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Plant–soil feedback (PSF), the reciprocal interaction between plants and their soil environment, is a fundamental ecological process that can influence coexistence and functional structure in plant communities. Current theory establishes that PSF may enhance diversity or lead to exclusion depending on whether soil conditioning disproportionately benefits heterospecific or conspecific individuals. However, a more complete picture of the impact of PSF requires understanding how PSF interacts with competition. To that end, here we propose an integrated mathematical model combining trait‐based competition and soil‐explicit PSF. Contrary to the current paradigm, we find that soil conditioning that disproportionately favours conspecific individuals can promote coexistence. Additionally, we show that priority effects are common when soil‐conditioning species differ in their edaphic preferences. These effects can allow species with large differences in competitive ability to coexist under certain soil conditions. Our results provide testable predictions tying community‐level functional patterns in plant communities to PSF and competition. [ABSTRACT FROM AUTHOR]

Explaining diversity in tropical forests remains a challenge in community ecology. Theory tells us that species differences can stabilize communities by reducing competition, while species similarities can promote diversity by reducing fitness differences and thus prolonging the time to competitive exclusion. Combined, these processes may lead to clustering of species such that species are niche differentiated across clusters and share a niche within each cluster. Here, we characterize this partial niche differentiation in a tropical forest in Panama by measuring spatial clustering of woody plants and relating these clusters to local soil conditions. We find that species were spatially clustered and the clusters were associated with specific concentrations of soil nutrients, reflecting the existence of nutrient niches. Species were almost twice as likely to recruit in their own nutrient niche. A decision tree algorithm showed that local soil conditions correctly predicted the niche of the trees with up to 85% accuracy. Iron, zinc, phosphorus, manganese, and soil pH were among the best predictors of species clusters. [ABSTRACT FROM AUTHOR]

Life‐history trade‐offs are important coexistence mechanisms in plant communities. In particular, a trade‐off between seed quality and seed output may explain coexistence among species with a wide variety of seed sizes in heterogeneous landscapes with varying degrees of local stresses such as shade, drought and browsing.Under spatially implicit formulations of the tolerance‐fecundity trade‐off, species diversity is only bounded by community size and environmental heterogeneity. However, these formulations leave unanswered the question of how dispersal limitation, an important aspect of real communities, impacts the ability of the tolerance‐fecundity trade‐off to support coexistence.Here we show using stochastic cellular automata that coexistence under the tolerance‐fecundity trade‐off in a spatially structured landscape is strongly modulated by the interactions between the spatial scales of species dispersal and environmental variability. Specifically, coexistence in a patchy landscape is higher under short dispersal scales relative to the scale of environmental variation. These conditions allow species to segregate spatially and thus avoid interspecific competition.In addition to dispersal limitation, coexistence under the tolerance‐fecundity trade‐off is promoted by a sharp drop in tolerance as local environmental stress increases, a high overall seed output across species, local homogeneity in environmental conditions and weak age structure in fertility. In particular, coexistence is much higher when species have full tolerance to stress levels below a threshold and zero tolerance above that threshold, with nothing in between. This steep gradient contributes to coexistence because it maximizes niche separation between similar species.Synthesis. When plants compete for space, dispersal limitation and landscape spatial structure can conspire to boost coexistence and diversity. Our results show that the tolerance‐fecundity trade‐off is a strong niche differentiation mechanism when species experience a well‐defined distinction between suitable and unsuitable environments, and supports higher diversity when dispersal scales are shorter than the scales of variation in the environment. We conclude that the trade‐off is more likely to be a relevant coexistence mechanism in the context of large‐scale environmental variation, such as topography, than small‐scale variation, such as in litter cover and canopy shading. [ABSTRACT FROM AUTHOR]

