Paz-Vinas et al. (2021) comment on methodological and data-related limits of our paper (Millette et al. 2020), which affect a small proportion of our datasets and analyses. These points do not refute our conclusions. We address their comments and support the call for the development of best practices for future macrogenetics research.

Ecological processes often exhibit time lags. For plant invasions, lags of decades to centuries between species’ introduction and establishment in the wild (naturalisation) are common, leading to the idea of an invasion debt: accelerating rates of introduction result in an expanding pool of introduced species that will naturalise in the future. Here, I show how a concept from survival analysis, the hazard function, provides an intuitive way to understand and forecast time lags. For plant naturalisation, theoretical arguments predict that lags between introduction and naturalisation will have a unimodal distribution, and that increasing horticultural activity will cause the mean and variance of lag times to decline over time. These predictions were supported by data on introduction and naturalisation dates for plant species introduced to Britain. While increasing trade and horticultural activity can generate an invasion debt by accelerating introductions, the same processes could lower that debt by reducing lag times.

Disturbances often disproportionately impact different vegetation layers in forests and other vertically-stratified ecosystems, shaping community structure and ecosystem function. However, disturbance-driven changes may be mediated by environmental conditions that affect habitat quality and species interactions. In a decade-long field experiment, we tested how kelp forest net primary productivity (NPP) responds to repeated canopy loss along a gradient in grazing and substrate suitability. We discovered that habitat quality can mediate the effects of intensified disturbance on canopy and understory NPP. Experimental annual and quarterly disturbances suppressed total macroalgal NPP, but effects were strongest in high-quality habitats that supported dense kelp canopies that were removed by disturbance. Understory macroalgae partly compensated for canopy NPP losses and this effect magnified with increasing habitat quality. Disturbance-driven increases in understory NPP were still rising after 5–10 years of disturbance, demonstrating the value of long-term experimentation for understanding ecosystem responses to changing disturbance regimes.

Ecological theory recognizes the importance of the variety of species for maintaining the functioning of ecosystems and their derived services. We assert that when studying the effects of shifts in biodiversity levels using mathematical models, their dynamics must be sensitive to the variety of species traits but not to raw species numbers, a property that we call scale--invariance. We present a testing procedure for verifying scale--invariance of ecological network models ---with or without trait adaptation--- expressed as ODEs. Furthermore, we applied our test to several influential models used for evaluating biodiversity effects on ecosystem functioning. In most of the surveyed studies the equations failed our test. This raises doubts about the validity of previous results and calls for revisiting the theory derived from these studies. Our results foster the creation of artifact--free models, a necessary step towards building a more robust theory of biodiversity--driven ecosystem functioning.

The lifetime reproductive success (LRS) of individuals is affected by random events such as death, realized growth, or realized reproduction, and the outcomes of these events can differ even when individuals have identical probabilities. Another source of randomness arises when these probabilities also change over time in variable environments. For structured populations in stochastic environments, we extend our recent method to determine how birth environment and birth stage determine the random distribution of the LRS. Our results provide a null model that quantifies effects on LRS of just the birth size or stage. Using Roe deer Capreolus capreolus as a case study, we show that the effect of an individual’s birth environment on LRS varies with the frequency of environments and their temporal autocorrelation, and that lifetime performance is affected by changes in the pattern of environmental states expected as a result of climate change.

Here we review and extend the equal fitness paradigm (EFP) as an important step in developing and testing a synthetic theory of ecology and evolution based on energy and metabolism. The EFP states that all organisms are equally fit at steady state, because they allocate the same quantity of energy, ~22.4 kJ/g/generation to production of offspring. On the one hand, the EFP may seem tautological, because equal fitness is necessary for the origin and persistence of biodiversity. On the other hand, the EFP reflects universal laws of life: how biological metabolism – the uptake, transformation and allocation of energy – links ecological and evolutionary patterns and processes across levels of organization from: i) structure and function of individual organisms, ii) life history and dynamics of populations, iii) interactions and coevolution of species in ecosystems. The physics and biology of metabolism have facilitated the evolution of millions of species with idiosyncratic anatomy, physiology, behavior and ecology but also with many shared traits and tradeoffs that reflect the single origin and universal rules of life.

