Models and simulators

PhysioDemoGenetics

The Physio-Demo-Genetic Model (PDG) is a spatially explicit, individual-based, mechanistic simulation model, combining (1) a physiological module simulating individual tree responses to the environment (CASTANEA model, Dufrêne et al.); (2) a demographic module simulating tree survival, reproduction and pollen and seed dispersal; and (3) a quantitative genetics module controlling heritability of key life history traits (implemented in the CAPSIS Genetics Library, Seinave & Pichot 2004). Acording to the PDG reference publication (Oddou-Muratorio & Davi 2014), the model was used to study plasticity and genetic factors of variations in bud break timing along an altitudinal gradient for Fagus sylvatica (European beech).

Website: http://capsis.cirad.fr/capsis/help_en/physiodemogenetics

Metapop

Metapop simulates the evolution of meta-populations of monoecious plants accross heterogeneous landscapes. It reproduces the main evolutionary processes (migration, selection, gene flow, seed flow, mutation, etc.) that accompany the history of a species. The model is individual-centred, and genetically and spatially explicit. Metapop makes it possible to track individuals and populations in a heterogeneous landscape made up of multiple populations connected by gene flows, while focusing on properties correlated to the adaptive ability of the individual (fitness, adaptive traits, genotype, genetic value).

For further information: https://quercusportal.pierroton.inra.fr/metapop/metapop-user-documentation.pdf

Website: https://quercusportal.pierroton.inra.fr/index.php?p=METAPOP

Luberon2 is a forest demo-genetic model to simulate the growth, resilience and evolution of monospecific stands (Cedar, Douglas fir, Silver fir, Norway spruce, Larch), in response to various scenarios of forestry practices, disturbance regimes and genetic diversity. Luberon2 integrates growth, survival, pollen and seed dispersal, and sexual reproduction processes. The adaptive genetic variability concerns vigor and sensitivity traits. Disturbance are simulated though their regime of impact on growth and survival: drought stress regimes and a density-dependent diffuse mortality disturbance are currently implemented. Luberon2 has a user-friendly graphical interface for general presentations or teaching and professional training sessions, and a script mode for complex simulation plans in research. 

The model is accessible upon request with individual support proposed for the user.

More information on the model, including a user manual and reference publications on the Capsis platform https://capsis.cirad.fr/capsis/help_en/luberon2