Application of a computational model for complex fluvial ecosystems: The population dynamics of zebra mussel Dreissena polymorpha as a case study

Colomer, M. Angels; Margalida, Antoni; Valencia, L.; Palau, Antonio

doi:10.1016/j.ecocom.2014.09.006

Cited by 24 publications

(9 citation statements)

References 47 publications

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“…These models belong to the family of models developed by 32 and were initially created to simulate the functioning of organelles in the cell (i.e., varying their numbers and operating parallel in a synchronous and interrelated manner). There is a close parallelism between the functioning of cells and ecosystems making P-systems an increasingly useful tool in many different research lines including animal behavior, invasion processes and conservation planning 33 34 35 36 .…”

mentioning

confidence: 99%

Modeling the consequences of the demise and potential recovery of a keystone-species: wild rabbits and avian scavengers in Mediterranean landscapes

Cortés‐Avizanda

Colomer

Margalida

et al. 2015

Sci Rep

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Restoration of demised keystone-species populations is an overriding concern in conservation biology. However, since no population is independent of its environment, progress is needed in predicting the efficacy of restoration in unstable ecological contexts. Here, by means of Population Dynamics P-system Models (PDP), we studied long-term changes in the population size of Egyptian vultures (Neophron percnopterus) inhabiting a Natural Park, northern Spain, to changes in the numbers of wild rabbits (Oryctolagus cuniculus), a keystone-species of Mediterranean ecosystems that have suffered >90% population decline after a hemorrhagic disease outbreak. Low availability of rabbit carcasses leads Egyptian vultures to extend their foraging activities to unprotected areas with higher non-natural mortality whereas growing numbers of griffon vultures (Gyps fulvus), a dominant competitor, progressively monopolize trophic resources resulting in a focal population decrease. Modeling shows that, even if keystone-species populations recover in core protected areas, the return to the original studied population size may be unfeasible, due to both the high non-natural mortality rates in humanized areas and long-term changes in the scavenger guild structure. Policy decisions aimed to restore keystone-species should rely on holistic approaches integrating the effects of spatial heterogeneity on both producer and consumer populations as well as within-guild processes.

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mentioning

confidence: 99%

Modeling the consequences of the demise and potential recovery of a keystone-species: wild rabbits and avian scavengers in Mediterranean landscapes

Cortés‐Avizanda

Colomer

Margalida

et al. 2015

Sci Rep

Self Cite

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“…Thus, researchers can write and debug P systems in a familiar way using modules, parameters, variables, iterators and other programming ingredients. For instance, several real ecosystem models have been written, debugged and simulated using the P-Lingua framework [9,15,31].…”

Section: P-lingua and Plinguacore Version 4 P-linguamentioning

confidence: 99%

“…Simulating P systems is of huge importance to develop validation, verification and virtual experimentation tools [11,12]. For instance, Population Dynamics P systems (PDP systems, for short) were conceived and successfully employed for ecosystem modelling [13], and their efficient simulation is the key for fast model designing process [9], parameter calibration [14] and experimentation [15].…”

Section: Introductionmentioning

confidence: 99%

Adaptative parallel simulators for bioinspired computing models

Amor

Pérez–Hurtado

Orellana-Martín

et al. 2020

Future Generation Computer Systems

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In the Membrane Computing area, P systems are unconventional devices of computation inspired by the structure and processes taking place in living cells. Main successful P system applications lie in computability and computational complexity theories, as well as in biological modelling. Given that models become too complex to deal with, simulators for P systems are essential tools and their efficiency is critical. In order to handle the diverse situations that may arise during the computation, these simulators have to take into account that worst-case scenarios can happen, even though they rarely occur. As a result, there is a significant loss of performance. In this paper, the concept of adaptative simulation for P systems is introduced to palliate this problem. This is achieved by passing high-level information provided directly by P system model designers to the simulator, helping it to better adapt to the target model. For this purpose, an existing simulator for an ecosystem modelling framework, named Population Dynamics P systems, is extended to include the information of modules, that are usually employed to define ecosystem models. Moreover, the standard description language for P systems, P-Lingua, has been re-engineered in its version 5. It now includes a new syntactical item, called feature, to express this kind of high-level semantic information. Experiments show that this simple adaptative simulator supporting modules as features doubles the performance when running on GPUs and on multicore processors.

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“…Membrane graphs provide a natural mechanism to encode spatial regions. In this sense, there exist membrane computing models on population dynamics that use a membrane graph to represent space [13,18,21]. However, the usage of a membrane graph to represent a lattice of spatial regions is not common in the literature of membrane computing models in population dynamics, even though it is a widespread practice in agent-based modeling in fisheries [5,12,37,38].…”

Section: Future Workmentioning

confidence: 99%

Modeling diel vertical migration with membrane computing

et al. 2020

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Diel vertical migration (DVM) is an important ecological phenomenon in which zooplankton migrate vertically to deal with trade-offs associated with greater food availability in shallow waters and lower predator risk in deep waters due to lower light availability. Because of these trade-offs, DVM dynamics are particularly sensitive to changes in light intensity at the water surface. Therefore, changes in the proportion of cloudy and sunny days have the potential to disrupt DVM dynamics. We propose a new membrane computing model that captures the effect of cloud cover on DVM in Daphnia, and we use it to explore the impacts of an increased proportion of cloudy days that are predicted to occur with climate change. Our 2-dimensional, spatially explicit model integrates multiple trophic levels from abiotic nutrients to Daphnia predators. We analyzed the effect that different proportions of cloudy and sunny days throughout the summer have on our model. The model simulations suggest that an increase in sunny days promotes a high phytoplankton concentration near the surface but does not necessarily promote an increased abundance of Daphnia. Our model also suggests that a higher proportion of cloudy days would increase Daphnia abundance due to a shift in the vertical distribution of Daphnia populations towards superficial waters. Our results highlight that climate changes in multiple regions will affect animal migrations leading to altered food web dynamics in freshwater ecosystems, and emphasize the potential of membrane computing as a modeling framework for spatially and temporally explicit ecological processes.

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Application of a computational model for complex fluvial ecosystems: The population dynamics of zebra mussel Dreissena polymorpha as a case study

Cited by 24 publications

References 47 publications

Modeling the consequences of the demise and potential recovery of a keystone-species: wild rabbits and avian scavengers in Mediterranean landscapes

Modeling the consequences of the demise and potential recovery of a keystone-species: wild rabbits and avian scavengers in Mediterranean landscapes

Adaptative parallel simulators for bioinspired computing models

Modeling diel vertical migration with membrane computing

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