pinecone/core-2020-05-10-deduplication huggingface dataset:
Discontinuities concentrate mobile predators: quantifying organism-environment interactions at a seascape scale

Citation: Kennedy, C. G., Mather, M. E., Smith, J. M., Finn, J. T., & Deegan, L. A. (2016). Discontinuities concentrate mobile predators: quantifying organism-environment interactions at a seascape scale. Ecosphere, 7(2), 17. doi:10.1002/ecs2.1226Understanding environmental drivers of spatial patterns is an enduring ecological problem that is critical for effective biological conservation. Discontinuities (ecologically meaningful habitat breaks), both-naturally occurring (e.g., river confluence, forest edge, drop-off) and anthropogenic (e.g., dams, roads), can influence the distribution of highly mobile organisms that have land-or seascape scale ranges. A geomorphic discontinuity framework, expanded to include ecological patterns, provides a way to incorporate important but irregularly distributed physical features into organism-environment relationships. Here, we test if migratory striped bass (Morone saxatilis) are consistently concentrated by spatial discontinuities and why. We quantified the distribution of 50 acoustically tagged striped bass at 40 sites within Plum Island Estuary, Massachusetts during four-monthly surveys relative to four physical discontinuities (sandbar, confluence, channel network, drop-off), one continuous physical feature (depth variation), and a geographic location variable (region). Despite moving throughout the estuary, striped bass were consistently clustered in the middle geographic region at sites with high sandbar area, close to channel networks, adjacent to complex confluences, with intermediate levels of bottom unevenness, and medium sized drop-offs. In addition, the highest striped bass concentrations occurred at sites with the greatest additive physical heterogeneity (i.e., where multiple discontinuities co-occurred). The need to incorporate irregularly distributed features in organism-environment relationships will increase as high-quality telemetry and GIS data accumulate for mobile organisms. The spatially explicit approach we used to address this challenge can aid both researchers who seek to understand the impact of predators on ecosystems and resource managers who require new approaches for biological conservation
Intraguild predator drives forest edge avoidance of a mesopredator

Interactions between top predators and mesopredators of the same guild often result in habitat segregation restricting interactions to shared habitat edges. Although negative edge effects are recognized as important spatial patterns in the ecology of fragmented landscapes, the underlying mechanisms of predator–prey interactions resulting in negative edge effects remain unknown. To disentangle top-down effects of intraguild predators and bottom-up effects of shared resources on mesopredator spatial distribution, we recorded the occurrence of tawny owls Strix aluco in forests and their prey, the little owl Athene noctua in adjacent open areas over 2 yr across 687 km2 in Southern Germany. We developed a new, asymmetrical dynamic two-species occupancy model investigating spatial interactions while accounting for imperfect detection. Little owl occupancy was strongly reduced within 150 m of forests, but only in the presence of tawny owls. Analysis of over 30 000 telemetry locations of 275 little owls showed that little owls strongly avoided areas closer than 150 m from the forest during range use. These results suggest that the negative edge effect is due to forest edge avoidance rather than direct predation. Potential confounding mechanisms such as food depletion or habitat avoidance at forest edges can be ruled out. Thus, top-down effects caused by avoidance of intraguild top predators shape the spatial distribution of mesopredators such as the little owl. While habitat complexity mitigates multitrophic interactions within habitats, it is expected to reinforce multitrophic interactions between habitats, potentially leading to the suppression of mesopredators from suitable habitats
An efficient protocol for the global sensitivity analysis of stochastic ecological models

