Scaling-up spatially-explicit ecological models using graphics processors

How the properties of ecosystems relate to spatial scale is a prominent topic in current ecosystem research. Despite this, spatially explicit models typically include only a limited range of spatial scales, mostly because of computing limitations. Here, we describe the use of graphics processors to efficiently solve spatially explicit ecological models at large spatial scale using the CUDA language extension. We explain this technique by implementing three classical models of spatial self-organization in ecology: a spiral-wave forming predator-prey model, a model of pattern formation in arid vegetation, and a model of disturbance in mussel beds on rocky shores. Using these models, we show that the solutions of models on large spatial grids can be obtained on graphics processors with up to two orders of magnitude reduction in simulation time relative to normal pc processors. This allows for efficient simulation of very large spatial grids, which is crucial for, for instance, the study of the effect of spatial heterogeneity on the formation of self-organized spatial patterns, thereby facilitating the comparison between theoretical results and empirical data. Finally, we show that large-scale spatial simulations are preferable over repetitions at smaller spatial scales in identifying the presence of scaling relations in spatially self-organized ecosystems. Hence, the study of scaling laws in ecology may benefit significantly from implementation of ecological models on graphics processors.     

Twenty‐One‐Year Simulation of Chesapeake Bay Water Quality Using the CE‐QUAL‐ICM Eutrophication Model

The CE‐QUAL‐ICM (Corps of Engineers Integrated Compartment Water Quality Model) eutrophication model was applied in a 21‐year simulation of Chesapeake Bay water quality, 1985‐2005. The eutrophication model is part of a larger model package and is forced, in part, by models of atmospheric deposition, watershed flows and loads, and hydrodynamics. Results from the model are compared with observations in multiple formats including time series plots, cumulative distribution plots, and statistical summaries. The model indicates only one long‐term trend in computed water quality: light attenuation deteriorates circa 1993 through the end of the simulation. The most significant result is the influence of physical processes, notably stratification and associated effects (e.g., anoxic volume), on computed water quality. Within the application period, physical effects are more important determinants of year‐to‐year variability in computed water quality than external loads.     

Factors affecting male yearly mating success in the common frog,Rana temporaria

Summary The mating behavior of the European common frog, Rana temporaria, was studied experimentally. Female body length was correlated with body mass as well as with fecundity. However, males showed no mating preference with regard to either female body length, body mass, or fecundity. In successive multiple matings, male readiness to re-mate as well as fertilization success did not vary among the first four matings. Further, fertilization success was not correlated with either the number of days since the previous fertilization, water volume in the experimental container, testes mass, female/male body length ratio, or female fecundity. However, there was a positive correlation between fertilization success and male fat reserve status. Sexual competition and mating patterns were studied in tanks in which operational sex ratio (OSR) and male density were manipulated, and time for sexual competition was allowed to vary. Successful take-overs and nonrandom mating (large male advantage) were observed only at a combination of a four-fold male bias in OSR and an unnaturally high male density (30–50/m²). I argue that in natural populations of Rana temporaria: (1) There is considerable intraspecific variation in the opportunity for sexual competition, (2) OSR influences mating pattern more than male density and time (duration of the prespawning period), and (3) nonrandom mating should be rare.     

The radiological impact of atmospheric emissions from oil shale retorts

The radionuclide content of various oil shales, shale oils, and retorting waste products has been studied to determine the extent to which the development of this energy resource may perturb the natural radiation environment. Nearly all of the radioactivity in the raw shale is found in the spent shale after retorting. A primary exposure pathway to the public from this radioactivity will be through the release of particulate matter to the atmosphere during various mining, crushing, and retorting operations. Since the activity of this material is close to that of normal soil, however, the expected radiological impact is small.     

Mapping large areas of radioactively contaminated land with a self adapted, handheld, GPS coupled, scintillation detector

In Belgium, during several decennia, a phosphate plant discharged radium chloride containing waste water into two small rivers. One of those is part of a hydrographically very complex ecosystem with lots of small tributaries and hundreds of hectares of flooding zones. Hence, the river banks and large parts of these flooding zones have become contaminated with radium, heavy metals and chlorides. During a foot campaign, using a home made portable data logging system, consisting of a commercial 2.5 kg NaI detector, a computer mouse sized GPS, and a small pocket PC, the radioactive contamination of about 600 ha of sometimes very rough terrain was measured and mapped. The resulting very detailed radium contamination maps shed a whole new light on the water flow patterns of the ecosystem. The apparatus can also be used for efficiently guiding sampling campaigns for investigating other types of contamination. The ground maps are also compared to existing maps from helicopter measurements, evaluating strengths and weaknesses from both methods.     

Freshwater Mussel Population Status and Habitat Quality in the Clinch River,Virginia and Tennessee,USA: A Featured Collection

The Clinch River of southwestern Virginia and northeastern Tennessee is arguably the most important river for freshwater mussel conservation in the United States. This featured collection presents investigations of mussel population status and habitat quality in the Clinch River. Analyses of historic water‐ and sediment‐quality data suggest that water column ammonia and water column and sediment metals, including Cu and Zn, may have contributed historically to declining densities and extirpations of mussels in the river's Virginia sections. These studies also reveal increasing temporal trends for dissolved solids concentrations throughout much of the river's extent. Current mussel abundance patterns do not correspond spatially with physical habitat quality, but they do correspond with specific conductance, dissolved major ions, and water column metals, suggesting these and/or associated constituents as factors contributing to mussel declines. Mussels are sensitive to metals. Native mussels and hatchery‐raised mussels held in cages in situ accumulated metals in their body tissues in river sections where mussels are declining. Organic compound and bed‐sediment contaminant analyses did not reveal spatial correspondences with mussel status metrics, although potentially toxic levels were found. Collectively, these studies identify major ions and metals as water‐ and sediment‐quality concerns for mussel conservation in the Clinch River.     

Does need matter? Needs assessments and decision‐making among major humanitarian health agencies

Disasters of physical origin, including earthquakes, floods, landslides, tidal waves, tropical storms, tsunamis, and volcanic eruptions, have affected millions of people globally over the past 100 years. Proportionately, there is far greater likelihood of being affected by such disasters in low‐income countries than in high‐income countries. Furthermore, low‐income countries are in need of international assistance following disasters more often than high‐income countries. The funding of international humanitarian assistance has increased from USD 12.9 billion in 2006 to an estimated USD 16.7 billion in 2010. The majority of this funding is channelled through humanitarian agencies and is supposed to be distributed based on the need of those affected, as assessed using needs assessments. Such needs assessments may be used to inform decisions internally, to influence others, to justify response decisions, and to obtain funding. Little is known about the quality of needs assessments in practical applications. Consequently, this paper reports on and analyses the views of operational decision‐makers in major health‐related humanitarian agencies on needs assessments.