Rigal, F. | bioRxiv Science

bioRxiv2022

Calculating functional diversity metrics using neighbor-joining trees

O_LIThe study of functional diversity (FD) provides ways to understand phenomena as complex as community assembly or the dynamics of biodiversity change under multiple pressures. Different frameworks are used to quantify FD, either based on dissimilarity matrices (e.g., Rao entropy, functional dendrograms) or multidimensional spaces (e.g. convex hulls, kernel-density hypervolumes). While the first does not enable the measurement of FD within a richness/divergence/regularity framework, or results in the distortion of the functional space, the latter does not allow for comparisons with phylogenetic diversity (PD) measures and can be extremely sensitive to outliers. C_LIO_LIWe propose the use of neighbor-joining trees (NJ) to represent and quantify functional diversity in a way that combines the strengths of current FD frameworks without many of their weaknesses. Our proposal is also uniquely suited for studies that compare FD with PD, as both share the use of trees (NJ or others) and the same mathematical principles. C_LIO_LIWe test the ability of this novel framework to represent the initial functional distances between species with minimal functional space distortion and sensitivity to outliers. The results using NJ are compared with conventional functional dendrograms, convex hulls, and kernel-density hypervolumes using both simulated and empirical datasets. C_LIO_LIUsing NJ we demonstrate that it is possible to combine much of the flexibility provided by multidimensional spaces with the simplicity of tree-based representations. Moreover, the method is directly comparable with PD measures, and enables quantification of the richness, divergence and regularity of the functional space. C_LI

ecology↗

bioRxiv2022

The influence of biotic and abiotic drivers on arthropod co-occurrence network topology in native forest remnants in the Azores

Island biota are in imminent threat from anthropogenic impacts. Of these impacts the negative effects of exotic species on the taxonomic and functional diversity of the local fauna are of particularly major concern. Aside from their impact on the diversity of native fauna, exotics may also have a detrimental effect on native interactions which, in turn, can destabilise ecological networks. Species co-occurrence networks are used to predict ecological interaction networks and utilised as tools to assess environmental impacts on community structure. Here, we investigate the topological differences of the arthropod co-occurrence networks among native forest fragments from seven Azorean islands and reveal the influence of the abiotic environment and exotic species on these networks. We found that co-occurrence networks were sensitive to environmental and community dissimilarities, showing a clear separation between islands and pinpointed differences between indigenous and exotic networks. Most exotics are little connected and exotic networks have a large proportion of unconnected species. The resulting decreased connectance and the increased modularity with the increase of the proportions of exotics in the networks suggests that most exotics have too low prevalence to show associations with other species, and only a few dominants drive co-occurrences. Moreover, the proportion of negative links, as indicators of competition, did not increase with the increase of exotics in the habitats, suggesting that exotics occupied empty niches when they colonised native forest remnants. However, when the theoretical networks consisting of only indigenous species were investigated both the number of negative associations and modularity increased with the increase of exotics, suggesting obscure competition and processes of network degradation. Since our study provides ample evidence for the usefulness of co-occurrence network analysis in studying island ecosystems, we recommend the use of this tool for ecosystem assessments, early warning systems and decision making in island biodiversity conservation. Significance statementGlobal anthropogenic biodiversity decline affects islands to a disproportionately greater extent than other ecosystems. One major cause of declining island biodiversity is the spread of exotic species which may overcompete and replace native biota. In this study, we show, by using arthropod species co-occurrence networks from the Azorean archipelago, that species association patterns reflect both abiotic and biotic impacts and that the increasing proportion of exotics in an ecosystem seemingly has little impact on association networks at large. However, when the effects on the association network of solely indigenous species were scrutinised, signs of network degradation were observed, suggesting an obscure, and most likely slow, negative impact of exotics on native arthropod assemblages. This disintegration of the co-occurrence networks can be the first sign of disappearing interaction links which, in turn, may jeopardise ecosystem function and can lead to regime shifts. In this work, we used a unique long-term dataset collected across the islands of the Azorean archipelago with standardised methodology. We built on the deep knowledge gathered over two decades on the ecology of species, as well as on the ongoing processes shaping the islands arthropod fauna, yet took a novel methodological approach and disentangled hidden ecological processes of great ecological and conservation concern.

ecology↗