Stochastic simulation models requiring many input parameters are widely used to inform the management of ecological systems. The interpretation of complex models is aided by global sensitivity analysis, using simulations for distinct parameter sets sampled from multidimensional space. Ecologists typically analyze such output using an “emulator”; that is, a statistical model used to approximate the relationship between parameter inputs and simulation outputs and to derive sensitivity measures. However, it is typical for ad hoc decisions to be made regarding: (1) trading off the number of parameter samples against the number of simulation iterations run per sample, (2) determining whether parameter sampling is sufficient, and (3) selecting an appropriate emulator. To evaluate these choices, we coupled different sensitivity-analysis designs and emulators for a stochastic, 20-parameter model that simulated the re-introduction of a threatened species subject to predation and disease, and then validated the emulators against new output generated from the simulation model. Our results lead to the following sensitivity analysis-protocol for stochastic ecological models. (1) Run a single simulation iteration per parameter sample generated, even if the focal response is a probabilistic outcome, while sampling extensively across the parameter space. In contrast to designs that invested in many model iterations (tens to thousands) per parameter sample, this approach allowed emulators to capture the input-output relationship of the simulation model more accurately and also to produce sensitivity measures that were robust to variation inherent in the parameter-sampling stage. (2) Confirm that parameter sampling is sufficient, by emulating subsamples of the sensitivity-analysis output. As the subsample size is increased, the cross-validatory performance of the emulator and sensitivity measures derived from it should exhibit asymptotic behavior. This approach can also be used to compare candidate emulators and select an appropriate interaction depth. (3) If required, conduct further simulations for additional parameter samples, and then report sensitivity measures and illustrate key response curves using the selected emulator. This protocol will generate robust sensitivity measures and facilitate the interpretation of complex ecological models, while minimizing simulation effort.Thomas A. A. Prowse, Corey J. A. Bradshaw, Steven Delean, Phillip Cassey, Robert C. Lacy, Konstans Wells, Matthew E. Aiello-Lammens, H. R. Akçakaya, and Barry W. Broo
Tick-, mosquito-, and rodent-borne parasite sampling designs for the National Ecological Observatory Network

Parasites and pathogens are increasingly recognized as significant drivers of ecological and evolutionary change in natural ecosystems. Concurrently, transmission of infectious agents among human, livestock, and wildlife populations represents a growing threat to veterinary and human health. In light of these trends and the scarcity of long-term time series data on infection rates among vectors and reservoirs, the National Ecological Observatory Network (NEON) will collect measurements and samples of a suite of tick-, mosquito-, and rodent-borne parasites through a continental-scale surveillance program. Here, we describe the sampling designs for these efforts, highlighting sampling priorities, field and analytical methods, and the data as well as archived samples to be made available to the research community. Insights generated by this sampling will advance current understanding of and ability to predict changes in infection and disease dynamics in novel, interdisciplinary, and collaborative ways. (Résumé d'auteur
Somatic growth dynamics of West Atlantic hawksbill sea turtles: a spatio-temporal perspective

This is the final version of the article. Available from the publisher via the DOI in this record.Somatic growth dynamics are an integrated response to environmental conditions. Hawksbill
sea turtles (Eretmochelys imbricata) are long-lived, major consumers in coral reef habitats that move over
broad geographic areas (hundreds to thousands of kilometers). We evaluated spatio-temporal effects on
hawksbill growth dynamics over a 33-yr period and 24 study sites throughout the West Atlantic and explored
relationships between growth dynamics and climate indices. We compiled the largest ever data set
on somatic growth rates for hawksbills – 3541 growth increments from 1980 to 2013. Using generalized additive
mixed model analyses, we evaluated 10 covariates, including spatial and temporal variation, that could
affect growth rates. Growth rates throughout the region responded similarly over space and time. The lack
of a spatial effect or spatio-temporal interaction and the very strong temporal effect reveal that growth rates
in West Atlantic hawksbills are likely driven by region-wide forces. Between 1997 and 2013, mean growth
rates declined significantly and steadily by 18%. Regional climate indices have significant relationships with
annual growth rates with 0- or 1-yr lags: positive with the Multivariate El Niño Southern Oscillation Index
(correlation = 0.99) and negative with Caribbean sea surface temperature (correlation = −0.85). Declines
in growth rates between 1997 and 2013 throughout the West Atlantic most likely resulted from warming
waters through indirect negative effects on foraging resources of hawksbills. These climatic influences are
complex. With increasing temperatures, trajectories of decline of coral cover and availability in reef habitats
of major prey species of hawksbills are not parallel. Knowledge of how choice of foraging habitats, prey
selection, and prey abundance are affected by warming water temperatures is needed to understand how
climate change will affect productivity of consumers that live in association with coral reefs
Specialization among amphipods: the invasiveGammarus tigrinushas narrower niche space compared to native gammarids

