Genomic erosion in a demographically recovered bird species during conservation rescue

The pink pigeon (Nesoenas mayeri) is an endemic species of Mauritius that has made a remarkable recovery after a severe population bottleneck in the 1970s to early 1990s. Prior to this bottleneck, an ex situ population was established from which captive-bred individuals were released into free-living subpopulations to increase population size and genetic variation. This conservation rescue led to rapid population recovery to 400–480 individuals, and the species was twice downlisted on the International Union for the Conservation of Nature (IUCN) Red List. We analyzed the impacts of the bottleneck and genetic rescue on neutral genetic variation during and after population recovery (1993–2008) with restriction site-associated sequencing, microsatellite analyses, and quantitative genetic analysis of studbook data of 1112 birds from zoos in Europe and the United States. We used computer simulations to study the predicted changes in genetic variation and population viability from the past into the future. Genetic variation declined rapidly, despite the population rebound, and the effective population size was approximately an order of magnitude smaller than census size. The species carried a high genetic load of circa 15 lethal equivalents for longevity. Our computer simulations predicted continued inbreeding will likely result in increased expression of deleterious mutations (i.e., a high realized load) and severe inbreeding depression. Without continued conservation actions, it is likely that the pink pigeon will go extinct in the wild within 100 years. Conservation rescue of the pink pigeon has been instrumental in the recovery of the free-living population. However, further genetic rescue with captive-bred birds from zoos is required to recover lost variation, reduce expression of harmful deleterious variation, and prevent extinction. The use of genomics and modeling data can inform IUCN assessments of the viability and extinction risk of species, and it helps in assessments of the conservation dependency of populations.     

Splitting the tail of the displacement kernel shows the unimportance of kurtosis

Animals disperse in space through different movement behaviors, resulting in different displacement distances. This is often described with a displacement kernel where the long-distance dispersers are within the tail of the kernel. A displacement with a large proportion of long-distance dispersers may have impact on different aspects of spatial ecology such as invasion speed, population persistence, and distribution. It is, however, unclear whether the kurtosis of the kernel plays a major role since a fatter tail also influences the variance of the kernel. We modeled displacement in landscapes with different amounts and configurations of habitats and handled kurtosis and variance separately to study how these affected population distribution and transition time. We conclude that kurtosis is not important for any of these aspects of spatial ecology. The variance of the kernel, on the other hand, was of great importance to both population distribution and transition time. We argue that separating variance and kurtosis can cast new light on the way in which long-distance dispersers are important in ecological processes. Consequences for empirical studies are discussed.     

Interactions among bacterial-feeding nematode species at different levels of food availability

Accurate prediction of the biodiversity–ecosystem functioning relationship requires adequate understanding of the interactions among species in a community. Effects of species diversity on ecosystem functioning are usually considered more pronounced with increasing functional dissimilarity, although species within functional groups may also perform non-identical functions and interact with each other. Here we present results of a laboratory experimental study aimed at elucidating whether interspecific interactions among species within a single nematode trophic group, bacterivores, (1) affect population development and community structure, and (2) depend on food availability. We studied the population growth of Rhabditis (Pellioditis) marina, a rhabditid nematode known to favour very high food densities when in monoculture, and of Diplolaimelloides meyli and D. oschei, congeneric Monhysteridae known to perform better in monocultures at intermediate food availability. Both Diplolaimelloides species showed significantly different patterns of food-density dependence in combination culture compared to monoculture. At very high food availability, the rhabditid nematode facilitated growth of both monhysterid species, probably as a result of down-regulation of bacterial density. At the lowest food availabilities, the presence of even low numbers of monhysterid nematodes lead to exclusion of the rhabditid, which at such low food availability has a very inefficient food uptake. At intermediate food availabilities, abundances of both Diplolaimelloides species were strongly depressed in the combination culture, as a result of food depletion by the rhabditid, indirect inhibitory interactions between the two congeneric species, or both. The complexity of the species interactions render predictions on the outcome and functional consequences of changes in within-trophic-group diversity highly problematic.     

