Characterization of topological keystone species: Local,global and “meso-scale” centralities in food webs

An important question in the network representation of ecological systems is to determine how direct and indirect interactions between species determine the positional importance of species in the ecosystem. Here we present a quantitative analysis of the similarities and differences of six different topological centrality measures as indicators of keystone species in 17 food webs. These indicators account for local, global and “meso-scale” – intermediate between local and global – topological information about species in the food webs. Using factor analysis we shown that most of these centrality indices share a great deal of topological information, which range from 75% to 96%. A generalized keystone indicator is then proposed by considering the factor loadings of the six-centrality measures, which contains most of the information encoded by these indices. However, the individual ordering of species according to these criteria display significant differences in most food webs. We simulate the effects of species extinction by removing species ranked according to a local and a “meso-scale” centrality indicator. The differences observed on three network characteristics – size, average distance and clustering coefficient of the largest component – after the removal of the most central nodes indicate that the consideration of these indices have different impacts for the ranking of species with conservational biology purposes. The “meso-scale” indicator appears to play an important role in determining the relative importance of species in epidemic spread and parasitism rates.     

关键种，关键在哪儿？

 物种在生态系统功能过程中并不是同等重要的,这已经是一个普遍接受的事实,而关键种和冗余种被认为是生态系统功能过程中两类极端的生物类群。由于关键种通常被认为在生态系统功能方面中有重要作用,因此有人认为,假如我们能够甄别生态系统中的关键种及其多方面影响的作用机制,我们就有可能得到整个或大部分生态系统功能过程的信息。因此,在考虑生物多样性保护,尤其是为了有效保护它们所产生的生态系统功能过程时,生态学家和保护生物学家们引入了关键种的概念。通过对关键种的保护,更有效地保护其所在生态系统的功能过程。通过对有关关键种研究的回顾,阐述了关键种的定量测度方法,关键种在保护生物学中的意义、应用及其局限。     

Transnational Corporations as ‘Keystone Actors’ in Marine Ecosystems

Keystone species have a disproportionate influence on the structure and function of ecosystems. Here we analyze whether a keystone-like pattern can be observed in the relationship between transnational corporations and marine ecosystems globally. We show how thirteen corporations control 11-16% of the global marine catch (9-13 million tons) and 19-40% of the largest and most valuable stocks, including species that play important roles in their respective ecosystem. They dominate all segments of seafood production, operate through an extensive global network of subsidiaries and are profoundly involved in fisheries and aquaculture decision-making. Based on our findings, we define these companies as keystone actors of the Anthropocene. The phenomenon of keystone actors represents an increasingly important feature of the human-dominated world. Sustainable leadership by keystone actors could result in cascading effects throughout the entire seafood industry and enable a critical transition towards improved management of marine living resources and ecosystems.     

Potential oscillators and keystone modules in food webs

Food web theory suggests that the placement of a weak interaction is critical such that under some conditions even one well‐placed weak interaction can stabilise multiple strong interactions. This theory suggests that complex stable webs may be built from pivotal weak interactions such that the removal of even one to a few keystone interactions can have significant cascading impacts on whole system diversity and structure. However, the connection between weak interactions, derived from the theory of modular food web components, and keystone species, derived from empirical results, is not yet well understood. Here, we develop numerical techniques to detect potential oscillators hidden in complex food webs, and show that, both in random and real food webs, keystone consumer–resource interactions often operate to stabilise them. Alarmingly, this result suggests that nature frequently may be dangerously close to precipitous change with even the loss of one or a few weakly interacting species.     

