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Making sense of ecotoxicity test results



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DEBtox information

Publications / DEBkiss applications

Explanation


The papers here are organised by year of publication. Each paper gets a few keys to facilitate searching by topic. Each paper has a DigitalObject Identifier (DOI), that uniquely identifies it on the internet. Clicking the link provides the abstract, and also the PDF if you have access rights to that journal. Inclusion of a paper in this list does not mean an endorsement or a quality mark of any kind.

Requirements to be included


On this page, I will collect all applications of the DEBkiss framework (or parts thereof, as well as closely-related models), including PhD theses and work that is submitted and in advanced preparation. Papers that deal with toxicants will also be included in the DEBtox list. I start with a list of papers that apply similar models; generally variations on the Kooijman-Metz model. These are kappa-models without an initial reserve compartment (the assimilation flux is split immediately into a somatic and a maturation/reproduction flux). The graph below does not count the pre-DEBkiss models (mainly 'Kooijman-Metz' models) that are closely related.



Essential reading


Download of accepted versions


On this page, I will try to include downloadable PDF versions of my papers. These will be the my version of the paper; the last submitted version that was accepted (post peer review, but pre formatting by the journal). I will only offer that version for download below when the publisher/journal allows this, and adding the license information as prescribed by the publisher/journal. Furthermore, I am only offering downloads for papers on which I am the first author. It will take some time before all papers are added ... Note that there may be (small) differences with the published version.


Pre-DEBkiss models that are very similar; most based on the Kooijman-Metz formulation.


  • Kooijman SALM and Metz JAJ (1984). On the dynamics of chemically stressed populations: the deduction of population consequences from effects on individuals. Ecotoxicol Environ Saf 8(3): 254-274. http://dx.doi.org/10.1016/0147-6513(84)90029-0 
  • De Roos AM et al. (1992). Studying the dynamics of structured population models: a versatile technique and its application to Daphnia. Am Nat 139(1): 123-147. http://www.jstor.org/stable/2462588   
  • Baveco JM and De Roos AM (1996). Assessing the impact of pesticides on lumbricid populations: an individual-based modelling approach. J Appl Ecol 33: 1451-1468. http://www.jstor.org/stable/2404784 
  • Klok C. and De Roos AM (1996). Population level consequences of toxicological influences on individual growth and reproduction in Lumbricus rubellus (Lumbricidae, Oligochaeta). Ecotox Environ Saf 33: 118-127. http://dx.doi.org/10.1006/eesa.1996.0015 
  • Klok C et al. (1997). Assessing the effects of abiotic environmental stress on population growth in Lumbricus rubellus (Lubricidae, Oligochaeta). Soil Biol Biochem 29(3-4): 287-293. http://dx.doi.org/10.1016/s0038-0717(96)00050-8 
  • Rinke K and Vijverberg J (2005). A model approach to evaluate the effect of temperature and food concentration on individual life-history and population dynamics of Daphnia. Ecol Mod 186(3): 326-344. http://dx.doi.org/10.1016/j.ecolmodel.2005.01.031 
  • Klok C et al. (2006). Population growth and development of the earthworm Lumbricus rubellus in a polluted field soil: Possible consequences for the godwit (Limosa limosa). Environ Toxicol Chem 25(1): 213-219. http://dx.doi.org/10.1897/05-286r.1 
  • Klok C et al. (2006). Does reproductive plasticity in Lumbricus rubellus improve the recovery of populations in frequently inundated river floodplains? Soil Biol Biochem. 38:611-618. http://dx.doi.org/10.1016/j.soilbio.2005.06.013 
  • Klok C et al. (2007). Extending a combined dynamic energy budget matrix population model with a bayesian approach to assess variation in the intrinsic rate of population increase. An example in the earthworm Dendrobaena octaedra. Environ Toxicol Chem 26(11): 2383-2388. http://dx.doi.org/10.1897/07-223R.1 
  • Klok C (2008). Gaining insight in the interaction of zinc and population density with a combined dynamic energy budget and population model. Environ Sci Technol 42: 8803-8808. http://dx.doi.org/10.1021/es8016599 
  • Jager T and Klok C (2010). Extrapolating toxic effects on individuals to the population level: the role of dynamic energy budgets. Phil Trans Royal Soc B 365: 3531-3540. http://dx.doi.org/10.1098/rstb.2010.0137

DEBkiss models (and later models that are closely related). Full list by year


2013

2014

  • Barsi A, Jager T, Collinet M, Lagadic L and Ducrot V (2014). Considerations for test design to accommodate energy-budget models in ecotoxicology: a case study for acetone in the pond snail Lymnaea stagnalis. Environ Toxicol Chem 33(7):1466-1475 http://dx.doi.org/10.1002/etc.2399
  • Hamda NT (2014). Mechanistic models to explore combined effects of toxic chemicals and natural stressing factors: case study on springtails. PhD thesis (Ch. 5 and 6 are DEBkiss applications).
  • Jager T, Barsi A, Hamda NT, Martin BT, Zimmer EI and Ducrot V. (2014). Dynamic energy budgets in population ecotoxicology: applications and outlook. Ecol Mod 280:140-147 http://dx.doi.org/10.1016/j.ecolmodel.2013.06.024 (Not directly an application, but reserveless DEB models are mentioned as a potential building block for population models).
  • Jager T, Gudmundsdóttir EM and Cedergreen N (2014). Dynamic modeling of sub-lethal mixture toxicity in the nematode Caenorhabditis elegans. Environ Sci Technol 48:7026-7033 http://dx.doi.org/10.1021/es501306t 
2015

