Predicting the unexpected: using a qualitative model of a New Zealand dryland ecosystem to anticipate pest management outcomes

Pest management is expensive and there is often uncertainty about the benefits for the resources being protected. There can also be unintended consequences for other parts of the ecosystem, especially in complex food webs. In making decisions managers generally have to rely on qualitative information collected in a piecemeal fashion. A method to assist decision making is a qualitative modelling approach using fuzzy cognitive maps, a directed graphical model related to neural networks that can take account of interactions between pests and conservation assets in complex food webs. Using all available information on relationships between native and exotic resources and consumers, we generated hypotheses about potential consequences of single‐species and multi‐species pest control on the long‐term equilibrium abundances of other biotic components of an ecosystem. We applied the model to a dryland ecosystem in New Zealand because we had good information on its trophic structure, but the information on the strength of species interactions was imprecise. Our model suggested that pest control is unlikely to significantly boost native invertebrates and lizards in this ecosystem, suggesting that other forms of management may be required for these groups. Most of the pest control regimes tested resulted in greater abundances of at least one other pest species, which could potentially lead to other management problems. Some of the predictions were unexpected, such as more birds resulting from possum and mouse control. We also modelled the effects of an increase in invasive rabbits, which led to unexpected declines of stoats, weasels, mice and possums. These unexpected outcomes resulted from complex indirect pathways in the food web. Fuzzy cognitive maps allow rapid construction of prototype models of complex food webs using a wide range of data and expert opinion. Their utility lies in providing direction for future monitoring efforts and generating hypotheses that can be tested with field experiments.     

Trophic and non‐trophic interactions influence the mechanisms underlying biodiversity–ecosystem functioning relationships under different abiotic conditions

Plant diversity effects on ecosystem functioning usually have been studied from a plant perspective. However, the mechanisms underlying biodiversity–ecosystem functioning relationships may also depend on positive or negative interactions between plants and other biotic and abiotic factors, which remain poorly understood. Here we assessed whether plant–herbivore and/or plant–detritivore interactions modify the biodiversity–ecosystem functioning relationship and the mechanisms underlying biodiversity effects, including complementarity and selection effects, biomass allocation, vertical distribution of roots, and plant survival using a microcosm experiment. We also evaluated to what extent trophic and non‐trophic interactions are affected by abiotic conditions by studying drought effects. Our results show that biotic and abiotic conditions influence the shape of the biodiversity–ecosystem function relationship, varying from hump‐shaped to linear. For instance, total biomass increased linearly with plant richness in the presence of detritivores, but not in the absence of detritivores. Moreover, detritivore effects on belowground plant productivity were highly context dependent, varying in the presence of herbivores. Plant interactions with soil biota, especially with herbivores, influenced the mechanisms underlying diversity effects. Herbivores increased plant complementarity and modified biomass allocation and vertical distribution of roots. Furthermore, biotic–abiotic interactions influenced plant productivity differently across plant functional groups. Our findings emphasize the importance of complex biotic interactions underlying biodiversity effects, and that these biotic interactions may change with abiotic conditions. Despite minor changes in productivity in the short‐term, soil biota‐induced changes in plant–plant interactions and plant survival are likely to have significant long‐term consequences for ecosystem functioning. Considering the context‐dependency of multichannel interactions may contribute to reconciling differences among observed patterns in biodiversity studies. Further, abiotic conditions modified the effects of biotic interactions, suggesting that changes in environmental conditions may not only affect ecosystems directly, but also change the biotic composition of and dynamics within ecosystems.     

Land-cover change effects on trophic interactions: Current knowledge and future challenges in research and conservation

Understanding the effects of land-cover alterations on ecosystem functioning has become a major challenge in ecological research during the last decade. This has stimulated a rapid growth in research investigating the links between land-cover change and biotic interactions, but to date no study has evaluated the progress towards achieving this scientific goal. With the aim of identifying gaps in current knowledge and challenging research areas for the future, we reviewed the scientific literature published during the last decade (1998–2010) investigating land-cover change effects on trophically-mediated biotic interactions. Our results reveal a disproportionate focus on particular trophic interactions and ecosystem types. Furthermore, in most cases, the measurement of trophic interactions is carried out neglecting the identity of the interacting species and the interrelation between the type of land-cover change effects. Finally, inappropriate temporal scales are applied to cope with spatiotemporal resource fluctuations for the interacting species. We suggest that the ongoing patterns and trends of research hamper efforts to achieve a truly comprehensive understanding of the effects of land-cover alterations on trophic interactions, and hence on ecosystem functioning in human-impacted landscapes. We therefore recommend alternative research trends and indicate gaps in current knowledge that need to be filled. Furthermore, we highlight that these biases could also limit the effectiveness of management actions aimed at ensuring the resilience and long-term conservation of natural habitats worldwide.     