Plant community responses to bison reintroduction on the Northern Great Plains,United States: a test of the keystone species concept

Keystone species restoration, or the restoration of species whose effect on an ecosystem is much greater than their abundance would suggest, is a central justification for many wildlife reintroduction projects globally. Following restoration, plains bison (Bison bison L.) have been identified as a keystone species in the tallgrass prairie ecoregion, but we know of no research to document similar effects in the mixed‐grass prairie where restoration efforts are ongoing. This study addresses whether Northern Great Plains (NGP) mixed‐grass prairie plant communities exhibit traits consistent with four central keystone effects documented for bison in the tallgrass prairie. We collected species composition, diversity, abundance, bare ground cover, and plant height data in three treatments: where livestock (Bos taurus L.) continuously grazed, livestock were removed for 10 years, and bison have been introduced and resident for 10 years. We observed mixed support for bison acting as keystone species in this system. Supporting the keystone role of bison, we observed higher species richness and compositional heterogeneity (β‐diversity) in the bison treatment than either the livestock retention or livestock removal treatments. However, we observed comparable forb, bare ground, and plant height heterogeneity between bison‐restored sites and sites where livestock were retained, contradicting reported keystone effects in other systems. Our results suggest that after 10 years of being restored, bison partially fulfill their role as a keystone species in the mixed‐grass prairie, and we encourage continued long‐term data collection to evaluate their influence in the NGP.     

A first assessment of the land management effect on the ecological role of large trees as habitat refuges for desert small mammals

Large old trees are keystone organisms that generate a highly connected network of interactions because they provide refuge and feeding sites to mammals with different habitat requirements through their under canopy structure and deadwood. In dry woodlands, these keystone trees are found within agricultural landscapes, where grazing and deadwood removal are the main subsistence activities carried out by local people. These activities can modify the structure of trees and, in turn, affect small mammal communities. Our objective was to assess how different land management types modify the structure of P. flexuosa trees, and to determine the effects of modified tree structure on the abundance and composition of small mammal communities. The study was conducted in P. flexuosa forests within a protected area and in grazing fields. We found that the trees and the vegetation structure beneath their canopies reflect the management history of areas. Trees in the protected area and in an abandoned field were structurally more similar to one another than were those in grazing fields with deadwood removal and, in turn, presented greater total abundances of small mammals. Under tree canopy, the amount of deadwood and grass cover favor the presence of species that need closed and more complex habitats. Also, protection provided by the trees was differentially perceived by species, according to their ecological requirements. We can conclude that different land management scenarios allow for the conservation of the whole rodent assemblage and that, the trees determine the presence of species, particularly of those needing more complex habitats.     

The genetic network of greater sage‐grouse: Range‐wide identification of keystone hubs of connectivity

Genetic networks can characterize complex genetic relationships among groups of individuals, which can be used to rank nodes most important to the overall connectivity of the system. Ranking allows scarce resources to be guided toward nodes integral to connectivity. The greater sage‐grouse (Centrocercus urophasianus) is a species of conservation concern that breeds on spatially discrete leks that must remain connected by genetic exchange for population persistence. We genotyped 5,950 individuals from 1,200 greater sage‐grouse leks distributed across the entire species’ geographic range. We found a small‐world network composed of 458 nodes connected by 14,481 edges. This network was composed of hubs—that is, nodes facilitating gene flow across the network—and spokes—that is, nodes where connectivity is served by hubs. It is within these hubs that the greatest genetic diversity was housed. Using indices of network centrality, we identified hub nodes of greatest conservation importance. We also identified keystone nodes with elevated centrality despite low local population size. Hub and keystone nodes were found across the entire species’ contiguous range, although nodes with elevated importance to network‐wide connectivity were found more central: especially in northeastern, central, and southwestern Wyoming and eastern Idaho. Nodes among which genes are most readily exchanged were mostly located in Montana and northern Wyoming, as well as Utah and eastern Nevada. The loss of hub or keystone nodes could lead to the disintegration of the network into smaller, isolated subnetworks. Protecting both hub nodes and keystone nodes will conserve genetic diversity and should maintain network connections to ensure a resilient and viable population over time. Our analysis shows that network models can be used to model gene flow, offering insights into its pattern and process, with application to prioritizing landscapes for conservation.     