  • Barsi A (2015). Towards understanding the effects of putative endocrine disruptors in the great pond snail Lymnaea stagnalis: experimental and toxicokinetic-toxicodynamic modelling approaches. PhD thesis (Ch. 3 and 4 are DEBkiss applications).
  • Fiechter J, Huff DD, Martin BT, Jackson DW, Edwards CA, Rose KA, Curchitser EN, Hedstrom KS, Lindley ST and Wells BK (2015). Environmental conditions impacting juvenile Chinook salmon growth off central California: an ecosystem model analysis. Geophysical Research Letters 42(8):2910–2917 http://dx.doi.org/10.1002/2015GL063046
  • Groeneveld J, Johst K, Kawaguchi S, Meyer B, Teschke M and Grimm V (2015). How biological clocks and changing environmental conditions determine local population growth and species distribution in Antarctic krill (Euphausia superba): a conceptual model. Ecol Mod 303:78-86. http://dx.doi.org/10.1016/j.ecolmodel.2015.02.009 
  • Jager T and Ravagnan E (2015). Parameterising a generic model for the dynamic energy budget of Antarctic krill, Euphausia superba. Mar Ecol Progr Ser 519:115-128 http://dx.doi.org/ 10.3354/meps11098. accepted version and SI.
  • Jager T, Salaberria I and Hansen BH (2015). Capturing the life history of the marine copepod Calanus sinicus into a generic bioenergetics framework. Ecol Mod 299:114-120. http://dx.doi.org/10.1016/j.ecolmodel.2014.12.011. accepted version.

2016


2017

  • Desforges JPW, Sonne C and Dietz R (2017). Using energy budgets to combine ecology and toxicology in a mammalian sentinel species. Scientific Reports 7:46267. http://dx.doi.org/10.1038/srep46267 (Open Acces, first application for mammals)
  • Jager T, Salaberria I, Altin D, Nordtug T and Hansen BH (2017). Modelling the dynamics of growth, development and lipid storage in the marine copepod Calanus finmarchicus. Marine Biology 164:1. http://dx.doi.org/10.1007/s00227-016-3030-8 (Open Access)
  • Martin BT, Heintz R, Danner EM and Nisbet RM (2017). Integrating lipid storage into general representations of fish energetics. J Animal Ecol 86:812-825 http://dx.doi.org/10.1111/1365-2656.12667 (closely related, but different from DEBkiss: removes maturity entirely, and replaces it with a storage).
  • Smallegange IM, Caswell H, Toorians MEM and De Roos AM (2017). Mechanistic description of population dynamics using dynamic energy budget theory incorporated into integral projection models. Methods in Ecology and Evolution 8(2):146-154. http://dx.doi.org/10.1111/2041-210X.12675 (more Kooijman-Metz than DEBkiss)  
2018

2019


  • Boersch-Supan PH and LR Johnson (2019). Two case studies detailing Bayesian parameter inference for dynamic energy budget models. Journal of Sea Research 143:57-69. https://doi.org/10.1016/j.seares.2018.07.014
  • Hamda NT, B Martin, JB Poletto, DE Cocherell, NA Fangue, J Van Eenennaam, EA Mora and E Danner (2019). Applying a simplified energy-budget model to explore the effects of temperature and food availability on the life history of green sturgeon (Acipenser medirostris). Ecological Modelling 395:1-10. https://doi.org/10.1016/j.ecolmodel.2019.01.005
  • Martin T, H Thompson, P Thorbek and R Ashauer (2019). Toxicokinetic−toxicodynamic modeling of the effects of pesticides on growth of Rattus norvegicus. Chem Res Toxicol 32(11):2281-2294. http://dx.doi.org/10.1021/acs.chemrestox.9b00294 (mammal, growth only)
  • Martin T, P Thorbek and R Ashauer (2019). Common ground between growth models of rival theories: a useful illustration for beginners. Ecological Modelling 407:108712. https://doi.org/10.1016/j.ecolmodel.2019.05.017 (not really an application, but DEBkiss is discussed i.r.t. MTE)

2020


2021


  • Bahlburg D, B Meyer and U Berger (2021). The impact of seasonal regulation of metabolism on the life history of Antarctic krill. Ecol Modell 442:109427. https://doi.org/10.1016/j.ecolmodel.2021.109427.
  • Chaparro‐Pedraza PC and AM de Roos (2021). Individual energy dynamics reveal nonlinear interaction of stressors threatening migratory fish populations. Funct Ecol 35:727-738. https://doi.org/10.1111/1365-2435.13751 (uses the model version of Martin et al 2017
  • ...



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