Human-mediated invasions of nonindigenous species are modifying global biodiversity. Despite significant interest in the topic, niche separation and specialization of invasive and closely related native sympatric species are not well understood. It is expected that combined use of various methods may reveal different aspects of niche space and provide stronger evidence for niche partitioning as compared to a single method. We applied the species marginality index (OMI) and species distribution modeling (SDM) in the northern Baltic Proper to determine (1) if environmental niche spaces at habitat scale differ between taxonomically and functionally closely related invasive and native gammarid species, and (2) whether the observed pattern relates to the species distribution overlap. Both methods agreed in notably narrower and more segregated realized niche of invasive Gammarus tigrinus compared to the studied native gammarids. Among native species, the distribution of G. zaddachi overlapped the most with G. tigrinus. Our results confirm that widespread colonization does not require a wide niche of the colonizer, but may rather be a function of other biological traits and/or the saturation of the recipient ecosystem. The niche divergence and wider environmental niche space of native species are likely to safeguard their existence in habitats less suitable for G. tigrinus
Lake Baikal amphipods under climate change: thermal constraints and ecological consequences

Lake Baikal, the world's most voluminous freshwater lake, has experienced unprecedented warming during the last decades. A uniquely diverse amphipod fauna inhabits the littoral zone and can serve as a model system to identify the role of thermal tolerance under climate change. This study aimed to identify sublethal thermal constraints in two of the most abundant endemic Baikal amphipods, Eulimnogammarus verrucosus and Eulimnogammarus cyaneus, and Gammarus lacustris, a ubiquitous gammarid of the Holarctic. As the latter is only found in some shallow isolated bays of the lake, we further addressed the question whether rising temperatures could promote the widespread invasion of this non-endemic species into the littoral zone. Animals were exposed to gradual temperature increases (4 week, 0.8 °C/d; 24 h, 1 °C/h) starting from the reported annual mean temperature of the Baikal littoral (6 °C). Within the framework of oxygen- and capacity-limited thermal tolerance (OCLTT), we used a nonlinear regression approach to determine the points at which the changing temperature-dependence of relevant physiological processes indicates the onset of limitation. Limitations in ventilation representing the first limits of thermal tolerance (pejus (= “getting worse”) temperatures (Tp)) were recorded at 10.6 (95% confidence interval; 9.5, 11.7), 19.1 (17.9, 20.2), and 21.1 (19.8, 22.4) °C in E. verrucosus, E. cyaneus, and G. lacustris, respectively. Field observations revealed that E. verrucosus retreated from the upper littoral to deeper and cooler waters once its Tp was surpassed, identifying Tp as the ecological thermal boundary. Constraints in oxygen consumption at higher than critical temperatures (Tc) led to an exponential increase in mortality in all species. Exposure to short-term warming resulted in higher threshold values, consistent with a time dependence of thermal tolerance. In conclusion, species-specific limits to oxygen supply capacity are likely key in the onset of constraining (beyond pejus) and then life-threatening (beyond critical) conditions. Ecological consequences of these limits are mediated through behavioral plasticity in E. verrucosus. However, similar upper thermal limits in E. cyaneus (endemic, Baikal) and G. lacustris (ubiquitous, Holarctic) indicate that the potential invader G. lacustris would not necessarily benefit from rising temperatures. Secondary effects of increasing temperatures remain to be investigated
Habitat requirements and ecological niche of two cryptic amphipod species at landscape and local scales

