Talks, posters, publications

BES Liverpool 2016 – IBM Workshop

BES Posters 2016

All publications are available here

Cartwright, S. J., Bowgen, K. M., Collop, C., Hyder, K., Nabe-Nielsen, J., Stafford, R., Stillman, R. A., Thorpe, R. B. and Sibly, R. M. (2016) Communicating complex ecological models to non-scientist end users. Ecological Modelling, 338. pp. 51-59. ISSN 0304-3800 doi: 10.1016/j.ecolmodel.2016.07.012

van der Vaart, E., Johnston, A.S.A., Sibly, R.M. 2016. Predicting how many animals will be where: How to build, calibrate and evaluate individual-based models. Ecological Modelling, 326, 113-123.

Reed, M., Alvarez, T., Chelinho, S., Forbes V.E., Johnston, A.S.A., Meli, M., Voss, F., Pastorok, R. (2016). A risk assessment example for soil invertebrates using spatially explicit agent-based models (ABMs). Integrated Environmental Assessment and Management 12, 58-66.

Johnston, A. S. .A., Sibly, R., Hodson, M. E., Alvarez, T. and Thorbek, P. (2015) Effects of agricultural management practices on earthworm populations and crop yield: validation and application of a mechanistic modelling approach. Journal of Applied Ecology, 52, 1334-1342.

van der Vaart, E., Beaumont, M.A., Johnston, A.S.A., Sibly, R.M. 2015. Calibration and evaluation of individual-based models using Approximate Bayesian Computation. Ecological Modelling, 312, 182-190.

Forbes, V.E., Brain, R., Edwards, D., Galic, N., Hall, T., Honegger, J., Meyer, C., Moore, D.R.J., Nacci, D., Pastorok, R., Preuss, T.G., Railsback, S.F., Salice, C., Sibly, R.M., Tenhumberg, B., Thorbek, P., Wang, M., 2015. Assessing Pesticide Risks to Threatened and Endangered Species Using Population Models: Findings and Recommendations from a CropLife America Science Forum. Integrated Environmental Assessment and Management 11, 348-354.

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, 1499-1507. DOI: 10.1002/etc.2388

Johnston, A.S.A., Holmstrup, M., Hodson, M.E., Thorbek, P., Alvarez, T., Sibly, R.M. (2014). Earthworm distribution and abundance predicted by a process-based model. Applied Soil Ecology, 84, 112-123.

Nabe-Nielsen, J., Sibly, R.M., Tougaard, J., Teilmann, J. & Sveegaard, S. (2014).  Effects of noise and by-catch on a Danish harbour porpoise population. Ecological Modelling, 272, 242-251.

Liu, C., Bednarska, A., Sibly, R.M., Murfitt, R.C., Edwards, P., Thorbek, P. (2014).Incorporating toxicokinetics into an individual-based model for more realistic pesticide exposure estimates: A case study of the wood mouse. Ecological Modelling, 280, 30-39.

Grimm, V., Augusiak, J., Focks, A., Frank, B.M., Gabsi, F., Johnston, A.S.A., Liu, C., Martin, B.T., Meli, M., Radchuk, V., Thorbek, P., Railsback, S.F.. (2014). Towards better modelling and decision support: Documenting model development, testing, and analysis using TRACE. Ecological Modelling 280, 129-139.

Johnston, A.S.A., Hodson, M.E., Thorbek, P., Alvarez, T., Sibly, R.M. (2014). An energy-budget agent based model of earthworm populations and its application to study the effects of pesticides. Ecological Modelling, 280: 5-17.

Kulakowska, K.A., Kulakowski,  T.M. , Inglis , I.R., Smith,  G.C.,  Haynes, P.J., Prosser, P., Thorbek, P., Sibly, R.M. (2014). Using an individual-based model to select among  alternative foraging strategies of woodpigeons: data support a memory-based model with a flocking  mechanism. Ecological Modelling, 280: 89-101.

Dalkvist, T., Sibly, R.M., Topping, C.J. (2013). Landscape structure mediates the effects of a stressor on field vole populations. Landscap Ecology, 28:1961-1974. DOI 10.1007/s10980-013-9932-7

Bednarska, A., Edwards, P., Sibly, R.M., Thorbek, P. (2013). A toxicokinetic model for Thiamethoxam in rats: implications for higher-tier risk assessment. Ecotoxicology, 22, 548-557. DOI 10.1007/s10646-013-1047-z

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, 151-161. doi: 10.1111/2041-210x.12002 (

Liu, C., Sibly, R.M., Grimm, V., Thorbek, P. (2013). Linking pesticide exposure and spatial dynamics: an individual-based model of wood mouse (Apodemus sylvaticus) populations in agricultural landscapes. Ecological Modelling, 248, 92-102.

Dalkvist, T., Sibly, R.M., and Topping, C.J., 2011. How predation and landscape fragmentation affect vole population dynamics. PLoS One 6, e22834.

Forbes, V.E., Calow, P., Grimm, V., Hayashi, T.I., Jager, T., Katholm, A., Palmqvist, A., Pastorok, R., Salvito, D., Sibly, R., Spromberg, J., Stark, J., and Stillman, R.A., 2011. Adding Value to Ecological Risk Assessment with Population Modeling. Human and Ecological Risk Assessment 17, 287-299.

Forbes, V.E., Calow, P., Grimm, V., Hayashi, T., Jager, T., Palmqvist, A., Pastorok, R., Salvito, D., Sibly, R., Spromberg, J., Stark, J., Stillman, R.A.  2010. Integrating population modeling into ecological risk assessment. Integr Environ Assess Manag 6, 191-193.

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, e8932.

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: (ed. J. Devillers) Ecotoxicology Modeling. Springer US

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:10.1186/1472-6785-9-18. Available at

Forbes, V.E., Calow, P., Sibly, R.M. 2008. The extrapolation problem and how population modeling can help.  Environmental Toxicology and Chemistry, 27, 1987-1994.

Sibly, R.M., Akçakaya, H.R., Topping, C.J., O’Connor, R.J. (2005) Population-level assessment of risks of pesticides to birds and mammals in the UK.  Ecotoxicology, 14, 863-876.

Topping C.J., Sibly R.M., Akçakaya H.R., Smith G.C., Crocker, D.R. (2005) Comparison of a life-history model and an individual-based landscape model of skylark populations affected by a pesticide.  Ecotoxicology, 14, 925-936.