Aarhus University Seal / Aarhus Universitets segl

Publications related to ALMaSS

Peer-reviewed

2019

  • Devos, Y., Craig, W., Devlin, R.H., Ippolio, A., Leggatt, R.A., Romeis, J., Shaw, R., Svendsen, C., Topping, C.J. 2019, "Using problem formulation for fit-for-purpose pre-market environmental risk assessments of regulated stressors", EFSA journal, 17(S1): e170708. doi.org/10.2903/j.efsa.2019.e170708
  • Topping, C.J., Dalby, L., Valdez, J.W. 2019, “Landscape-scale simulations as a tool in multi-criteria decision making to support agri-environment schemes”, Agricultural Systems, 176: 102671. doi.org/10.1016/j.agsy.2019.102671

2018

  • Williams, J.H., Topping, C.J., Dalby, L., Clausen, K.K., Madsen, J. 2018, "Where to go goose hunting? Using pattern-oriented modeling to better understand human decision processes", Human Dimensions of Wildlife, 23: 533-551. doi.org/10.1080/10871209.2018.1509249
  • Topping, C.J. & Weyman, G.S. 2018, "Rabbit population landscape-scale simulation to investigate the relevance of using rabbits in regulatory environmental risk assessment", Environmental Modelling & Assessment, 23(4): 415-457. doi.org/10.1007/s10666-017-9581-3
  • Malakawska, A. & Topping, C.J. 2018, "Applying a biocomplexity approach to modelling farmer decision-making and land use impacts on wildlife", Journal of Applied Ecology, 55(3): 1445-1455. doi.org/10.1111/1365-2664.13024

2017

  • Topping, C.J. & Luttik, R. 2017, "Simulation to aid in interpreting biological relevance and setting of population-level protection goals for risk assessment of pesticides", Regulatory Toxicology and Pharmacology, 89: 40-49. doi.org/10.1016/j.yrtph.2017.07.011
  • Langhammer, M., Grimm, V., Pütz, S., Topping, C.J. 2017, "A modelling approach to evaluating the effectiveness of Ecological Focus Areas: The case of the European brown hare", Land Use Policy, 61: 63-79. doi.org/10.1016/j.landusepol.2016.11.004

2016

  • Topping, C.J. & Elmeros, M. 2016, "Modeling Exposure of Mammalian Predators to Anticoagulant Rodenticides", Frontiers in Environmental Science, 4: 80. doi.org/10.3389/fenvs.2016.00080  
  • Malawska, A. & Topping, C.J. 2016, "Evaluating the role of behavioral factors and practical constraints in the performance of an agent-based model of farmer decision making", Agricultural Systems, 143: 136-146. doi.org/10.1016/j.agsy.2015.12.014
  • Topping, C.J., Dalby, L., Skov, F. 2016, "Landscape structure and management alter the outcome of a pesticide ERA: evaluating impacts of endocrine disruption using the ALMaSS European Brown Hare model", Science of The Total Environment, 541: 1477-1488. doi.org/10.1016/j.scitotenv.2015.10.042
  • Schmitt, W., Auteri, D., Bastiansen, F., Ebeling, M., Liu, C. Luttik, R., Mastisky, S., Nacci, D., Topping, C.J., Wang, M. 2016, "An example of population-level risk assessments for small mammals using individual-based population models", Integrated Environmental Assessment and Management, 12(1): 46-57. doi.org/10.1002/ieam.1640

2015

  • Topping, C.J., Craig, P.S., de Jong, F., Klein, M., Laskowski, R., Manachini, B., Pieper, S., Smith, R., Sousa, J.P., Streissi, F., Swarowsky, K., Tiktak, A., van der Linden, T. 2015, "Towards a landscape scale management of pesticides: ERA using changes in modelled occupancy and abundance to assess long-term population impacts of pesticides", Science of The Total Environment, 537: 159-169. doi.org/10.1016/j.scitotenv.2015.07.152  