Global change and species interactions in terrestrial ecosystems

The main drivers of global environmental change (CO₂ enrichment, nitrogen deposition, climate, biotic invasions and land use) cause extinctions and alter species distributions, and recent evidence shows that they exert pervasive impacts on various antagonistic and mutualistic interactions among species. In this review, we synthesize data from 688 published studies to show that these drivers often alter competitive interactions among plants and animals, exert multitrophic effects on the decomposer food web, increase intensity of pathogen infection, weaken mutualisms involving plants, and enhance herbivory while having variable effects on predation. A recurrent finding is that there is substantial variability among studies in both the magnitude and direction of effects of any given GEC driver on any given type of biotic interaction. Further, we show that higher order effects among multiple drivers acting simultaneously create challenges in predicting future responses to global environmental change, and that extrapolating these complex impacts across entire networks of species interactions yields unanticipated effects on ecosystems. Finally, we conclude that in order to reliably predict the effects of GEC on community and ecosystem processes, the greatest single challenge will be to determine how biotic and abiotic context alters the direction and magnitude of GEC effects on biotic interactions.     

Key players and team play: anaerobic microbial communities in hydrocarbon-contaminated aquifers

Biodegradation of anthropogenic pollutants in shallow aquifers is an important microbial ecosystem service which is mainly brought about by indigenous anaerobic microorganisms. For the management of contaminated sites, risk assessment and control of natural attenuation, the assessment of in situ biodegradation and the underlying microbial processes is essential. The development of novel molecular methods, “omics” approaches, and high-throughput techniques has revealed new insight into complex microbial communities and their functions in anoxic environmental systems. This review summarizes recent advances in the application of molecular methods to study anaerobic microbial communities in contaminated terrestrial subsurface ecosystems. We focus on current approaches to analyze composition, dynamics, and functional diversity of subsurface communities, to link identity to activity and metabolic function, and to identify the ecophysiological role of not yet cultured microbes and syntrophic consortia. We discuss recent molecular surveys of contaminated sites from an ecological viewpoint regarding degrader ecotypes, abiotic factors shaping anaerobic communities, and biotic interactions underpinning the importance of microbial cooperation for microbial ecosystem services such as contaminant degradation.     

Unraveling negative biotic interactions determining soil microbial community assembly and functioning

Microbial communities play important roles in all ecosystems and yet a comprehensive understanding of the ecological processes governing the assembly of these communities is missing. To address the role of biotic interactions between microorganisms in assembly and for functioning of the soil microbiota, we used a top-down manipulation approach based on the removal of various populations in a natural soil microbial community. We hypothesized that removal of certain microbial groups will strongly affect the relative fitness of many others, therefore unraveling the contribution of biotic interactions in shaping the soil microbiome. Here we show that 39% of the dominant bacterial taxa across treatments were subjected to competitive interactions during soil recolonization, highlighting the importance of biotic interactions in the assembly of microbial communities in soil. Moreover, our approach allowed the identification of microbial community assembly rule as exemplified by the competitive exclusion between members of Bacillales and Proteobacteriales. Modified biotic interactions resulted in greater changes in activities related to N- than to C-cycling. Our approach can provide a new and promising avenue to study microbial interactions in complex ecosystems as well as the links between microbial community composition and ecosystem function.Subject terms: Soil microbiology, Ecology     

Tropical herbivores provide resilience to a climate‐mediated phase shift on temperate reefs

Climate‐mediated changes to biotic interactions have the potential to fundamentally alter global ecosystems. However, the capacity for novel interactions to drive or maintain transitions in ecosystem states remains unresolved. We examined temperate reefs that recently underwent complete seaweed canopy loss and tested whether a concurrent increase in tropical herbivores could be maintaining the current canopy‐free state. Turf‐grazing herbivorous fishes increased in biomass and diversity, and displayed feeding rates comparable to global coral reefs. Canopy‐browsing herbivores displayed high (~ 10 000 g 100 m^?2) and stable biomass between 2006 and 2013. Tropical browsers had the highest abundance in 2013 and displayed feeding rates approximately three times higher than previously observed on coral reefs. These observations suggest that tropical herbivores are maintaining previously kelp‐dominated temperate reefs in an alternate canopy‐free state by grazing turfs and preventing kelp reestablishment. This remarkable ecosystem highlights the sensitivity of biotic interactions and ecosystem stability to warming and extreme disturbance events.     

