Implications of network particle tracking (NPT) for ecological model interpretation

Network particle tracking (NPT), building on the foundation of network environ analysis (NEA), is a new development in the definition of coherence relations within and between connected systems. This paper evaluates three ecosystem models in a comparison of throughflow- and storage-based NEA and NPT. Compartments in models with high indirect effects and Finn cycling showed low correlation of NEA storage and throughflow with particle repeat visits and numbers of particles in compartments at steady state. Conversely, the correlation between NEA and NPT results was high with two models having lower indirect effects and Finn cycling. Analysis of ecological orientors associated with NEA showed NPT to fully support conventional NEA results when the common conditions of donor control and steady state are satisfied. Particle trajectories are recorded in the new concept of a particle “passport”. Ability to track and record particle in-system histories enables views of multiple scales and opens the possibility of making pathway-dependent modeling decisions. NPT may also enable modeling of time, allowing integration of Newtonian, organismal and stochastic modeling perspectives in a single comprehensive analysis.     

Evaluating impacts of forage fish abundance on marine predators

Forage fish—small, low trophic level, pelagic fish such as herrings, sardines, and anchovies—are important prey species in marine ecosystems and also support large commercial fisheries. In many parts of the world, forage fish fisheries are managed using precautionary principles that target catch limits below the maximum sustainable yield. However, there are increasing calls to further limit forage fish catch to safeguard their fish, seabird, and marine mammal predators. The effectiveness of these extra-precautionary regulations, which assume that increasing prey abundance increases predator productivity, are under debate. In this study, we used prey-linked population models to measure the influence of forage fish abundance on the population growth rates of 45 marine predator populations representing 32 fish, seabird, and mammal species from 5 regions around the world. We used simulated data to confirm the ability of the statistical model to accurately detect prey influences under varying levels of influence strength and process variability. Our results indicate that predator productivity was rarely influenced by the abundance of their forage fish prey. Only 6 predator populations (13% of the total) were positively influenced by increasing prey abundance and the model exhibited high power to detect prey influences when they existed. These results suggest that additional limitation of forage fish harvest to levels well below sustainable yields would rarely result in detectable increases in marine predator populations.     

Long-term drivers of persistence and colonization dynamics in spatially structured amphibian populations

Many organisms live in networks of local populations connected by dispersing individuals, called spatially structured populations (SSPs), where the long-term persistence of the entire network is determined by the balance between 2 processes acting at the scale of local populations: extinction and colonization. When multiple threats act on an SSP, a comparison of the different factors determining local extinctions and colonizations is essential to plan sound conservation actions. We assessed the drivers of long-term population dynamics of multiple amphibian species at the regional scale. We used dynamic occupancy models within a Bayesian framework to identify the factors determining persistence and colonization of local populations. Because connectivity among patches is fundamental to SSPs dynamics, we considered 2 measures of connectivity acting on each focal patch: incidence of the focal species and incidence of invasive crayfish. We used meta-analysis to summarize the effect of different drivers at the community level. Persistence and colonization of local populations were jointly determined by factors acting at different scales. Persistence probability was positively related to the area and the permanence of wetlands, whereas it was negatively related to occurrence of fish. Colonization probability was highest in semipermanent wetlands and in sites with a high incidence of the focal species in nearby sites, whereas it showed a negative relationship with the incidence of invasive crayfish in the landscape. By analyzing long-term data on amphibian population dynamics, we found a strong effect of some classic features commonly used in SSP studies, such as patch area and focal species incidence. The presence of an invasive non-native species at the landscape scale emerged as one of the strongest drivers of colonization dynamics, suggesting that studies on SSPs should consider different connectivity measures more frequently, such as the incidence of predators, especially when dealing with biological invasions.     

In the mixed world of predictive biology—Contradiction or support

Statistical prediction is a tool and aim in ecology and wildlife management and conservation. A prediction may either be supported by or contradicted by observations of an unknown set of observations. A contradiction occurs if the prediction is not included within the range of the unknown observations, i.e. the prediction misses the cloud of observations completely. Mixed-effects models, frequently used for statistical assessment of clustered data, carry information needed for calculating the probability of such contradictions. Here we present a new versatile statistic, the probability of contradiction (P (Contra)), that describes how often we would anticipate a new cluster of observations contradicting our predictions. Some benefits of P (Contra) are: (1) easy to calculate and intuitive interpretation, (2) comparability between datasets, (3) inclusion of residual correlation, (4) summary of the multitude of information from mixed models into one statistics, and (5) applicable to local mixed-effect models.     

High-resolution inventory of NO emissions from agricultural soils over the Ile-de-France region

Arable soils are a significant source of nitric oxide (NO), a precursor of tropospheric ozone, and thereby contribute to ozone pollution. However, their actual impact on ozone formation is strongly related to their spatial and temporal emission patterns, which warrant high-resolution estimates.Here, we combined an agro-ecosystem model and geo-referenced databases to map these sources over the 12 000 km² administrative region surrounding Paris, France, with a kilometric level resolution. The six most frequent arable crop species were simulated, with emission rates ranging from 1.4 kg N-NO ha⁻¹ yr⁻¹ to 11.1 kg N-NO ha⁻¹ yr⁻¹. The overall emission factor for fertilizer-derived NO emissions was 1.7%, while background emissions contributed half of the total NO efflux. Emissions were strongly seasonal, being highest in spring due to fertilizer inputs. They were mostly sensitive to soil type, crops' growing season and fertilizer N rates.     

