Reliable estimates of beta diversity with incomplete sampling

Roden, Vanessa Julie; Kocsis, Ádám T.; Zuschin, Martin; Kiessling, Wolfgang

doi:10.1002/ecy.2201

Cited by 27 publications

(21 citation statements)

References 57 publications

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“…This has been clearly pointed out for palaeontology (Forcino et al, 2015), but it can similarly be applied in ecology and biogeography. Beta diversity is affected by the completeness of the species lists, but reliable data and a correct ranking of the beta diversity measures can be achieved by using data on the most abundant species per site, a standard procedure in palaeobiology (Roden et al, 2018). In the case investigated here, the beta diversity patterns achieved by plot data matched those obtained from complete data, even if the latter were higher in terms of absolute values.…”

Section: Biogeographic Modelsmentioning

confidence: 80%

Habitat type and island identity as drivers of community assembly in an archipelago

Chiarucci

Buldrini

Cervellini

et al. 2020

J Vegetation Science

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Aim: Ecoinformatics offer new opportunity to test islands as biogeographic and ecological models. In this paper we predicted three hypotheses: (1) plot-based data issuing from vegetation surveys can be used to predict Island Species-Area Relationships (ISARs) or island similarity; (2) the habitat area is an independent predictor of species richness patterns within island; (3) species richness and composition are more dependent on habitat type than island identity in land-bridge islands. Area: Tuscan Archipelago, Italy. Methods: We assembled a database of all the vegetation plots available for the archipelago. For the first hypothesis we calculated ISARs, using Arrhenius model, and Beta Diversity, using Jaccard dissimilarity, on both published floras and cumulative plot data. For the second hypothesis, we modelled Habitat Species-Area Relationships (HSARs), using Arrhenius model. For the third hypothesis, we used additive partitioning of species richness, NMDS and PERMANOVA. Results: Island Species-Area Relationships based on plot data mirrored those on published floras, but absolute values of c and z parameters were different. Beta diversity based on plot data resembled those of published floras, but was higher. Species richness was significantly related to the habitat area. The total species richness of the archipelago was linked to large scale drivers, such as island identity, while plot species composition was driven by both habitat type and island identity. Conclusions: Data assembled issuing from vegetation surveys are useful to describe biogeographic patterns. Species richness in the archipelago is driven by spatial factors such as the amount of habitats and the differences among islands, while the species composition of local assemblages is largely driven by habitat filters rather than by island identity, as expected in land-bridge islands.

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Section: Biogeographic Modelsmentioning

confidence: 80%

Habitat type and island identity as drivers of community assembly in an archipelago

Chiarucci

Buldrini

Cervellini

et al. 2020

J Vegetation Science

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“…Null models have also been highlighted as a useful tool for studying beta diversity that could be used to address sampling issues (Anderson et al 2011). For example, Roden et al (2018) used null models to demonstrate conditions under which beta diversity can be accurately estimated by focusing only on abundant taxa. Their conclusions rest on the assumption that patterns evident in dominant taxa can be extrapolated to the whole community; however, this may not be a suitable assumption for diverse pathogen or parasite communities in which rarer taxa can have ecological significance due to varying degrees of host-specialization and phenomena such as periodic host-switching (Brooks and Hoberg 2007; Woolhouse and Gaunt 2007; Ricklefs et al 2014).…”

Section: Introductionmentioning

confidence: 99%

Detecting turnover among complex communities using null models: A case study with sky-island haemosporidian parasites

Barrow

Bauernfeind

Cruz

et al. 2020

Preprint

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1 9 7 they were consistent for two of the three haemosporidian genera. The two more distant mountain 3 8 ranges were more similar to each other than the one located centrally, suggesting that the 3 9 differences we detected were due to stochastic colonization-extirpation dynamics. These results 4 0 demonstrate that avian haemosporidian communities of temperate-zone forests differ on 4 1 relatively fine spatial scales associated with adjacent sky-islands. Null models are essential tools 4 2 for detecting turnover in complex, undersampled, and poorly known systems. 4 3 4 4

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“…ߚ quantifies intraspecific spatial aggregation whilst controlling for the fraction of the estimated species pool in the samples (i.e., coverage). Others have suggested that beta-diversity should be calculated from only a subset of the most dominant species in a sample, but this approach still responds to changes in species pool size and the SAD (Roden et al, 2018). In contrast, our coverage-based method makes use of the SAD of the samples (i.e., the shape of the IBR curve) to make inferences for a constant fraction of the species pool.…”

Section: Discussionmentioning

confidence: 99%

Using coverage-based rarefaction to infer non-random species distributions

Engel

Blowes

McGlinn

et al. 2020

Preprint

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1. Biodiversity is non-randomly distributed in space and understanding how spatial structure of species diversity responds to ecological, biogeographic and anthropogenic drivers is one of the major quests of modern ecology. However, metrics of community differentiation such as Whittaker's beta-diversity fail to unambiguously capture species turnover when they are compared across assemblages with changing species pool sizes, species abundance distributions and numbers of individuals. This is due to an effect of changing sample completeness.2. Here, we propose a method that combines the benefits of individual-based and coverage based rarefaction to standardize beta-diversity estimates by sample completeness at the gamma-scale. We test the performance of our metric, ߚ , using simulations of spatially explicit communities that change both species pool size and intraspecific spatial aggregation. Additionally, we re-analyse the "Gentry" plot dataset to investigate patterns of tree beta-diversity along a latitudinal gradient. 2 3. We find that our metric, ߚ , captures changes in intraspecific aggregation independent of changes in the species pool size, while Whittaker's beta-diversity and standardized estimates based on the number of individuals respond to species pool size as well as spatial aggregation. Our coverage-based estimates of beta-diversity do not exhibit a latitudinal pattern in the empirical tree dataset. 4. Our simulations show that coverage-based standardization of beta-diversity offers a powerful tool for the unraveling of spatial and compositional biodiversity change. Potential applications of the approach range from a better description of basic biogeographic diversity patterns to the consolidation of local and regional diversity trends in the current biodiversity crisis.

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Reliable estimates of beta diversity with incomplete sampling

Cited by 27 publications

References 57 publications

Habitat type and island identity as drivers of community assembly in an archipelago

Habitat type and island identity as drivers of community assembly in an archipelago

Detecting turnover among complex communities using null models: A case study with sky-island haemosporidian parasites

Using coverage-based rarefaction to infer non-random species distributions

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