Quantifying Ecosystem Controlsand Their Contextual Interactionson Nutrient Export fromDeveloping Forest Mesocosms

The complexity of natural ecosystems makes it difficult to compare the relative importance of abiotic and biotic factors and to assess the effects of their interactions on ecosystem development. To improve our understanding of ecosystem complexity, we initiated an experiment designed to quantify the main effects and interactions of several factors that are thought to affect nutrient export from developing forest ecosystems. Using a replicated 2 × 2 × 4 factorial experiment, we quantified the main effects of these factors and the factor interactions on annual calcium, magnesium, and potassium export from field mesocosms over 4 years for two Vermont locations, two soils, and four different tree seedling communities. We found that the main effects explained 56%–97% of total variation in nutrient export. Abiotic factors (location and soil) accounted for a greater percentage of the total variation in nutrient export (47%–94%) than the biotic factor (plant community) (2%–15%). However, biotic control over nutrient export was significant, even when biomass was minimal. Factor interactions were often significant, but they explained less of the variation in nutrient export (1%–33%) than the main effects. Year-to-year fluctuations influenced the relative importance of the main effects in determining nutrient export and created factor interactions between most of the explanatory variables. Our study suggests that when research is focused on typically used main effects, such as location and soil, and interactions are aggregated into overall error terms, important information about the factors controlling ecosystem processes can be lost.     

Community and ecosystem responses to recent climate change

There is ample evidence for ecological responses to recent climate change. Most studies to date have concentrated on the effects of climate change on individuals and species, with particular emphasis on the effects on phenology and physiology of organisms as well as changes in the distribution and range shifts of species. However, responses by individual species to climate change are not isolated; they are connected through interactions with others at the same or adjacent trophic levels. Also from this more complex perspective, recent case studies have emphasized evidence on the effects of climate change on biotic interactions and ecosystem services. This review highlights the ‘knowns’ but also ‘unknowns’ resulting from recent climate impact studies and reveals limitations of (linear) extrapolations from recent climate-induced responses of species to expected trends and magnitudes of future climate change. Hence, there is need not only to continue to focus on the impacts of climate change on the actors in ecological networks but also and more intensively to focus on the linkages between them, and to acknowledge that biotic interactions and feedback processes lead to highly complex, nonlinear and sometimes abrupt responses.     

Habitat complexity: approaches and future directions

Habitat complexity is one of the most important factors structuring biotic assemblages, yet we still lack basic understanding of the underlying mechanisms. Although it is one of the primary targets in conservation management, no methods are available for comparing complexity across ecosystems, and system-specific qualitative assessment predominates. Despite its overwhelming importance for faunal diversity and abundance, there has been surprisingly little interest in examining its effects on other community and ecosystem attributes. We discuss possibilities of such effects, outlining potentially fruitful areas for future research, and argue that complexity may be implicated in community persistence and ecosystem stability by acting as a decoupling mechanism in predator–prey interactions. We provide a brief overview of methods used to quantify complexity in different ecosystems, highlighting contributions of the current issue of Hydrobiologia, and discuss potential application of these approaches for cross-ecosystem comparisons. Better understanding of the role of habitat complexity resulting from such comparisons is critically important for preservation of biodiversity and ecosystem function in an era of unprecedented habitat loss.     