The effect of size and cheliped autotomy on sexual competition between males of the mud crab <Emphasis Type="Italic">Cyrtograpsus angulatus</Emphasis> Dana

Size advantage in male–male competition over mates, combined with male preference over large females, is a common feature that can drive to size assortative mating and, eventually, sexual selection. In crabs, appendage autotomy can affect assortative mating and opportunity for sexual selection by affecting size advantage in mating contests. In this work, we evaluate the effect of size and appendage autotomy in generating assortative mating in the mud crab Cyrtograpsus angulatus. Field observations of guarding pairs in two different populations show a positive correlation between carapace width of males and females in both the populations. In one of the populations, incidence of appendage autotomy was low and the variability in the size of reproductive males was lower than the variability in the size of randomly collected males (i.e. only larger males were successful in getting a female), whereas there was no differences in the other population (i.e. most male sizes were successful) where the incidence of appendage autotomy was very high, indicating that the importance of size is higher when the incidence of autotomy is low. In this context, experiments (in both populations) show that, in contests for a female, larger males outcompete smaller ones only when they had intact appendages. When males had missing chelipeds, winning or loosing against smaller males was random. This may lead to a decrease in the importance of male size in populations with high incidence of cheliped autotomy, affecting assortative mating and opportunity for selection and, thus, affecting selective pressures.     

The effect on dispersal from complex correlations in small-scale movement

Calculations of large-scale displacement distances were made to evaluate the combined effect of small-scale movement pattern of a Collembola, Protaphorura armata. The effect of presence of food and conspecific density on turning angle, step length and activity/motility was investigated. Calculations of net square displacement were made both by assuming correlated random walk (CRW) and by resampling data to account for correlation structures in movement patterns that violate the assumptions of CRW.     

Ammonia emissions from different pig production scales and their temporal variations in the North China Plain

ABSTRACT

Pig production systems in China are shifting from small to industrial scale. Significant variation in housing ammonia (NH₃) emissions can exist due to differences in diet, housing design, and management practices. However, there is a knowledge gap regarding the impacts of farm-scale in China, which may be critical in identifying hotspots and mitigation targets. Here, continuous in-situ NH₃ concentration measurements were made at pig farms of different scales for sows and fattening pigs over periods of 3–6 days during two different seasons (summer vs. winter). For the sow farms, NH₃ emission rates were greater at the small farm (summer: 0.52 g pig^?1 hr^?1; winter: 0.21 g pig^?1 hr^?1) than at the large farm (summer: 0.34 g pig^?1 hr^?1; winter: 0.12 g pig^?1 hr^?1). For the fattening pig farms, NH₃ emission rates were greater at the large farm (summer: 0.22 g pig^?1 hr^?1; winter: 0.16 g pig^?1 hr^?1) than at the small farm (summer: 0.19 g pig^?1 hr^?1; winter: 0.07 g pig^?1 hr^?1). Regardless of farm scale, the NH₃ emission rates measured in summer were greater than those in winter; the NH₃ emission rates were greater in the daytime than at the nighttime; a positive relationship (R² = 0.06–0.68) was established between temperature and NH₃ emission rate, whereas a negative relationship (R² = 0.10–0.47) was found between relative humidity and NH₃ emission rate. The effect of farm-scale on indoor NH₃ concentration could mostly be explained by the differences in ventilation rates between farms. The diurnal variation in NH₃ concentration could be partly explained by ventilation rate (R² = 0.48–0.78) in the small traditional farms and by emission rate (R² = 0.26–0.85) in the large industrial farms, except for the large fattening pig farm in summer. Overall, mitigation of NH₃ emissions from sow farms should be a top priority in the North China Plain.

Implications: The present study firstly examined the farm-scale effect of ammonia emissions in the North China Plain. Of all farms, the sow farm was identified as the greatest source of ammonia emission. Regardless of farm scale, ammonia emission rates were observed to be higher in summer. Ammonia concentrations were mostly higher in the large industrial farms partly due to lower ventilation rates than in the small traditional farms.     