Cryptic species are phylogenetically diverged taxa that are morphologically indistinguishable and may differ in their ecological and behavioral requirements. This may have important implications for ecosystem services and conservation of biodiversity. We investigated whether two ecologically important cryptic species of the freshwater amphipod Gammarus fossarum (types A and B) are associated with different habitats. We collected data on their occurrence at both the landscape scale (large watersheds) and at the local scale (river reach) to compare macro-and microscale environmental parameters associated with their presence. Analysis of the landscape scale data showed that occurrence of types A and B differ with respect to watershed and river size and, interestingly, human impact on river ecomorphology. Whereas type B was mainly found in less forested areas with higher human impact, type A showed the opposite occurrence pattern. Analyses of the local scale data suggested that habitats occupied by type A were characterized by larger gravel, larger stones and less macrophytes than habitats occupied by type B. The landscape and local data set showed contradicting patterns with regard to stream size. Overall, the observed differences between the two types of G. fossarum most likely reflect ecological differences between them, but alternative explanations (e.g., historical colonization processes) cannot be completely ruled out. Our study underlines that common cryptic species can differ in their ecology and response to anthropogenic influence. Such differences in habitat requirements among difficult-to-identify taxa present a challenge for biodiversity and ecosystem management. Our results emphasize the importance of conservative and precautionary approaches in maintenance of habitat diversity and environmental heterogeneity
The relative contribution of climate to changes in lesser prairie-chicken abundance

Citation: Ross, B. E., Haukos, D., Hagen, C., & Pitman, J. (2016). The relative contribution of climate to changes in lesser prairie-chicken abundance. Ecosphere, 7(6), 11. doi:10.1002/ecs2.1323Managing for species using current weather patterns fails to incorporate the uncertainty associated with future climatic conditions; without incorporating potential changes in climate into conservation strategies, management and conservation efforts may fall short or waste valuable resources. Understanding the effects of climate change on species in the Great Plains of North America is especially important, as this region is projected to experience an increased magnitude of climate change. Of particular ecological and conservation interest is the lesser prairie-chicken (Tympanuchus pallidicinctus), which was listed as "threatened" under the U.S. Endangered Species Act in May 2014. We used Bayesian hierarchical models to quantify the effects of extreme climatic events (extreme values of the Palmer Drought Severity Index [PDSI]) relative to intermediate (changes in El Nino Southern Oscillation) and long-term climate variability (changes in the Pacific Decadal Oscillation) on trends in lesser prairie-chicken abundance from 1981 to 2014. Our results indicate that lesser prairie-chicken abundance on leks responded to environmental conditions of the year previous by positively responding to wet springs (high PDSI) and negatively to years with hot, dry summers (low PDSI), but had little response to variation in the El Nino Southern Oscillation and the Pacific Decadal Oscillation. Additionally, greater variation in abundance on leks was explained by variation in site relative to broad-scale climatic indices. Consequently, lesser prairie-chicken abundance on leks in Kansas is more strongly influenced by extreme drought events during summer than other climatic conditions, which may have negative consequences for the population as drought conditions intensify throughout the Great Plains
Plant community response to regional sources of dominant grasses in grasslands restored across a longitudinal gradient