2014

  • Topping, C.J., Kjær, L.J., Hommen, U., Høye, T.T., Preuss, T.G., Sibly, R.M., van Vliet, P. 2014, "Recovery based on plot experiments is a poor predictor of landscape-level population impacts of agricultural pesticides", Environmental Toxicology and Chemistry, 33(7): 1499-1507. doi.org/10.1002/etc.2388  
  • Malawska, A., Topping, C.J., Nielsen, H.Ø. 2014, "Why do we need to integrate farmer decision making and wildlife models for policy evaluation?", Land Use Policy, 38:732-740. doi.org/10.1016/j.landusepol.2013.10.025

2013

  • Dalkvist, T., Sibly, R.M., Topping, C.J. 2013, "Landscape structure mediates the effects of a stressor on field vole populations", Landscape Ecology, 28(10): 1961-1974. doi.org/10.1007/s10980-013-9932-7
  • Parry, H.R., Topping, C.J., Kennedy, M.C., Boatman, N.D., Murray, A.W.A. 2013, "A Bayesian sensitivity analysis applied to an Agent-based model of bird population response to landscape change", Environmental Modelling & Software, 45: 104-115. doi.org/10.1016/j.envsoft.2012.08.006    
  • Topping, C.J., Odderskær, P., Kahlert, J. 2013, "Modelling skylarks (Alauda arvensis) to predict impacts of changes in land management and policy: development and testing of an agent-based model", PloS one, 8(6): e65803. doi.org/10.1371/journal.pone.0065803
  • Sibly, R.M., Grimm, V., Martin, B.T., Johnston, A.S.A., Kułakowska, K., Topping, C.J., Calow, P., Nabe‐Nielsen, J., Thorbek, P., DeAngelis, D.L. 2013, "Representing the acquisition and use of energy by individuals in agent‐based models of animal populations", Methods in Ecology and Evolution, 4(2): 151-161. doi.org/10.1111/2041-210x.12002  
  • Parry, H.R., Topping, C.J., Kennedy, M.C., Boatman, N., Murray, A. 2013, "The use of agent-based models for studying the response of bird populations to landscape change", Environmental Software and Modelling, 45: 104-115. doi.org/10.1016/j.envsoft.2012.08.006

2012

  • Topping, C.J., Dalkvist, T. & Grimm, V. 2012, "Post-hoc pattern-oriented testing and tuning of an existing large model: lessons from the field vole", PLoS One, 7(9): e45872. doi.org/10.1371/journal.pone.0045872
  • Høye, T.T., Skov, F., Topping, C.J. 2012, "Evaluating wildlife responses to land-use scenarios with agent-based models", Ecological Indicators, 20(1): 221–227.
  • Topping, C.J. & Lagisz, M. 2012, "Spatial dynamic factors affecting population-level risk assessment for a terrestrial arthropod: an agent-based modelling approach", Human and Ecological Risk Assessment. 18 (1): 168-180. doi.org/10.1080/10807039.2012.632292

2011

  • Topping, C. J. 2011, "Evaluation of wildlife management through organic farming", Ecological Engineering, 37: 2009-2017. doi.org/10.1016/j.ecoleng.2011.08.010
  • Dalkvist, T., Sibly, R.M., Topping, C.J. 2011, "How Predation and Landscape Fragmentation Affect Vole Population Dynamics", PLoS One, 6 (7): e22834. doi.org/10.1371/journal.pone.0022834
  • Warren, J., Topping, C.J. & James, P. 2011, "An evolutionary modelling approach to understanding factors behind plant invasiveness and community susceptibility to invasion", Evolutionary Ecology,  24(10): 2099-2109. doi.org/10.1111/j.1420-9101.2011.02337.x
  • Gevers, J., Høye, T.T., Topping, C.J., Glemnitz, M., Schröder, B. 2011, "Biodiversity and the mitigation of climate change through bioenergy: Impacts of increased maize cultivation on abundance of farmland animal species", GCB Bioenergy 3(6): 472-482. doi.org/10.1111/j.1757-1707.2011.01104.x