Mammalian herbivores reveal marked genetic divergence among populations of an endangered plant species

Quantitative genetically based traits in dominant and keystone tree species can have extended effects on other biota and also on ecosystem processes. This has direct implications for managed plant systems, where choice of genetic stock in conservation or commercial plantings will affect the ecological and evolutionary trajectory of the associated biotic communities. Hence an understanding of genetic variation in quantitative traits, especially those that relate directly to fitness, should be incorporated into the management of species. In plants, quantitative traits such as foliar defences that mediate the complexity of biotic interactions (e.g. herbivory), may be key fitness traits to consider in the management of gene pools of species that are of high conservation value. In this paper we examine the interactions of an endangered eucalypt species, Eucalyptus morrisbyi and a marsupial herbivore, the common brushtail possum Trichosurus vulpecula. We investigate the genetic variability of resistance of plants sourced from two populations and genetic variability in foliage defences as key quantitative traits that may be essential for survival of this eucalypt species. Trichosurus vulpecula detect clear genetic divergence in the two E. morrisbyi populations as evidenced by their browsing preferences in the field. In addition, trees from the more susceptible population (Calverts Hill) suffered fitness consequences with lower flowering than trees from the more resistant population (Risdon Hills). Field feeding preferences were confirmed in captive feeding trials arguing differences were due to foliar attributes consistent with the genetic‐based differences observed in key chemical and physical foliage traits. Biotic interactions such as herbivory may affect populations of rare plant species. Results of this study highlight the need to understand the degree of genetic differentiation of resistance to herbivores and in the quantitative traits mediating these interactions in species of high conservation value, as these traits affect the adaptive potential of populations.     

Ecological Stoichiometry and Multi-element Transfer in a Coastal Ecosystem

Energy (carbon) flows and element cycling are fundamental, interlinked principles explaining ecosystem processes. The element balance in components, interactions and processes in ecosystems (ecological stoichiometry; ES) has been used to study trophic dynamics and element cycling. This study extends ES beyond its usual limits of C, N, and P and examines the distribution and transfer of 48 elements in 16 components of a coastal ecosystem, using empirical and modeling approaches. Major differences in elemental composition were demonstrated between abiotic and biotic compartments and trophic levels due to differences in taxonomy and ecological function. Mass balance modeling for each element, based on carbon fluxes and element:C ratios, was satisfactory for 92.5% of all element–compartment combinations despite the complexity of the ecosystem model. Model imbalances could mostly be explained by ecological processes, such as increased element uptake during the spring algal bloom. Energy flows in ecosystems can thus realistically estimate element transfer in the environment, as modeled uptake is constrained by metabolic rates and elements available. The dataset also allowed us to examine one of the key concepts of ES, homeostasis, for more elements than is normally possible. The relative concentrations of elements in organisms compared to their resources did not provide support for the theory that autotrophs show weak homeostasis and showed that the strength of homeostasis by consumers depends on the type of element (for example, macroelement, trace element). Large-scale, multi-element ecosystem studies are essential to evaluate and advance the framework of ES and the importance of ecological processes.     

Causes and consequences of biological diversity in soil

There is a vast diversity of organisms that live in the soil, and the activities of the total soil biota, together with the diverse forms and functions of plant roots, have critical roles in soil functioning. In this paper I discuss the likely determinants of soil diversity and also comment on recent studies that have explored whether or not there is a relationship between soil organism diversity and ecosystem function. There is little evidence to suggest that soil diversity is regulated in a predicable fashion by competition or disturbance; rather it is attributed to the nature of the soil environment, in that soil offers an extremely heterogeneous habitat, both spatially and temporally, proving unrivalled potential for niche partitioning, or resource or habitat specialisation, thereby enabling co-existence of species. Most evidence that is available suggests that there is no predictable relationship between diversity and function in soils, and that ecosystem properties are governed more by individual traits of dominant species, and by the extraordinary complexity of biotic interactions that occur between components of soil food webs. There is evidence of redundancy in soil communities with respect to soil functions, but the scale of effect of changes in soil diversity on process rates depends on which species are removed from the community and the degree to which remaining species can compensate. As in aboveground communities, therefore, it would appear that species traits and changes in species composition, and alterations in the nature of the many important species interactions that occur in soil, are likely to be the main biotic control of ecosystem function. In view of this, consideration of these important biotic interactions and their sensitivity to environmental change must be a key priority for future research.     