Loss of Large Predatory Sharks from the Mediterranean Sea

Abstract:  Evidence for severe declines in large predatory fishes is increasing around the world. Because of its long history of intense fishing, the Mediterranean Sea offers a unique perspective on fish population declines over historical timescales. We used a diverse set of records dating back to the early 19th and mid 20th century to reconstruct long-term population trends of large predatory sharks in the northwestern Mediterranean Sea. We compiled 9 time series of abundance indices from commercial and recreational fishery landings, scientific surveys, and sighting records. Generalized linear models were used to extract instantaneous rates of change from each data set, and a meta-analysis was conducted to compare population trends. Only 5 of the 20 species we considered had sufficient records for analysis. Hammerhead ( Sphyrna spp.), blue ( Prionace glauca ), mackerel ( Isurus oxyrinchus and Lamna nasus ), and thresher sharks ( Alopias vulpinus ) declined between 96 and 99.99% relative to their former abundance. According to World Conservation Union (IUCN) criteria, these species would be considered critically endangered. So far, the lack of quantitative population assessments has impeded shark conservation in the Mediterranean Sea. Our study fills this critical information gap, suggesting that current levels of exploitation put large sharks at risk of extinction in the Mediterranean Sea. Possible ecosystem effects of these losses involve a disruption of top-down control and a release of midlevel consumers.     

Assessing the strength of climate and land-use influences on montane epiphyte communities

Epiphytes, air plants that are structurally dependent on trees, are a keystone group in tropical forests; they support the food and habitat needs of animals and influence water and nutrient cycles. They reach peak diversity in humid montane forests. Climate predictions for Central American mountains include increased temperatures, altered precipitation seasonality, and increased cloud base heights, all of which may challenge epiphytes. Although remaining montane forests are highly fragmented, many tropical agricultural systems include trees that host epiphytes, allowing epiphyte communities to persist even in landscapes with lower forest connectivity. I used structural equations models to test the relative effects of climate, land use, tree characteristics, and biotic interactions on vascular epiphyte diversity with data from 31 shade coffee farms and 2 protected forests in northern Nicaragua. I also tested substrate preferences of common species with randomization tests. Tree size, tree diversity, and climate all affected epiphyte richness, but the effect of climate was almost entirely mediated by bryophyte cover. Bryophytes showed strong sensitivity to mean annual temperature and insolation. Many ferns and some orchids were positively associated with bryophyte mats, whereas bromeliads tended to establish among lichen or on bare bark. The tight relationships between bryophytes and climate and between bryophytes and vascular epiphytes indicated that relatively small climate changes could result in rapid, cascading losses of montane epiphyte communities. Currently, shade coffee farms can support high bryophyte cover and diverse vascular epiphyte assemblages when larger, older trees are present. Agroforests serve as valuable reservoirs for epiphyte biodiversity and may be important early-warning systems as the climate changes.     

ESTIMATION OF LONG-TERM DISCHARGE STATISTICS BY REGIONAL ADJUSTMENT1

ABSTRACT: A regional adjustment relationship was developed to estimate long-term (30-year) monthly median discharges from short term (three-year) records. This method differs from traditional approaches in that it is based on site-specific discharge data but does not require correlation of these data with discharges from a single hydrologically similar long-term gage. The method is shown to be statistically robust, and applicable to statistics other than the median.     

Validation of the UK Met. Office’s name model against the ETEX dataset

The ETEX 1 data set has been used to assess the performance of the UK Met Office’s long-range dispersion model NAME. In terms of emergency response modelling the model performed well, successfully predicting the overall spread and timing of the plume across Europe. However, in common with most other models, NAME overpredicted the observed concentrations. This is in contrast with other NAME validation studies which indicate either no significant bias or a tendency to underpredict concentrations. This suggests the reasons for overpredicting are specific to the ETEX situation. Explanations include inadequate vertical diffusion or transport, possible venting by convective activity, and experimental errors. An assessment of a range of advection schemes of varying complexity indicated no clear advantage, at present, in using more sophisticated random walk techniques at long range, a simple diffusion coefficient based scheme providing some of the best results. A brief look is also taken at a simulation of the more problematical ETEX 2 release.     

A metapopulation approach of the dynamics of arthropods from Mediterranean-type ecosystems

In this paper we developed a general stage-structured, Leslie-type model, suitable to simulate dynamics of soil arthropods under typical Mediterranean conditions. In order to explore arthropods’ life-history strategies in relation to enhanced spatial heterogeneity of the Mediterranean ecosystems, metapopulation characteristics were considered and different habitat quality regimes, in terms of dominant microclimatic conditions, were taken into account. Environmental stochasticity in temperature and humidity was incorporated into the model, and an elasticity analysis was conducted to quantify contribution of different life-history traits to metapopulation growth rate. The application of the model revealed well-known life-cycle characteristics of Mediterranean arthropods, such as seasonally fluctuating population sizes and skewing phenologies, a fact that confirms models’ reliability. Furthermore, the model seems able to elucidate controversial points of the animals’ life-cycle development, such as the long-term maintenance of populations in the field and the underlying mechanisms related to the adjustment to the specific features of the Mediterranean ecosystem. Subpopulations inhabiting various microsites display different dynamics and the interaction between these subpopulations, via dispersion, seems to be able to ensure stochastic equilibrium for the system. Dispersal appears to play a decisive role, allowing arthropods to conform to spatial severities and habitats fragmentation, rescuing individuals and recolonizing previously extinct habitats.