Climatic gradients frequently predict large-scale ecogeographical patterns in animal coloration, but the underlying causes are often difficult to disentangle. We examined ecogeographical patterns of reflectance among 343 European butterfly species and isolated the role of selection for thermal benefits by comparing visible and near-infrared (NIR) wavebands. NIR light accounts for ~50% of solar energy but cannot be seen by animals so functions primarily in thermal control. We found that reflectance of both dorsal and ventral surfaces shows thermally adaptive correlations with climate. This adaptive variation was more prominent in NIR than visible wavebands and for body regions (thorax-abdomen and basal wings) that are pivotal for thermoregulation. Thermal environments also predicted the reflectance difference between dorsal and ventral surfaces, which may be due to modulation between requirements for heating and cooling. These results highlight the importance of climatic gradients in shaping the reflectance properties of butterflies at a continent-wide scale.

The mycorrhizal symbiosis is ubiquitous in boreal forests. Trees and plants provide their fungal partners with photosynthetic carbon in exchange for soil nutrients like nitrogen, which is critical to the growth and survival of the plants. But plant carbon allocation to mycorrhizal symbionts can also fuel nitrogen immobilization, hampering tree growth. Here we present results from field and greenhouse experiments combined with mathematical modelling, showing that mycorrhizal fungi can be simultaneously mutualistic to an individual tree and parasitic to the networked community of trees. Mycorrhizal networks connect multiple plants and fungi, and we show that each tree gains additional nitrogen at the expense of its neighbors by supplying more carbon to the fungi. But this additional carbon supply eventually aggravates nitrogen immobilization in the shared fungal biomass. Individual trees may thus independently benefit from increasing their carbon investment to mycorrhiza, while causing a decline in nitrogen availability for the whole plant community. We illustrate the evolutionary underpinnings of this situation by drawing on the analogous the tragedy of the commons, and explain how rising atmospheric CO2 may lead to greater nitrogen immobilization in the future.

Invasive ants shape assemblages and interactions of native species, but their effect on fundamental ecological processes is poorly understood. In East Africa, Pheidole megacephala ants have invaded monodominant stands of the ant-tree Acacia drepanolobium, extirpating native ant defenders and rendering trees vulnerable to canopy damage by vertebrate herbivores. We used experiments and observations to quantify direct and interactive effects of invasive ants and large herbivores on A. drepanolobium photosynthesis over a 2-year period. Trees that had been invaded for ≥ 5 years exhibited 69% lower whole-tree photosynthesis during key growing seasons, resulting from interaction between invasive ants and vertebrate herbivores that caused leaf- and canopy-level photosynthesis declines. We also surveyed trees shortly before and after invasion, finding that recent invasion induced only minor changes in leaf physiology. Our results from individual trees likely scale up, highlighting the potential of invasive species to alter ecosystem-level carbon fixation and other biogeochemical cycles.

Over the past fifteen years, the number of papers focused on “eco-evo dynamics” has increased exponentially (Figure 1). This pattern suggests the rapid growth of a new, integrative discipline. We argue that this overstates the case. First, the terms “eco-evo dynamics” and “eco-evo interactions” are used too imprecisely. As a result, many studies that claim to describe eco-evo dynamics are actually describing basic ecological or evolutionary processes. Second, these terms are often used as if the study of how ecological and evolutionary processes are intertwined is novel when, in fact, it is not. The result is confusion over what the term “eco-evolution” and its derivatives describe, a loss of appreciation for the history of genuine eco-evolutionary studies, and a loss of appreciation for the novelty associated with the original rise of the term. We advocate a more precise definition of eco-evolution that is more useful in our effort to understand and characterize the diversity of ecological and evolutionary processes and that focuses attention on the subset of those processes that offer novel results.

The stability of plant biomass production in the face of environmental change is fundamental for maintaining terrestrial ecosystem functioning, as plant biomass is the ultimate source of energy for nearly all life forms. However, most studies have focused on the stabilizing effect of plant diversity, neglecting the effect of soil biodiversity, the largest reservoirs of biodiversity on Earth. Here we investigated the effects of plant and soil biodiversity on the temporal stability of biomass production under varying simulated precipitation in grassland microcosms. Soil biodiversity loss reduced temporal stability by suppressing asynchronous responses of plant functional groups. Greater plant diversity, especially in terms of functional diversity, promoted temporal stability, but this effect was independent of soil biodiversity loss. Moreover, multitrophic biodiversity, plant and soil biodiversity combined, was positively associated with temporal stability. Our study highlights the importance of maintaining the biodiversity of multiple trophic levels for sustainable biomass production.