Effect of housing geometry on the performance of Chemcatcher passive sampler for the monitoring of hydrophobic organic pollutants in water

Passive sampling of pollutants in water has been gaining acceptance for environmental monitoring. Previously, an integrative passive sampler (the Chemcatcher) was developed and calibrated for the measurement of time weighted average concentrations of hydrophobic pollutants in water. Effects of physicochemical properties and environmental variables (water temperature and turbulence) on kinetic and thermodynamic parameters characterising the exchange of analytes between the sampler and water have been published. In this study, the effect of modification in sampler housing geometry on these calibration parameters was studied. The results obtained for polycyclic aromatic hydrocarbons show that reducing the depth of the cavity in the sampler body geometry increased the exchange kinetics by approximately twofold, whilst having no effect on the correlation between the uptake and offload kinetics of analytes. The use of performance reference compounds thus avoids the need for extensive re-calibration when the sampler body geometry is modified.     

Sensitivity of two dispersion models (AERMOD and ISCST3) to input parameters for a rural ground-level area source

As of December 2006, the American Meteorological Society/U.S. Environmental Protection Agency (EPA) Regulatory Model with Plume Rise Model Enhancements (AERMOD-PRIME; hereafter AERMOD) replaced the Industrial Source Complex Short Term Version 3 (ISCST3) as the EPA-preferred regulatory model. The change from ISCST3 to AERMOD will affect Prevention of Significant Deterioration (PSD) increment consumption as well as permit compliance in states where regulatory agencies limit property line concentrations using modeling analysis. Because of differences in model formulation and the treatment of terrain features, one cannot predict a priori whether ISCST3 or AERMOD will predict higher or lower pollutant concentrations downwind of a source. The objectives of this paper were to determine the sensitivity of AERMOD to various inputs and compare the highest downwind concentrations from a ground-level area source (GLAS) predicted by AERMOD to those predicted by ISCST3. Concentrations predicted using ISCST3 were sensitive to changes in wind speed, temperature, solar radiation (as it affects stability class), and mixing heights below 160 m. Surface roughness also affected downwind concentrations predicted by ISCST3. AERMOD was sensitive to changes in albedo, surface roughness, wind speed, temperature, and cloud cover. Bowen ratio did not affect the results from AERMOD. These results demonstrate AERMOD's sensitivity to small changes in wind speed and surface roughness. When AERMOD is used to determine property line concentrations, small changes in these variables may affect the distance within which concentration limits are exceeded by several hundred meters.     

Effects of reduced contaminant loading on downgradient water quality in an idealized two-layer granular porous media

The following explores the issue of how reductions in contaminant loading to plumes will effect downgradient water quality. An idealized scenario of two adjacent layers of uniform geologic media, one transmissive and the other low permeability, is considered. A high concentration source, similar to a thin DNAPL pool, is introduced in the transmissive layer immediately above the low permeability layer. While the source is active, dissolved constituents are driven along the contact by advection and into the low permeability layer by transverse diffusion. Removing the source reverses the concentration gradient between the layers, driving back diffusion of contaminants from the low permeability layer. Laboratory studies involving four contaminants demonstrate that 15 to 44% of the introduced contaminant moves into the low permeability zone (along a distance of 87 cm in a sand tank) over a period of 25 days. The greatest movement of contaminants into the low permeability zone is seen with the contaminants with the greatest sorption coefficients. A unique two-dimensional analytical solution is developed for the two-layer scenario. Processes addressed include advection; transverse dispersion; adsorption and degradation in the transmissive zones; and diffusion, adsorption, and degradation in the low permeability layer. Laboratory data agree favorably with the analytical solutions. Collectively, the laboratory results and analytical solutions provide a basis for testing other modeling approaches that can be applied to more complex problems. A set of field-scale scenarios are considered using the analytical solutions. Results indicate that improvement in water quality associated with source removal diminish with distance downgradient of the source. Furthermore, contaminant degradation and contaminant adsorption in the stagnant zone are shown to be critical factors governing the timing and magnitude of downgradient improvements in water quality. For five of six scenarios considered, observed improvements in water quality 100 m downgradient of the source fall in the range of 1 to 2 orders of magnitude 15 years after complete source removal. The sixth scenario, involving a contaminant half-life of three years and no adsorption, shows greater than three order of magnitude improvements in downgradient water quality within one year of source removal.