Citation: Wilson, L. R., Gibson, D. J., Baer, S. G., & Johnson, L. C. (2016). Plant community response to regional sources of dominant grasses in grasslands restored across a longitudinal gradient. Ecosphere, 7(4), 16. doi:10.1002/ecs2.1329Restorations in the light of climate change will need to take into account whether or not sources of the dominant plants are adapted to the future conditions at a site. In addition, the effect of these dominants, especially if sourced from outside the local area, on the assembling plant community needs assessment. We investigated how different ecotypes of the tallgrass prairie dominants Andropogon gerardii and Sorghastrum nutans affect assembling prairie communities. Four reciprocal common garden experiments were established across a longitudinal climate gradient characterized by a decrease in aridity in western Kansas (COLBY), central Kansas (HAYS), eastern Kansas (MANHATTAN), and southern Illinois (CARBONDALE). At each site, plots were seeded with ecotypes of A. gerardii and S. nutans sourced from central Kansas (CKS), eastern Kansas (EKS), southern Illinois (SIL), or a mix of all three regional ecotypes (MIX). All plots were also seeded with the same suite of seven subordinate species. Species composition was measured during the fourth year of restoration. The greatest variation between communities occurred at HAYS and CARBONDALE between plots seeded with CKS and SIL ecotypes. At these sites, plots seeded with the local source had the lowest diversity and cover of nondominant species. Compositional variation between plots seeded with different dominant grass ecotypes was found exclusively at CARBONDALE between CKS and SIL plots. Differences between locally seeded plots and plots seeded with a MIX of dominant grass ecotypes were contingent upon site. At CARBONDALE, MIX seeded plots had higher diversity than SIL ecotype plots. Our results indicate that across a wide geographic precipitation gradient, limited but important differences in community assembly occur in restorations established with different ecotypes of the dominant grasses. However, our results also support the use of mixtures of nonlocal ecotypes of dominant grasses in restorations without risk to the assembling plant community. Future studies need to determine the potential for out-breeding effects among seed sources in mixed stands
Distance decay of similarity in fungivorous insect communities: Assessing dispersal limitation using genetic data

We evaluated how dispersal limitation affected spatial variation in the species composition of fungivorous insect communities inhabiting fruiting bodies of bracket fungi on scattered deadwoods. The insect communities showed significant distance decay of similarity pattern among deadwoods, which was not fully explained by differences in environmental conditions. To investigate whether insect dispersal limitation could explain the distance-decay pattern, we analyzed mitochondrial haplotype data; limited dispersal is expected to generate an isolation-by- distance pattern of genetic structure in component species. However, genetic distance between deadwoods was not correlated with geographic distance in any species, and a simulation study suggested that the absence of genetic structure refutes the dispersal limitation hypothesis even when the resolution of genetic differences is not high, as in our study. Thus, dispersal limitation did not contribute to the observed community patterns within our study site, suggesting that unmeasured environmental factors may have played an important role. Our study demonstrates that genetic data can help determine whether dispersal limitation of component species is the primary cause of observed distance decay in community similarity
Harnessing fishery-independent indicators to aid management of data poor fisheries: weighing habitat and fishing effects

State indicators, e.g., mean size and trophic level of the fish assemblage, can provide important insights into the effects of fishing on ecosystems and the resource potential of the fishery. On coral reefs, few studies have examined the relative effects of fishing and other drivers, such as habitat, on these indicators. In light of habitat heterogeneity and increasing habitat degradation, this lack of understanding limits the usefulness of indicators for monitoring the effect of fishery management actions. Identifying thresholds or nonlinearities in relationships between fishing pressure and state indicators has been suggested as a basis for biomass-based targets to support management efforts in low research capacity contexts. Using data collected in Seychelles, we examined the relative influences of fishable biomass (proxy for fishing pressure) and the benthic habitat on fisheries-independent indicators characterizing attributes of the fish community important for fisheries production. We characterized the driver–indicator relationships, and compared local-scale relationships for Seychelles with large-scale relationships published for the Indian Ocean. We found that both habitat and fishing pressure influenced indicators, but habitat effects were particularly strong. This knowledge provides managers with the capacity to implement a diverse array of complementary management actions targeting these drivers. A number of the Seychelles scale driver–indicator relationships were linear, suggesting gradual changes in indicators in response to changes to drivers. This contrasted with relationships published for the Indian Ocean, which were characterized by thresholds below which exploitation is likely to have significant detrimental effects on the functioning of important ecosystem processes. These scale-specific differences are likely driven by the narrower range of fishing pressures found in Seychelles. Importantly, it indicates that, although biomass-based targets derived from large-scale relationships may provide a useful starting point for setting management targets, the local context must be considered