coralie, Romain Le Gendre, Jonathan Flye-Sainte-Marie, et al. "Towards the Determination of Mytilus edulis Food Preferences Using the Dynamic Energy Budget (DEB) Theory." PLoS ONE 9, no. 10 (2014): e109796. http://dx.doi.org/10.1371/journal.pone.0109796.

Full text

APA, Harvard, Vancouver, ISO, and other styles

43

Pu, T., S. S. Keretz, A. K. Elgin, et al. "Dynamic energy budget (DEB) parameter estimation for the globally invasive Quagga Mussel (Dreissena rostriformis bugensis)." Ecological Modelling 505 (June 2025): 111100. https://doi.org/10.1016/j.ecolmodel.2025.111100.

Full text

APA, Harvard, Vancouver, ISO, and other styles

44

Matyja, Konrad. "Standard dynamic energy budget model parameter sensitivity." Ecological Modelling 478 (April 2023): 110304. http://dx.doi.org/10.1016/j.ecolmodel.2023.110304.

Full text

APA, Harvard, Vancouver, ISO, and other styles

45

Kearney, Michael, Stephen J. Simpson, David Raubenheimer, and Brian Helmuth. "Modelling the ecological niche from functional traits." Philosophical Transactions of the Royal Society B: Biological Sciences 365, no. 1557 (2010): 3469–83. http://dx.doi.org/10.1098/rstb.2010.0034.

Full text

Abstract:

The niche concept is central to ecology but is often depicted descriptively through observing associations between organisms and habitats. Here, we argue for the importance of mechanistically modelling niches based on functional traits of organisms and explore the possibilities for achieving this through the integration of three theoretical frameworks: biophysical ecology (BE), the geometric framework for nutrition (GF) and dynamic energy budget (DEB) models. These three frameworks are fundamentally based on the conservation laws of thermodynamics, describing energy and mass balance at the level of the individual and capturing the prodigious predictive power of the concepts of ‘homeostasis’ and ‘evolutionary fitness’. BE and the GF provide mechanistic multi-dimensional depictions of climatic and nutritional niches, respectively, providing a foundation for linking organismal traits (morphology, physiology, behaviour) with habitat characteristics. In turn, they provide driving inputs and cost functions for mass/energy allocation within the individual as determined by DEB models. We show how integration of the three frameworks permits calculation of activity constraints, vital rates (survival, development, growth, reproduction) and ultimately population growth rates and species distributions. When integrated with contemporary niche theory, functional trait niche models hold great promise for tackling major questions in ecology and evolutionary biology.

APA, Harvard, Vancouver, ISO, and other styles

46

Pecquerie, Laure, Leah R. Johnson, Sebastiaan A. L. M. Kooijman, and Roger M. Nisbet. "Analyzing variations in life-history traits of Pacific salmon in the context of Dynamic Energy Budget (DEB) theory." Journal of Sea Research 66, no. 4 (2011): 424–33. http://dx.doi.org/10.1016/j.seares.2011.07.005.

Full text

APA, Harvard, Vancouver, ISO, and other styles

47

Ledder, Glenn. "The Basic Dynamic Energy Budget Model and Some Implications." Letters in Biomathematics 1, no. 2 (2014): 221–33. http://dx.doi.org/10.1080/23737867.2014.11414482.

Full text

APA, Harvard, Vancouver, ISO, and other styles

48

Jager, Tjalling, and Elke I. Zimmer. "Simplified Dynamic Energy Budget model for analysing ecotoxicity data." Ecological Modelling 225 (January 2012): 74–81. http://dx.doi.org/10.1016/j.ecolmodel.2011.11.012.

Full text

APA, Harvard, Vancouver, ISO, and other styles

49

Rosland, R., Ø. Strand, M. Alunno-Bruscia, C. Bacher, and T. Strohmeier. "Applying Dynamic Energy Budget (DEB) theory to simulate growth and bio-energetics of blue mussels under low seston conditions." Journal of Sea Research 62, no. 2-3 (2009): 49–61. http://dx.doi.org/10.1016/j.seares.2009.02.007.

Full text

APA, Harvard, Vancouver, ISO, and other styles

50

Nisbet, Roger M., Edward McCauley, William S. C. Gurney, William W. Murdoch, and Simon N. Wood. "FORMULATING AND TESTING A PARTIALLY SPECIFIED DYNAMIC ENERGY BUDGET MODEL." Ecology 85, no. 11 (2004): 3132–39. http://dx.doi.org/10.1890/03-0429.

Full text

APA, Harvard, Vancouver, ISO, and other styles

We offer discounts on all premium plans for authors whose works are included in thematic literature selections. Contact us to get a unique promo code!