Scaling up keystone effects from simple to complex ecological networks

Predicting the consequences of species loss requires extending our traditional understanding of simpler dynamic systems of few interacting species to the more complex ecological networks found in natural ecosystems. Especially important is the scaling up of our limited understanding of how and under what conditions loss of ‘keystone’ species causes large declines of many other species. Here we explore how these keystone effects vary among simulations progressively scaled up from simple to more complex systems. Simpler simulations of four to seven interacting species suggest that species up to four links away can strongly alter keystone effects and make the consequences of keystone loss potentially indeterminate in more realistically complex communities. Instead of indeterminacy, we find that more complex networks of up to 32 species generally buffer distant influences such that variation in keystone effects is well predicted by surprisingly local ‘top‐down’, ‘bottom‐up’, and ‘horizontal‘ constraints acting within two links of the keystone subsystem. These results demonstrate that: (1) strong suppression of the competitive dominant by the keystone may only weakly affect subordinate competitors; (2) the community context of the target species determines whether strong keystone effects are realized; (3) simple, measurable, and local attributes of complex communities may explain much of the empirically observed variation in keystone effects; and (4) increasing network complexity per se does not inherently make the prediction of strong keystone effects more complicated.     

Functional importance vs keystoneness: Reformulating some questions in theoretical biocenology

Abstract Two concepts relating to the influence of individual species on the biocenoses in which they occur are reviewed. The first, the general functional importance of a species, is denned as the sum, over all species, of the changes (sign ignored) in productivity which would occur on removal of the particular species from the biocenosis. General functional importance is calculated as: where P_j is the productivity of the jth species before (t= 0) and after (t= 1) removal of the particular (ith) species being evaluated. Though I_i values cannot be determined empirically, this concept raises provocative questions for theoretical biocenology. The second concept reviewed is that of the keystone species. Never having been precisely or operationally defined,‘keystone’ has come to mean little more than ‘important for something.’ Moreover, there is no empirical or theoretical foundation for the idea that there exists in any biocenosis a natural dichotomy corresponding to the verbal one of keystone and non-keystone species. Some investigators have implied that such a dichotomy is suggested by the frequency distributions of experimentally determined values of interaction strength. The patterns they refer to are, however, artifacts resulting from small sample sizes and the plotting of frequency distributions on arithmetic rather than logarithmic scales. As a casual metaphor ‘keystone species’ was appealing and harmless; but the pretence that it is a well-defined concept or phenomenon has had a stultifying effect on ecological thought and argument.     

Predicting Phenotypic Diversity and the Underlying Quantitative Molecular Transitions

During development, signaling networks control the formation of multicellular patterns. To what extent quantitative fluctuations in these complex networks may affect multicellular phenotype remains unclear. Here, we describe a computational approach to predict and analyze the phenotypic diversity that is accessible to a developmental signaling network. Applying this framework to vulval development in C. elegans, we demonstrate that quantitative changes in the regulatory network can render ~500 multicellular phenotypes. This phenotypic capacity is an order-of-magnitude below the theoretical upper limit for this system but yet is large enough to demonstrate that the system is not restricted to a select few outcomes. Using metrics to gauge the robustness of these phenotypes to parameter perturbations, we identify a select subset of novel phenotypes that are the most promising for experimental validation. In addition, our model calculations provide a layout of these phenotypes in network parameter space. Analyzing this landscape of multicellular phenotypes yielded two significant insights. First, we show that experimentally well-established mutant phenotypes may be rendered using non-canonical network perturbations. Second, we show that the predicted multicellular patterns include not only those observed in C. elegans, but also those occurring exclusively in other species of the Caenorhabditis genus. This result demonstrates that quantitative diversification of a common regulatory network is indeed demonstrably sufficient to generate the phenotypic differences observed across three major species within the Caenorhabditis genus. Using our computational framework, we systematically identify the quantitative changes that may have occurred in the regulatory network during the evolution of these species. Our model predictions show that significant phenotypic diversity may be sampled through quantitative variations in the regulatory network without overhauling the core network architecture. Furthermore, by comparing the predicted landscape of phenotypes to multicellular patterns that have been experimentally observed across multiple species, we systematically trace the quantitative regulatory changes that may have occurred during the evolution of the Caenorhabditis genus.     