The “ReDune” index (Restoration of coastal Dunes Index) to assess the need and viability of coastal dune restoration

Overpopulation and deficient management of the worlds coastlines have seriously degraded beaches and coastal dunes, which are environments that provide valuable ecosystem services to society. The need to restore these ecosystems is increasingly urgent; however, this is a complex task since variables that differ widely (i.e. ecological, geomorphological and socio-economic) must all be taken into consideration. The present study proposes an index in the form of a weighted checklist named the “ReDune” Index (Restoration of coastal Dunes). This index allows decision makers and non-specialized professionals with some level of understanding of coastal dynamics to decide whether coastal dunes (foredunes) require and can be restored. Furthermore, in cases where more than one coastal dune system is to be evaluated, the index can distinguish which are in the most urgent need of restoration. The index consists of four sections: the first evaluates the degree of perturbation. The second determines the presence of endogenous and exogenous stress factors that may compromise the long-term stability of the restoration. The third section is focused on highlighting the abiotic and biotic elements that may facilitate restoration. Finally, the fourth section contributes to the identification of interests related to the conservation of the site and the provision of ecosystem services. The index was tested on 31 locations along the Gulf of Mexico, with differing sedimentary, ecological and human pressure characteristics and clearly distinguished between locations where restoration is urgent from those where it is not. This index can be applied on any foredune.     

提升生态系统质量和稳定性的生态学原理及技术途径之探讨

提升生态系统质量和稳定性是国家生态环境建设的迫切任务,但生态系统质量及其稳定性的生态学原理是亟待阐述的生态学难题。本文在梳理生态系统质量和稳定性的影响因素及其相互作用关系基础上,从生物集聚与结构嵌套的自组织、生态要素关联及生态过程耦合、生态系统整体性及功能涌现、生态服务外溢及功效权衡、资源供给能力和环境适宜性的协同互作、自然变化和人类活动交互影响等视角,论述了生态系统质量及其稳定性演变的生态学原理,并围绕生态系统宏观格局调整、自然保护地体系建设、区域复合生态系统综合管理、退化生态系统恢复、受损生态系统重建、典型生态系统过程管理等层级,提出了提升生态系统质量及其稳定性的技术途径与管理策略。     

Biotic replacement and mass extinction of the Ediacara biota

The latest Neoproterozoic extinction of the Ediacara biota has been variously attributed to catastrophic removal by perturbations to global geochemical cycles, ‘biotic replacement’ by Cambrian-type ecosystem engineers, and a taphonomic artefact. We perform the first critical test of the ‘biotic replacement’ hypothesis using combined palaeoecological and geochemical data collected from the youngest Ediacaran strata in southern Namibia. We find that, even after accounting for a variety of potential sampling and taphonomic biases, the Ediacaran assemblage preserved at Farm Swartpunt has significantly lower genus richness than older assemblages. Geochemical and sedimentological analyses confirm an oxygenated and non-restricted palaeoenvironment for fossil-bearing sediments, thus suggesting that oxygen stress and/or hypersalinity are unlikely to be responsible for the low diversity of communities preserved at Swartpunt. These combined analyses suggest depauperate communities characterized the latest Ediacaran and provide the first quantitative support for the biotic replacement model for the end of the Ediacara biota. Although more sites (especially those recording different palaeoenvironments) are undoubtedly needed, this study provides the first quantitative palaeoecological evidence to suggest that evolutionary innovation, ecosystem engineering and biological interactions may have ultimately caused the first mass extinction of complex life.     

The influence of biotic interactions on soil biodiversity

Belowground communities usually support a much greater diversity of organisms than do corresponding aboveground ones, and while the factors that regulate their diversity are far less well understood, a growing number of recent studies have presented data relevant to understanding how these factors operate. This review considers how biotic factors influence community diversity within major groups of soil organisms across a broad spectrum of spatial scales, and addresses the mechanisms involved. At the most local scale, soil biodiversity may potentially be affected by interactions within trophic levels or by direct trophic interactions. Within the soil, larger bodied invertebrates can also influence diversity of smaller sized organisms by promoting dispersal and through modification of the soil habitat. At larger scales, individual plant species effects, vegetation composition, plant species diversity, mixing of plant litter types, and aboveground trophic interactions, all impact on soil biodiversity. Further, at the landscape scale, soil diversity also responds to vegetation change and succession. This review also considers how a conceptual understanding of the biotic drivers of soil biodiversity may assist our knowledge of key topics in community and ecosystem ecology, such as aboveground–belowground interactions, and the relationship between biodiversity and ecosystem functioning. It is concluded that an improved understanding of what drives the diversity of life in the soil, incorporated within appropriate conceptual frameworks, should significantly aid our understanding of the structure and functioning of terrestrial communities.     