Species can adapt to climate change by adjusting in situ or by dispersing to new areas, and these strategies may complement or enhance each other. Here, we investigate temporal shifts in phenology and spatial shifts in northern range boundaries for 289 Lepidoptera species by using long-term data sampled over two decades. While 40% of the species neither advanced phenology nor moved northward, nearly half (47%) -used one of the two strategies. The strongest positive population trends was observed for the minority of species (13%) that both advanced flight phenology and shifted their northern range boundaries northward. We show that, for Boreal Lepidoptera, a combination of phenology and range shifts is the most viable strategy under a changing climate. Effectively, this may divide species into winners and losers based on their propensity to capitalize on this combination, with potentially large consequences on future community composition.

Large occurrence datasets provide a sizable resource for ecological analyses, but have substantial limitations. Phenological analyses in Fric et al. (2020) were misleading due to inadequate curation and improper statistics. Our reanalysis of 22 univoltine species with sufficient data for independent analysis found substantive differences in macroscale phenological patterns.

Phenotypic plasticity can mask population genetic differentiation, reducing the predictability of trait-environment relationships. In short-lived plants, reproductive traits may be more genetically determined due to their direct impact on fitness, whereas vegetative traits may show higher plasticity to buffer short-term perturbations. Combining a multi-treatment greenhouse experiment with global field observations for the short-lived Plantago lanceolata, we 1) disentangled the genetic and plastic responses of functional traits to a set of environmental drivers and 2) assessed the utility of trait-environment relationshisps inferred from observational data for predicting genetic differentiation. Reproductive traits showed distinct genetic differentiation that was highly predictable from observational data, but only when correcting traits for differences in their (labile) biomass component. Vegetative traits showed higher plasticity and contrasting genetic and plastic responses, leading to unpredictable trait patterns. Our study suggests that genetic differentiation may be inferred from observational data only for the traits most closely related with fitness.

Banks-Leite et al. (2021) claim that our suggestion of preserving ≥40% forest cover lacks evidence and can be problematic. We find these claims unfounded, and discuss why conservation planning urgently requires valuable, well-supported, and feasible general guidelines like the 40% criterion. Using region-specific thresholds worldwide is unfeasible and potentially harmful.

Research in ecology and evolutionary biology (EEB) plays a key role in understanding and intervening in our current environmental and climate crisis. Although anthropogenic stressors and climate change continue to disproportionately affect Black, Indigenous, and people of colour (BIPOC) individuals, their valuable scientific voices are shockingly underrepresented within EEB. To underscore this problem, we present a case study on EEB PhD graduates in the US (1994-2018), which illustrates that BIPOC scholars are significantly underrepresented in their cohorts. We recommend key steps that the EEB Academy should take to increase representation of BIPOC scholars in EEB, including anti-racism education and practice, increased funding opportunities, integration of diverse cultural perspectives, and a community-minded shift in PhDs. Importantly, this advice is directed at those who wield power in the Academy (e.g., funding agencies, societies, institutions, departments, and faculty), rather than BIPOC scholars already struggling against inequitable frameworks in EEB.

Multi-channel food webs are shaped by the ability of apex predators to link asymmetric energy flows in mesohabitats differing in productivity and community traits. While body size is a fundamental trait underlying life histories and demography, its implications for structuring multi-channel food webs are unexplored. To fill this gap, we develop a framework that links population responses to predation and resource availability to community-level patterns using a tri-trophic food web model with two populations of intermediate consumers and a size-selective top predator. We show that asymmetries in mesohabitat productivities and consumer body sizes drive food web structure, merging previously separate theory on apparent competition and emergent Allee effects (i.e., abrupt collapses of top predator populations). Our results yield theoretical support for empirically observed stability of asymmetric multi-channel food webs and discover three novel types of emergent Allee effects involving intermediate consumers, multiple populations or multiple alternative stable states.

Generation time determines the pace of key demographic and evolutionary processes. Quantified as the weighted mean age at reproduction, it can be studied as a trait that varies within and among populations and may evolve in response to ecological conditions. We combined quantitative genetic analyses with age- and density-dependent models to study generation time variation in a bird metapopulation. Generation time was heritable, and males had longer generation times compared with females. Individuals with longer generation times had a higher lifetime reproductive success but not a higher expected population growth rate. Density regulation acted on recruit production, suggesting that longer generation times should be favored when populations are closer to carrying capacity. Furthermore, generation times were shorter when populations were growing, and longer when populations were closer to equilibrium or declining. These results support classic theory predicting that density regulation is an important driver of the pace of life-history strategies.