2010

  • Topping, C.J., Høye, T.T., Odderskær, P., Aebischer, N. 2010, "A pattern-oriented modelling approach to simulating populations of grey partridge", Ecological Modelling, 221: 729-737. doi.org/10.1016/j.ecolmodel.2009.11.004
  • Nabe-Nielsen, J., Sibly, R.M., Forchhammer, M.C., Forbes, V.E., Topping, C.J. 2010, "The Effects of Landscape Modifications on the Long-Term Persistence of Animal Populations", PLOS ONE 5(1): e8932. doi.org/10.1371/journal.pone.0008932 
  • Topping, C.J., Høye, T.T., Olesen, C.R. 2010, "Opening the Black Box – Development, Testing and Documentation of a Mechanistically Rich Agent-Based Model", Ecological Modelling, 221(2): 245-255. doi.org/10.1016/j.ecolmodel.2009.09.014

2009

  • Dalkvist, T., Topping, C.J., Forbes, V.E. 2009, "Population-level impacts of pesticide-induced chronic effects on individuals depend more on ecology than toxicology", Ecotoxicology and Environmental Safety, 72(6): 1663-1672. doi.org/10.1016/j.ecoenv.2008.10.002
  • Hendrichsen, D.K., Topping, C.J., Forchhammer, M.C. 2009, "Predation and fragmentation portrayed in the statistical structure of prey time series", BMC Ecology, 9(10). doi.org/10.1186/1472-6785-9-10
  • Sibly, R.M., Nabe-Nielsen, J., Forchhammer, M.C., Forbes, V.E., Topping, C.J. 2009, "The effects of spatial and temporal heterogeneity on the population dynamics of four animal species in a Danish landscape", BMC Ecology, 9(18). doi.org/10.1186/1472-6785-9-18
  • Topping, C.J., Dalkvist, T., Forbes, V.E., Grimm, V., Sibly, R.M. 2009, "The Potential for the use of agent-based models in ecotoxicology", in: Devillers, J. (ed.), Ecotoxicology Modeling, vol. 2, Springer Verlag. pp. 205-235.

2008

  • Jacobsen, L.-B., Jensen, J.D., Hauch, J., Topping, C.J., Martin, A. 2008, "Pesticide reducing instruments - an interdisciplinary analysis of effectiveness and optimality", i Milne, J., Deketelaere, K., Kreiser, L., Ashiabor, H. (red.) Critical Issues in Environmental Taxation, vol. V, Oxford University Press, pp. 569-602.

2005

  • Shore, R.F., Crocker, D.R., Akcakaya, H.R., Bennett, R.S., Chapman, P.F., Clook, M., Crane, M., Dewhurst, I.C., Edwards, P.J., Fairbrother, A., Ferson, S., Fischer, D., Hart, A.D.M., Holmes, M., Hooper, M.J., Lavine, M., Leopold, A., Luttik, R., Mineau, P., Moore, D.R.J., Mortenson, S.R., Noble, D.G., O'Conner, R.J., Roelofs, W., Sibly, R.M., Smith, G.C., Spendiff, M., Springer, T.A., Thompson, H.M., Topping, C.J. 2005, "Case Study Part 1: How to Calculate Appropriate Deterministic Long-Term Toxicity to Exposure Ratios (TERs) for Birds and Mammals", Ecotoxicology, 14(8): 877-893.  doi.org/10.1007/s10646-005-0034-4
  • Roelofs, W., Crocker, D.R., Shore, R.F., Moore, D.J.M., Smith, G.C., Akcakaya, H.R., Dewhurst, I.C., Edwards, P.J., Fairbrother, A., Ferson, S., Fischer, D., Hart, A.D.M., Holmes, M., Hooper, M.J., Lavine, M., Leopold, A., Luttik, R., Mineau, P., Mortenson, S.R., Noble, D.G., O'Connor, R.J., Sibly, R.M., Spender, M., Springer, T.A., Thompson, H.M., Topping, C.J. 2005, "Case Study Part 2: Probabilistic Modelling of Long-term Effects of Pesticides on Individual Breeding Success in Birds and Mammals", Ecotoxicology, 14(8): 895-923. doi.org/10.1007/s10646-005-0035-3
  • Jepsen, J.U., Topping, C.J., Odderskær, P., Andersen, P.N. 2005, "Evaluating consequences of land-use strategies on wildlife populations using multiple-species predictive scenarios", Agriculture, Ecosystems & Environment, 105(4): 581-594. doi.org/10.1016/j.agee.2004.08.007
  • Sibly, R.M., Akçakaya, H.R., Topping, C.J., O'Conner, R.J. 2005, "Population-level Assessment of Risks of Pesticides to Birds and Mammals in the UK", Ecotoxicology, 14(8): 863-876. doi.org/10.1007/s10646-005-0033-5
  • Topping, C.J., Sibly, R.M., Akçakaya, H.R., Smith, G.C., Crocker, D.R. 2005, "Risk Assessment of UK Skylark Populations Using Life-History and Individual-Based Landscape Models", Ecotoxicology, 14(8): 925-936. doi.org/10.1007/s10646-005-0027-3
  • Thorbek, P., Topping, C.J. 2005, "The influence of landscape diversity and heterogeneity on spatial dynamics of agrobiont linyphiid spiders: An individual-based model", BioControl, 50: 1-33.  doi.org/10.1007/s10526-004-1114-8

