NetworkExtinction: An R package to simulate extinction propagation and rewiring potential in ecological networks

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dc.catalogadorgjm
dc.contributor.authorÁvila Thieme, María Isidora
dc.contributor.authorKusch, Erik
dc.contributor.authorCorcoran, Derek
dc.contributor.authorCastillo, Simón P.
dc.contributor.authorValdovinos, Fernanda S.
dc.contributor.authorNavarrete C., Sergio
dc.contributor.authorMarquet, P. A.
dc.date.accessioned2023-06-19T20:20:40Z
dc.date.available2023-06-19T20:20:40Z
dc.date.issued2023
dc.description.abstractEarth's biosphere is undergoing drastic reorganization due to the sixth mass extinction brought on by the Anthropocene. Impacts of local and regional extirpation of species have been demonstrated to propagate through the complex interaction networks they are part of, leading to secondary extinctions and exacerbating biodiversity loss. Contemporary ecological theory has developed several measures to analyse the structure and robustness of ecological networks under biodiversity loss. However, a toolbox for directly simulating and quantifying extinction cascades and creating novel interactions (i.e. rewiring) remains absent. Here, we present NetworkExtinction—a novel R package which we have developed to explore the propagation of species extinction sequences through ecological networks and quantify the effects of rewiring potential in response to primary species extinctions. With NetworkExtinction, we integrate ecological theory and computational simulations to develop functionality with which users may analyse and visualize the structure and robustness of ecological networks. The core functions introduced with NetworkExtinction focus on simulations of sequential primary extinctions and associated secondary extinctions, allowing user-specified secondary extinction thresholds and realization of rewiring potential. With the package NetworkExtinction, users can estimate the robustness of ecological networks after performing species extinction routines based on several algorithms. Moreover, users can compare the number of simulated secondary extinctions against a null model of random extinctions. In-built visualizations enable graphing topological indices calculated by the deletion sequence functions after each simulation step. Finally, the user can estimate the network's degree distribution by fitting different common distributions. Here, we illustrate the use of the package and its outputs by analysing a Chilean coastal marine food web. NetworkExtinction is a compact and easy-to-use R package with which users can quantify changes in ecological network structure in response to different patterns of species loss, thresholds and rewiring potential. Therefore, this package is particularly useful for evaluating ecosystem responses to anthropogenic and environmental perturbations that produce nonrandom and sometimes targeted, species extinctions.
dc.fechaingreso.objetodigital2023-06-19
dc.format.extent15 páginas
dc.fuente.origenORCID
dc.identifier.doi10.1111/2041-210x.14126
dc.identifier.issn2041-210X
dc.identifier.urihttp://dx.doi.org/10.1111/2041-210x.14126
dc.identifier.urihttps://repositorio.uc.cl/handle/11534/73507
dc.information.autorucFacultad de Ciencias Biológicas; Ávila Thieme, María Isidora; 0000-0003-0772-4717; 1031041
dc.information.autorucFacultad de Ciencias Biológicas; Navarrete C., Sergio; 0000-0003-4021-3863; 100292
dc.information.autorucFacultad de Ciencias Biológicas; Marquet, P. A.; 0000-0001-6369-9339; 100345
dc.language.isoen
dc.nota.accesoContenido completo
dc.revistaMethods in Ecology and Evolution
dc.rightsacceso abierto
dc.titleNetworkExtinction: An R package to simulate extinction propagation and rewiring potential in ecological networks
dc.typeartículo
sipa.codpersvinculados1031041
sipa.codpersvinculados100292
sipa.codpersvinculados100345
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