The effect of recombination on the neutral evolution of genetic robustness

Conventional population genetics considers the evolution of a limited number of genotypes corresponding to phenotypes with different fitness. As model phenotypes, in particular RNA secondary structure, have become computationally tractable, however, it has become apparent that the context dependent effect of mutations and the many-to-one nature inherent in these genotype-phenotype maps can have fundamental evolutionary consequences. It has previously been demonstrated that populations of genotypes evolving on the neutral networks corresponding to all genotypes with the same secondary structure only through neutral mutations can evolve mutational robustness [E. van Nimwegen, J.P. Crutchfield, M. Huynen, Neutral evolution of mutational robustness, Proc. Natl. Acad. Sci. USA 96(17), 9716-9720 (1999)], by concentrating the population on regions of high neutrality. Introducing recombination we demonstrate, through numerically calculating the stationary distribution of an infinite population on ensembles of random neutral networks that mutational robustness is significantly enhanced and further that the magnitude of this enhancement is sensitive to details of the neutral network topology. Through the simulation of finite populations of genotypes evolving on random neutral networks and a scaled down microRNA neutral network, we show that even in finite populations recombination will still act to focus the population on regions of locally high neutrality.     

Mistletoe as a keystone resource: an experimental test

Various entities have been designated keystone resources, but few tests have been attempted and we are unaware of any experimental manipulations of purported keystone resources. Mistletoes (Loranthaceae) provide structural and nutritional resources within canopies, and their pervasive influence on diversity led to their designation as keystone resources. We quantified the effect of mistletoe on diversity with a woodland-scale experiment, comparing bird diversities before and after all mistletoe plants were removed from 17 treatment sites, with those of 11 control sites and 12 sites in which mistletoe was naturally absent. Three years after mistletoe removal, treatment woodlands lost, on average, 20.9 per cent of their total species richness, 26.5 per cent of woodland-dependent bird species and 34.8 per cent of their woodland-dependent residents, compared with moderate increases in control sites and no significant changes in mistletoe-free sites. Treatment sites lost greater proportions of birds recorded nesting in mistletoe, but changes in species recorded feeding on mistletoe did not differ from control sites. Having confirmed the status of mistletoe as a keystone resource, we suggest that nutrient enrichment via litter-fall is the main mechanism promoting species richness, driving small-scale heterogeneity in productivity and food availability for woodland animals. This explanation applies to other parasitic plants with high turnover of enriched leaves, and the community-scale influence of these plants is most apparent in low productivity systems.     

Pogonomyrmexcunicularius as the keystone disperser of elaiosome‐bearing Jatropha excisa seeds in semi‐arid Argentina

Myrmecochory or seed dispersal by ants is often described as a diffuse mutualism, because many of the ant species that function as partners are considered to be similar in terms of the frequency and consequences of their interactions. In this work, we test this assumption by conducting ant community surveys and seed removal experiments in six study sites located within a semi‐arid region of northwest Argentina. At each site, we characterized the ant assemblage that interacted with the seeds of Jatropha excisa Griseb. (Euphorbiaceae), an ant‐dispersed native shrub. Our results demonstrate that seed removal was dominated by one species, Pogonomyrmex cunicularius Mayr (Hymenoptera: Formicidae: Myrmicinae), which was responsible of 84% of the observed seed removal events. Although several ant species were attracted to the elaiosome‐bearing seeds of J. excisa, seed removal did not depend on ant community composition (species richness and ant activity) but was significantly influenced by the abundance of P. cunicularius. Its physical, behavioral, and ecological attributes are common with other ant species that have been characterized as keystone seed dispersers in other regions of the world. Nest feeding with marked seeds revealed that once P. cunicularius ants consume the elaiosomes, seeds are left inside the nests undamaged and at an appropriate depth for emergence. Our results support the hypothesis that myrmecochory is often an unevenly diffuse mutualism (i.e., one partner species is particularly important) and that at a local scale P. cunicularius is the keystone seed disperser of J. excisa.     