2004

  • Jepsen, J.U., Baveco, J.M., Topping, C.J., Verboom, J., Vos, C.C. 2004, "Evaluating the effect of corridors and landscape heterogeneity on dispersal probability: a comparison of three spatially explicit modelling approaches", Ecological Modelling, 181(4): 445-459. doi.org/10.1016/j.ecolmodel.2003.11.019
  • Pertoldi, C., Topping, C.J. 2004, "Impact assessment predicted by means of genetic agent-based modelling", Critical Reviews in Toxicology, 34(6): 487-498. doi.org/10.1080/10408440490519795
  • Bilde, T., Topping, C.J. 2004, "Life history traits interact with landscape composition to influence population dynamics of a terrestrial arthropod: a simulation study", Ecoscience, 11(1): 64-73. doi.org/10.1080/11956860.2004.11682810
  • Topping, C.J., Odderskær, P. 2004, "Modeling the influence of temporal and spatial factors on the assessment of impacts of pesticides on Skylarks", Environmental Toxicology and Chemistry, 23(2): 509-520. doi.org/10.1897/02-524a
  • Jepsen, J.U., Topping, C.J. 2004, "Modelling roe deer (Capreolus capreolus) in a gradient of forest fragmentation: behavioural plasticity and choice of cover", Canadian Journal of Zoology, 82(9): 1528-1541. doi.org/10.1139/z04-131
  • Pertoldi, C., Topping, C.J. 2004, "The use of Agent-based modelling of genetics in conservation genetics studies", Journal for Nature Conservation, 12(2): 111-120. doi.org/10.1016/j.jnc.2003.12.001

2003

  • Topping, C.J., Hansen, T.S., Jensen, T.S., Jepsen, J.U., Nikolajsen, F., Odderskær, P. 2003, "ALMaSS, an agent-based model for animals in temperate European landscapes", Ecological Modelling, 167(1-2): 65-82. doi.org/10.1016/S0304-3800(03)00173-X
  • Topping, C.J., Østergaard, S., Pertoldi, C., Bach, A.L. 2003, "Modelling the loss of genetic diversity in vole populations in a spatially and temporally varying environment", Annales Zoologici Fennici, 40(3), 255-267.

1999

  • Topping, C.J., Rehder, M.J., Mayoh, B.H. 1999, "Viola: A New Visualprogramming Language Designed for the Rapid Development of Interacting Agent Systems", Acta Biotheoretica, 47: 129-140.  doi.org/10.1023/A:1002070223107

1998

  • Mayoh, B.H., Topping, C.J., Rehder, M.J. 1998, "A Language for Biological, Hydraulic and Ecological Modelling", i Babovic, V., Larsen, L.C., Babovic, V., Larsen, L.C. (red.) Hydroinformatics ´98, A.A. Balkema, pp. 657-662.

