There is a rich amount of information in co‐occurrence (presence–absence) data that could be used to understand community assembly. This proposition first envisioned by Forbes (1907) and then Diamond (1975) prompted the development of numerous modelling approaches (e.g. null model analysis, co‐occurrence networks and, more recently, joint species distribution models). Both theory and experimental evidence support the idea that ecological interactions may affect co‐occurrence, but it remains unclear to what extent the signal of interaction can be captured in observational data. It is now time to step back from the statistical developments and critically assess whether co‐occurrence data are really a proxy for ecological interactions. In this paper, we present a series of arguments based on probability, sampling, food web and coexistence theories supporting that significant spatial associations between species (or lack thereof) is a poor proxy for ecological interactions. We discuss appropriate interpretations of co‐occurrence, along with potential avenues to extract as much information as possible from such data.

Climate change is asymmetrically altering environmental conditions in space, from local to global scales, creating novel heterogeneity. Here, we argue that this novel heterogeneity will drive mobile generalist consumer species to rapidly respond through their behavior in ways that broadly and predictably reorganize—or rewire—food webs. We use existing theory and data from diverse ecosystems to show that the rapid behavioral responses of generalists to climate change rewire food webs in two distinct and critical ways. Firstly, mobile generalist species are redistributing into systems where they were previously absent and foraging on new prey, resulting in topological rewiring—a change in the patterning of food webs due to the addition or loss of connections. Secondly, mobile generalist species, which navigate between habitats and ecosystems to forage, will shift their relative use of differentially altered habitats and ecosystems, causing interaction strength rewiring—changes that reroute energy and carbon flows through existing food web connections and alter the food web’s interaction strengths. We then show that many species with shared traits can exhibit unified aggregate behavioral responses to climate change, which may allow us to understand the rewiring of whole food webs. We end by arguing that generalists’ responses present a powerful and underutilized approach to understand and predict the consequences of climate change and may serve as much-needed early warning signals for monitoring the looming impacts of global climate change on entire ecosystems.

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Species-area relationships (SARs) are pivotal to understand the distribution of biodiversity across spatial scales. We know little, however, about how the network of biotic interactions in which biodiversity is embedded changes with spatial extent. Here we develop a new theoretical framework that enables us to explore how different assembly mechanisms and theoretical models affect multiple properties of ecological networks across space. We present a number of testable predictions on network-area relationships (NARs) for multi-trophic communities. Network structure changes as area increases because of the existence of different SARs across trophic levels, the preferential selection of generalist species at small spatial extents and the effect of dispersal limitation promoting beta-diversity. Developing an understanding of NARs will complement the growing body of knowledge on SARs with potential applications in conservation ecology. Specifically, combined with further empirical evidence, NARs can generate predictions of potential effects on ecological communities of habitat loss and fragmentation in a changing world.

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Wavelet analysis is now frequently used to extract information from ecological and epidemiological time series. Statistical hypothesis tests are conducted on associated wavelet quantities to assess the likelihood that they are due to a random process. Such random processes represent null models and are generally based on synthetic data that share some statistical characteristics with the original time series. This allows the comparison of null statistics with those obtained from original time series. When creating synthetic datasets, different techniques of resampling result in different characteristics shared by the synthetic time series. Therefore, it becomes crucial to consider the impact of the resampling method on the results. We have addressed this point by comparing seven different statistical testing methods applied with different real and simulated data. Our results show that statistical assessment of periodic patterns is strongly affected by the choice of the resampling method, so two different resampling techniques could lead to two different conclusions about the same time series. Moreover, our results clearly show the inadequacy of resampling series generated by white noise and red noise that are nevertheless the methods currently used in the wide majority of wavelets applications. Our results highlight that the characteristics of a time series, namely its Fourier spectrum and autocorrelation, are important to consider when choosing the resampling technique. Results suggest that data-driven resampling methods should be used such as the hidden Markov model algorithm and the 'beta-surrogate' method.

Aim Climate change causes major shifts in species distributions, reshuffling community composition and favouring warm‐adapted species (“thermophilization”). The tree community response is likely to be affected by major disturbances, such as fire and harvest. Here, we quantify the relative contributions of climate change and disturbances to temporal shifts in tree composition over the last decades and evaluate whether disturbances accelerate community thermophilization. Location Québec, Canada. Time period 1970–2016. Taxa studied Trees. Methods Using 6,281 forest inventory plots, we quantified temporal changes in species composition between a historical (1970–1980) and a contemporary period (2000–2016) by measuring temporal β‐diversity, gains and losses. The effects of climate and disturbances on temporal β‐diversity were quantified using multiple regressions and variation partitioning. We compared how community indices of species temperature preference (CTI) and shade tolerance (CSI) changed for forests that experienced different levels of disturbance. We quantified the contribution of species gains and losses to change in CTI. Results Temporal β‐diversity was mainly driven by disturbances, with historical harvesting as the most important predictor. Despite the prevailing influence of disturbances, we revealed a significant thermophilization (ΔCTI = +.03 °C/decade) throughout forests in Québec. However, this shift in community composition was weakly explained by climate change and considerably slower than the rate of warming (+.14 °C/decade). Importantly, thermophilization was amplified by moderate disturbances (+.044 °C/decade), almost a threefold increase compared with minor disturbances (+.015 °C/decade). The gains and losses of a few tree species contributed to this community‐level shift. Conclusions Our study provides evidence that disturbances can strongly modify tree community responses to climate change. Moderate disturbances, such as harvesting, might reduce competition and facilitate gains of warm‐adapted species, which then accelerate thermophilization of tree communities under climate change. Although accelerated by disturbances, community thermophilization was driven by the gains and losses of a small number of species, notably gains of maples.

The effects of fire on the vegetation vary across continents. However, in Neotropical fire-prone grasslands, the relationship between fire and seed germination is still poorly understood, while their regeneration, especially after strong anthropogenic disturbance, is challenging for their conservation. In the present study, we assessed diversity of germination strategies in 15 dominant herbaceous species from Neotropical altitudinal grasslands (locally known as campos rupestres). We exposed seeds to several fire-related treatments. We also compared germination between regularly and post-fire fruiting species. Finally, we investigated the diversity of dormancy classes aiming at better understanding the biogeography and phylogeny of seed dormancy. Germination strategies varied among families. Velloziaceae and Xyridaceae produced non-dormant, fast-germinating seeds. Cyperaceae and Poaceae showed an extremely low or null germination due to a high proportion of unviable or embryo-less seeds.The seeds of campo rupestre grasslands are fire resistant, but there is no evidence that fire triggers germination in this fire-prone ecosystem. Although heat and charred wood did not promote germination, smoke enhanced germination in one grass species and decreased the mean germination time and improved synchrony in Xyridaceae and Velloziaceae. Fire had a positive effect on post-fire regeneration by stimulating fruit set in some Cyperaceae and Poaceae species. These species produced faster germinating seeds with higher germination percentage and synchrony compared to regularly fruiting Cyperaceae and Poaceae species. This strategy of dispersion and regeneration seems to be an alternative to the production of seeds with germination triggered by fire. Physiological dormancy is reported for the first time in several clades of Neotropical plants. Our data help advance the knowledge on the role of fire in the regeneration of Neotropical grasslands.