From plant–microbe interactions to symbiogenetics: a universal paradigm for the interspecies genetic integration

Beneficial plant–microbe symbioses are based on the integration of genetic material from diverse organisms resulting in formation of superorganism genetic systems. Analysis of their functions and evolution requires the establishment of a new biological discipline, proposed to be called symbiogenetics, which provides a basis for fundamental and applied research of the genetic control over different (symbiotic and biocenotic) biotic interactions. In ecology and agrobiology, the approaches of symbiogenetics are indispensable for optimising the interactions between the plants and the beneficial microbes to be used in ecosystem management and in sustainable crop production in which hazardous fertilisers and pesticides should be replaced by environmentally friendly microbial inoculants.     

The importance of ecological memory for trophic rewilding as an ecosystem restoration approach

Increasing human pressure on strongly defaunated ecosystems is characteristic of the Anthropocene and calls for proactive restoration approaches that promote self‐sustaining, functioning ecosystems. However, the suitability of novel restoration concepts such as trophic rewilding is still under discussion given fragmentary empirical data and limited theory development. Here, we develop a theoretical framework that integrates the concept of ‘ecological memory’ into trophic rewilding. The ecological memory of an ecosystem is defined as an ecosystem's accumulated abiotic and biotic material and information legacies from past dynamics. By summarising existing knowledge about the ecological effects of megafauna extinction and rewilding across a large range of spatial and temporal scales, we identify two key drivers of ecosystem responses to trophic rewilding: (i) impact potential of (re)introduced megafauna, and (ii) ecological memory characterising the focal ecosystem. The impact potential of (re)introduced megafauna species can be estimated from species properties such as lifetime per capita engineering capacity, population density, home range size and niche overlap with resident species. The importance of ecological memory characterising the focal ecosystem depends on (i) the absolute time since megafauna loss, (ii) the speed of abiotic and biotic turnover, (iii) the strength of species interactions characterising the focal ecosystem, and (iv) the compensatory capacity of surrounding source ecosystems. These properties related to the focal and surrounding ecosystems mediate material and information legacies (its ecological memory) and modulate the net ecosystem impact of (re)introduced megafauna species. We provide practical advice about how to quantify all these properties while highlighting the strong link between ecological memory and historically contingent ecosystem trajectories. With this newly established ecological memory–rewilding framework, we hope to guide future empirical studies that investigate the ecological effects of trophic rewilding and other ecosystem‐restoration approaches. The proposed integrated conceptual framework should also assist managers and decision makers to anticipate the possible trajectories of ecosystem dynamics after restoration actions and to weigh plausible alternatives. This will help practitioners to develop adaptive management strategies for trophic rewilding that could facilitate sustainable management of functioning ecosystems in an increasingly human‐dominated world.     

Governance Profiles and the Management of the Uses of Large Marine Ecosystems

Interest in the management of the environment and its resources on an ecosystem basis has been increasing in both terrestrial and marine contexts. The emergence of the concept of large marine ecosystems (LMEs) is one important example of this development. LMEs have been examined through five linked modules: (1) productivity of the ecosystem; (2) fish and fisheries; (3) pollution and ecosystem health; (4) socioeconomic conditions; and (5) governance. The first three focus on natural systems, while the last two concentrate on human interactions with those systems. To date the first three have received the greatest attention but as attention has turned to development and implementation of management strategies, greater consideration has being given to the human dimension of LMEs represented by the latter two modules. This article focuses on governance, a matter that is of fundamental importance because it shapes the pattern of human use of the natural environment. Efforts to promote ecosystem-based management occur within different governance frameworks; these frameworks and their associated dynamics must be understood in the same fashion that the structure and interplay of the elements of the natural ecosystem need to be comprehended. Just as natural science employs baseline studies to gauge change over time, this paper asserts the need for similar studies relevant to governance aspects of ecosystem use. After identifying and describing the roles of three major and generic governance institutions, we suggest the development in each LME of a governance profile that outlines and analyzes the existing governance framework. Moreover, we propose to consider governance change over time to assess whether such shifts represent movement in the direction of greater ecosystem focus.