Other publications

2019

2016

  • Elmeros, M. & Topping, C.J. 2016, "Rodenticide exposure risk for predators", Vildttemadag 2016.

2015

  • Elmeros, M., Topping, C.J., Christensen, T.K., Lassen, P., Bossi, R. 2015, "Spredning af antikoagulante rodenticider med mus og eksponeringsrisiko for rovdyr", Bekæmpelsesmiddelsforskning fra Miljøstyrelsen.

2013

  • Topping, C.J. & Elmeros, M. 2013, "Using agent-based simulation to predict and manage rodenticide resistance development", European Vertebrate Pest Management Conference.

2012

  • Topping, C.J. 2012, "Why complexity matters: using ALMaSS for risk assessment of wildlife", 6th SETAC World Congress/SETAC Europe 22nd Annual Meeting.

2011

  • Nielsen, H.Ø., Topping, C.J., Hasler, B., Christensen, T., Jacobsen , L., Pedersen, A.B., Dalgaard, T. & Fonnesbech-Wulff, A. 2011, "Effekter af pesticidpolitiske virkemidler: - en integreret analyse af effekter på økonomi, landbrug og fauna", København, Miljøstyrelsen, 75 pp. (Bekæmpelsesmiddelforskning fra Miljøstyrelsen).

2010

  • Dalkvist, T., Sibly, R.M., Topping, C.J. 2010, "Har landskabsstrukturen betydning for effekten af et sprøjtemiddel på markmusbestande?", Havpattedyrsymposium & Pattedyrmøde 2010, nr. 7, Aarhus, Danmark, 12th – 13th March, Apodemus, 11: 11-12.
  • Gevers, J., Høye, T.T., Topping, C.J., Glemnitz, M., Schröder, B. 2010, "Biodiversity and the mitigation of climate change through bioenergy: impacts of increased maize cultivation on abundance of farmland wildlife", The Future of Biodiversity: Genes, Species, Ecosystems, 40th Conference of the Ecological Society of Germany, Austria and Switzerland, Giessen, Tyskland, 30th August – 3rd September, pp. 301.
  • Høye, T.T., Topping, C.J., Olesen, C.R. 2010," Virtuel vildtbiologi - en simuleringsmodel til forvaltning af harebestande", Conference: Havpattedyrsymposium & Pattedyrmøde 2010, nr. 7, Aarhus, Denmark, 12th – 13th March, Apodemus, 11:19.
  • Topping, C.J. & Dalkvist, T. 2010, "Short report on simulating Scale-of-Use and toxicity scenarios in ALMaSS : Appendix 3", in Accounting for scale of use in bird and mammal risk assessment PS2347: Report to Chemicals Regulation Directorate by Joe Crocker, FERA, Defra, pp. 60-77.

2009

  • Høye, T.T. & Topping, C.J. 2009, "The effect of habitat fragmentation on the distribution and abundance farmland wildlife inferred from an individual-based model", in 39th Annual Conference of the Ecological Society of Germany, Austria and Switzerland (GfÖ) University of Bayreuth, Germany, pp. 190-191.
  • Odderskær, P., Topping, C.J., Høye, T.T. 2009, "Kan haren og agerhønen vende tilbage - hvad skal der til?", in Vildt & Landskab. Resultater af 6 års integreret forskning i Danmark 2003-2008. Eds. N. Kanstrup, T. Asferg, M. Flinterup, B. Jellesmark Thorsen, T. Secher Jensen, Skov- og Naturstyrelsen, pp. 30-35.

