Beware z-scores

Generalism drives abundance: A computational causal discovery approach

A ubiquitous pattern in ecological systems is that more abundant species tend to be more generalist; that is, they interact with more species or can occur in wider range of habitats. However, there is no consensus on whether generalism drives abundance (a selection process) or abundance drives generalism (a drift process). As it is difficult to conduct direct experiments to solve this chicken-and-egg dilemma, previous studies have used a causal discovery method based on formal logic and have found that abundance drives generalism. Here, we refine this method by correcting its bias regarding skewed distributions, and employ two other independent causal discovery methods based on nonparametric regression and on information theory, respectively. Contrary to previous work, all three independent methods strongly indicate that generalism drives abundance when applied to datasets on plant-hummingbird communities and reef fishes. Furthermore, we find that selection processes are more important than drift processes in structuring multispecies systems when the environment is variable. Our results showcase the power of the computational causal discovery approach to aid ecological research.

Ever since Aristotle, the chicken-or-egg causality dilemma has baffled researchers. Such causality dilemmas are abundant in ecological research, where causal directions are often assumed but not tested. An archetypal example is whether being a generalist causes a species to be more abundant, or whether being more abundant causes a species to be generalists. Without doubt, the gold standard to establish causal directions is controlled experiments. However, controlled experiments that can disentangle the direction of causality in this case are challenging because it involves controlling biotic or abiotic niche breadth. These challenges create an opportunity for computational tools to detect the most likely causal direction. Here, by adapting a set of recently developed computational methods, we provide strong evidence that generalism drives abundance, overturning the previously established direction. We hope our work raises awareness of the potential for computational discovery methods to address long-standing questions in ecology, especially increasingly large datasets become available.

Telling ecological networks apart by their structure: An environment-dependent approach

The network architecture of an ecological community describes the structure of species interactions established in a given place and time. It has been suggested that this architecture presents unique features for each type of ecological interaction: e.g., nested and modular architectures would correspond to mutualistic and antagonistic interactions, respectively. Recently, Michalska-Smith and Allesina (2019) proposed a computational challenge to test whether it is indeed possible to differentiate ecological interactions based on network architecture. Contrary to the expectation, they found that this differentiation is practically impossible, moving the question to why it is not possible to differentiate ecological interactions based on their network architecture alone. Here, we show that this differentiation becomes possible by adding the local environmental information where the networks were sampled. We show that this can be explained by the fact that environmental conditions are a confounder of ecological interactions and network architecture. That is, the lack of association between network architecture and type of ecological interactions changes by conditioning on the local environmental conditions. Additionally, we find that environmental conditions are linked to the stability of ecological networks, but the direction of this effect depends on the type of interaction network. This suggests that the association between ecological interactions and network architectures exists, but cannot be fully understood without attention to the environmental conditions acting upon them.

It has been suggested that different types of species interactions lead to ecological networks with different architectures. For example, mutualistic and antagonistic interaction networks have been shown to have nested and modular architectures, respectively. Importantly, this differentiation can provide clues about the link between the dynamics and structures shaping ecological communities. Recently, Michalska-Smith and Allesina (2019) turned this assumption into a serious computational challenge for the scientific community. Here, we embrace this challenge. We confirm that network architecture alone is not enough to differentiate interaction networks. However, we show that network architectures can differentiate between mutualistic and antagonistic interaction networks by using information about their local environmental conditions. In other words, ignoring environmental information throws out the predictable patterns of network architectures along environmental gradients. Thus, this response is also a reminder that ecological networks may only make sense in the light of environmental information.