Neutral theory assumes all species and individuals in a community are ecologically equivalent. This controversial hypothesis has been tested across many taxonomic groups and environmental contexts, and successfully predicts species abundance distributions across multiple high-diversity communities. However, it has been critiqued for its failure to predict a broader range of community properties, particularly regarding community dynamics from generational to geological timescales. Moreover, it is unclear whether neutrality can ever be a true description of a community given the ubiquity of interspecific differences, which presumably lead to ecological inequivalences. Here we derive analytical predictions for when and why non-neutral communities of consumers and resources may present neutral-like outcomes, which we verify using numerical simulations. Our results, which span both static and dynamical community properties, demonstrate the limitations of summarizing distributions to detect non-neutrality, and provide a potential explanation for the successes of neutral theory as a description of macroecological pattern. Author summary: The neutral theory of biodiversity assumes that species are ecologically equivalent. Given the natural history observation of ubiquitous phenotypic differences between species, it is surprising that neutral theory has successfully predicted a broad range of biodiversity patterns, and simultaneously unsurprising that these results have not convinced ecologists that the natural world is neutral. However, we have lacked a description of how neutrality can emerge in a natural way from ecological mechanisms and species differences. Our study sheds light on this question, providing a theoretical backdrop for the success of neutral theory as a description of macroecological pattern. We derive a prediction for the degree to which consumers must differ in preferences for different resources before the resulting biodiversity patterns become distinguishable from neutrality. These predictions, which we confirm using simulations, show that neutral-like outcomes are possible even when resource requirements across consumers are very far from neutral. Our results can be tested in experimental microbial communities, where, equipped with an inferred consumption network, our analysis can yield predictions for biodiversity patterns and community turnover at different taxonomic levels. [ABSTRACT FROM AUTHOR]

Tropical forests challenge us to understand biodiversity, as numerous seemingly similar species persist on only a handful of shared resources. Recent ecological theory posits that biodiversity is sustained by a combination of species differences reducing interspecific competition and species similarities increasing time to competitive exclusion. Together, these mechanisms counterintuitively predict that competing species should cluster by traits, in contrast with traditional expectations of trait overdispersion. Here, we show for the first time that trees in a tropical forest exhibit a clustering pattern. In a 50‐ha plot on Barro Colorado Island in Panama, species abundances exhibit clusters in two traits connected to light capture strategy, suggesting that competition for light structures community composition. Notably, we find four clusters by maximum height, quantitatively supporting the classical grouping of Neotropical woody plants into shrubs, understory, midstory, and canopy layers. [ABSTRACT FROM AUTHOR]

Community ecology lacks the success enjoyed by population genetics to quantify the relative roles played by deterministic and stochastic processes. It has been proposed that clustered patterns of abundance in genotype space provide evidence of selection in microbial communities, since no such clustering would arise in the absence of selection. We critique this test for its unrealistic null hypothesis. We show mathematically and with simulations that point mutations alone lead to clustering in genotype space by causing correlations between abundances of similar genotypes.We also show potential deviations from the mutation-only pattern caused by immigration from a source pool. Clustered patterns in genotype space may still be revealing of selection if analyzed quantitatively but only if neutral and selective regimes can be distinguished once mutation and immigration are included in the null model. [ABSTRACT FROM AUTHOR]

The recently proposed tolerance-fecundity trade-off model represents a step forward in the study of seed size diversity in plant communities. However, it uses an oversimplified picture of seed tolerance, with an infinitely sharp threshold: the probability that a seed tolerate a given stress level is either 1 or 0. This invites a revision of the model, presented here. We demonstrate that this simplification has large impacts on model behavior, including altering predictions regarding limiting similarity, raising expected diversity levels, and lessening expected spacing between species along the trait axis. Such dramatic impacts ultimately stem from the fact that a discontinuity in the probability of tolerating a site drastically reduces competition between similar species. This is one example of a class of models with a nondifferentiable peak in the competition kernel, which we recently showed is produced by resource use unrealistically modeled as discontinuous and affects fundamental predictions regarding limiting similarity. This article illustrates those general results and offers a revised model of the tolerance-fecundity trade-off. [ABSTRACT FROM AUTHOR]