2007

  • Topping, C.J., Sibly, R., Delorme, P.D., Moller, V., Fritz, A.T., Elmegaard, N., Munns Jr., W.R. 2007, "Application of 2 Modeling Techniques in a Theoretical Assessment for Agricultural Pesticide Registration", in Barnthouse, L.W., Munns, W.R.J., Sorensen, M.T., Barnthouse, L.W., Munns, W.R.J., Sorensen, M.T. (red.) Population-Level Ecological Risk Assessment, Brussels: SETAC, 301-306.
  • Munns, W.R.J., Gervais, J., Hoffman, A.A., Hommen, U., Nacci, D.E., Nakamaru, M., Sibly, R., Topping, C.J. 2007, "Modeling approaches to population-level ecological risk assessment", in Barnthouse, L.W., Munns, W.R.J., Sorensen, M.T., Barnthouse, L.W., Munns, W.R.J., Sorensen, M.T. (red.) Population-Level Ecological Risk Assessment, Brussels: SETAC, pp. 179-210.
  • Nabe-Nielsen, J., Sibly, R., Topping, C.J., Forchhammer, M.C., Sudharsan, K. 2007, "Effects of landscape complexity in agent-based population models", in 25 years of Landscape Ecology: Scientific Principles in Practice. Proceedings of the 7th IALE World Congress 8-12 July Wageningen, The Netherlands. Eds. Bunce, R.G.H., Jongman, R.H.G., Hojas, L., Weel, S. IALE, pp. 329-330 (IALE Publication series; 4).
  • Odderskær, P., Topping, C.J., Rasmussen, J., Pedersen, M.B., Dalgaard, T., Erlandsen, M. 2007. "Ukrudtsstriglingens effekter på dyr, planter og ressourceforbrug (Mechanical weeding impacts on animals, plants and resource usage)", Plantekongres 2007, Dansk Landbrugsrådgivning, Landscentret, Århus, pp. 198-199.

2006

  • Odderskær P., Topping C.J., Rasmussen J., Petersen M.B., Dalgaard T., Erlandsen M. 2006, "Ukrudtsstriglingens effekter på dyr, planter og ressourceforbrug", Bekæmpelsesmiddelforskning rapport no. 105, Miljøstyrelsen, København, 127 pp.

2005

  • Topping, C.J. 2005, "The impact on skylark numbers of reductions in pesticide usage in Denmark: Predictions using a landscape-scale individual based model", NERI Technical Report, 527: 34 pp.
  • Tybirk, K., Asferg, T., Odderskær, P., Olesen, C.R., Bertelsen, J.P., Topping, C.J., Noer, H. 2005, "Hvad påvirker harens og agerhønens vilkår i agerlandet? (What affects hare and partridge conditions in agricultural land?)", Plantekongres 2005, Dansk Landbrugsrådgivning, Landscentret, Århus, pp. 320-321.

2004

  • Odderskær, P. Topping, C.J.  Jepsen, J.U. 2004, "ALMaSS simulation of the impact of removing pesticides : ALMaSS simulering af virkningen af at fjerne pesticider", DJF rapport - Markbrug,  Danmarks JordbrugsForskning, pp. 57-58.

2003

  • Topping, C.J., Odderskær, P., Jepsen, J.U., Andersen, P.N., Lange, P., Nikolajsen, F. 2003, "Effekten af landskabsændringer på den vilde fauna (Effects of landscape change on wildlife)", Hansen, J.F. (Ed): Arealanvendelse og landskabsudvikling - Fremtidsperspektiver for natur, jordbrug, miljø og arealforvaltning, pp. 59-68.
  • Topping, C.J. 2003, "Evaluating the impact of pesticides on populations of terrestrial non-target organisms", Wolffhechel, H. (Ed). DIAS Report, 96: 239-248.
  • Odderskær, P., Tybirk, K., Topping, C.J., Pedersen, M.B., Axelsen, J.A. 2003, "Effekter af reduceret pesticidanvendelse på planter, insekter og fugle. (Effect of reduced pesticide usage on plants, insects and birds)", DJF rapport - Markbrug, Danmarks Jordbrugsforskning, pp. 199-211.

2002

  • Topping, C.J. & Jepsen, J.U. 2002, "Simulation Models of Animal Behaviour are Useful Tools in Landscape and Species Management", Iale Bulletin, 20(3): 1-2.