滇西北退化高寒草甸植物群落结构对刈割的响应

为探究滇西北不同退化级别高寒草甸植物群落结构对外界干扰的响应敏感性,以香格里拉市的典型高寒草甸为研究对象,于2018-2020年在三个退化梯度上（严重退化,S1;中度退化,S2;轻度退化,S3）开展控制刈割实验,进而分析草甸植物物种丰富度、群落组成相似性、群落复杂度和关键种的变化规律。结果表明：（1）刈割后,S1的物种丰富度显著增加（P<0.05）,S2和S3的物种丰富度未发生显著变化（P>0.05）;（2）相较于S2和S3,S1梯度的植物群落组成变化最大;（3） S1、S2和S3的植物群落复杂度在刈割后均呈先下降后增加的趋势,但S1的植物群落复杂度变化幅度高于S2和S3;（4）刈割导致各退化草甸植物群落的关键种发生了变化,2018、2019和2020年S1梯度的关键种在豆科（Leguminsae）和蔷薇科（Rosaceae）之间变化,S2梯度的关键种在禾本科（Gramineae）和菊科（Compositae）之间变化,S3梯度的关键种在蔷薇科（Rosaceae）、菊科（Compositae）和禾本科（Gramineae）之间转变。研究表明,滇西北高寒草甸植物物种丰富度、群落组成和群落复杂度对外界干扰响应的敏感性可能随退化加剧而上升,但群落关键种的响应过程较复杂。     

Keystone species and vulnerable species in ecological communities: strong or weak interactors?

The loss of a species from an ecological community can trigger a cascade of secondary extinctions. The probability of secondary extinction to take place and the number of secondary extinctions are likely to depend on the characteristics of the species that is lost--the strength of its interactions with other species--as well as on the distribution of interaction strengths in the whole community. Analysing the effects of species loss in model communities we found that removal of the following species categories triggered, on average, the largest number of secondary extinctions: (a) rare species interacting strongly with many consumers, (b) abundant basal species interacting weakly with their consumers and (c) abundant intermediate species interacting strongly with many resources. We also found that the keystone status of a species with given characteristics was context dependent, that is, dependent on the structure of the community where it was embedded. Species vulnerable to secondary extinctions were mainly species interacting weakly with their resources and species interacting strongly with their consumers.     

Keystone species and food webs

Different species are of different importance in maintaining ecosystem functions in natural communities. Quantitative approaches are needed to identify unusually important or influential, ‘keystone’ species particularly for conservation purposes. Since the importance of some species may largely be the consequence of their rich interaction structure, one possible quantitative approach to identify the most influential species is to study their position in the network of interspecific interactions. In this paper, I discuss the role of network analysis (and centrality indices in particular) in this process and present a new and simple approach to characterizing the interaction structures of each species in a complex network. Understanding the linkage between structure and dynamics is a condition to test the results of topological studies, I briefly overview our current knowledge on this issue. The study of key nodes in networks has become an increasingly general interest in several disciplines: I will discuss some parallels. Finally, I will argue that conservation biology needs to devote more attention to identify and conserve keystone species and relatively less attention to rarity.     

Adaption,neutrality and life-course diversity

Heterogeneity among individuals in fitness components is what selection acts upon. Evolutionary theories predict that selection in constant environments acts against such heterogeneity. But observations reveal substantial non-genetic and also non-environmental variability in phenotypes. Here, we examine whether there is a relationship between selection pressure and phenotypic variability by analysing structured population models based on data from a large and diverse set of species. Our findings suggest that non-genetic, non-environmental variation is in general neither truly neutral, selected for, nor selected against. We find much variations among species and populations within species, with mean patterns suggesting nearly neutral evolution of life-course variability. Populations that show greater diversity of life courses do not show, in general, increased or decreased population growth rates. Our analysis suggests we are only at the beginning of understanding the evolution and maintenance of non-genetic non-environmental variation.