Ruminating on complexity: macroparasites of wildlife and livestock

Recent advances in ecology have improved our understanding of the role of parasites in the dynamics of wildlife populations. However, conditions that prevail in many wildlife systems, such as host movement, contact with livestock, and heterogeneity in the environment of the parasite outside of the host, have largely been ignored in existing models of macroparasite transmission. We need to refine these models if we are to stand a chance of developing effective parasite control strategies. New quantitative approaches enable us to address key complexities and make better use of scarce data, and these should enhance our efforts to understand and control emerging problems of interspecific parasite transmission.     

Infectious disease transmission and contact networks in wildlife and livestock

The use of social and contact networks to answer basic and applied questions about infectious disease transmission in wildlife and livestock is receiving increased attention. Through social network analysis, we understand that wild animal and livestock populations, including farmed fish and poultry, often have a heterogeneous contact structure owing to social structure or trade networks. Network modelling is a flexible tool used to capture the heterogeneous contacts of a population in order to test hypotheses about the mechanisms of disease transmission, simulate and predict disease spread, and test disease control strategies. This review highlights how to use animal contact data, including social networks, for network modelling, and emphasizes that researchers should have a pathogen of interest in mind before collecting or using contact data. This paper describes the rising popularity of network approaches for understanding transmission dynamics in wild animal and livestock populations; discusses the common mismatch between contact networks as measured in animal behaviour and relevant parasites to match those networks; and highlights knowledge gaps in how to collect and analyse contact data. Opportunities for the future include increased attention to experiments, pathogen genetic markers and novel computational tools.     

Neutralizing antirabies antibodies in urban terrestrial wildlife in Brazil

The prevalence of rabies neutralizing antibodies (NA) in sera of wild animals from S?o Paulo City (Brazil) was investigated using the Rapid Fluorescent Focus Inhibition Test between 1994 and 1997. Sera from 547 specimens were examined. Marsupials represented 45% of the sample and primates 37%; carnivores, rodents, deer and edentates represented 6, 6, 3 and 2%, respectively. The overall prevalence of NA was 14%. The prevalence of NA was 18% in primates; whereas in marsupials, carnivores, edentates and rodents it was 13, 9, 8 and 6%, respectively. The stratification according to sex, age, and site of capture of the marsupials and primates showed a small predominance in males versus females and a large predominance of adults versus juveniles. The same relationship was seen in specimens captured near human habitations versus specimens captured in their own habitat. It is evident that there is circulation of rabies virus in wild animals, which are not recommended as pets since they represent a potential risk of exposure to rabies virus for both humans and domestic animals.     

A structured analysis of risk to important wildlife elements in three Australian Wildlife Conservancy sanctuaries

Where data and information are lacking, structured expert risk assessments can provide a powerful tool to progress natural resource planning. In many situations, practitioners make informal assessments of risk within small groups that typically constitute employees. In this study, we report on three small (in terms of experts) structured expert‐based risk assessment case studies conducted by expert employees of a not‐for‐profit organisation (Australian Wildlife Conservancy) to demonstrate the utility of the approach. The case studies were carried out for three wildlife sanctuaries managed by AWC: Faure Island, Karakamia and Paruna. The likelihood that a set of direct risk factors would cause management failure for sets of important wildlife elements in the three sanctuaries was elicited from the small group of ecological experts. The analysis was couched in terms of a management aim to not lose species from each wildlife element over the management period of 25 years with current management. The experts believed, in particular, that increasing temperature and decreasing water availability associated with climate change were likely to impact significantly upon the vegetation elements and water‐reliant fauna associated with the sanctuaries. Some vegetation elements were also thought likely to be at risk of over‐grazing, unsuitable fire regimes and, in some cases, disease. In addition to predation by exotic predators at one sanctuary, the experts identified additional direct risk factors for various fauna elements associated with expected changes to the vegetation elements, including reduction in food availability, nesting habitat, and generally important life media. From the risk analyses, a preliminary conceptual model was developed to underpin monitoring and to indicate areas for possible management intervention and research. The case studies demonstrate that even in a small workplace team, structured risk assessments can be efficiently accomplished and can provide expedient and transparent information that effectively captures and aggregates the views of the experts.     

Prevalence of antibody to Toxoplasma gondii in terrestrial wildlife in a natural area

We conducted a cross-sectional study from 2008 to 2009 to evaluate the occurrence of feral and wild cats and the risk of Toxoplasma gondii infection in terrestrial wildlife in a natural area in Illinois, USA. Felids are definitive hosts for T. gondii and cats are a key component of rural and urban transmission of T. gondii. We selected four forest sites within the interior of the park and four edge sites within 300 m of human buildings. Feline and wildlife occurrence in the natural area was determined with the use of scent stations, motion-detection cameras, and overnight live trapping. Based on scent stations and trapping, feral cats used building sites more than forest sites (scent stations: P=0.010; trapping: P=0.083). Prevalence of T. gondii antibodies was determined with the use of the indirect immunofluorescent antibody test (IFAT) with a titer of 1:25 considered positive; T. gondii antibodies were detected in wildlife at all sites. Wildlife species were classified as having a large home range (LHR) or a small home range (SHR), based on published estimates and using a cutoff of 100 ha. Small-home-range mammals had a higher prevalence of antibody to T. gondii (odds ratio [OR]=4.2; P=0.018) at sites with a high frequency of cat occurrence (defined as ≥ 9 cat occurrences across three detection methods); this finding indicates that feral cats are the most likely source of environmental contamination. Overall, the prevalence of antibody to T. gondii among LHR mammals was significantly higher than the prevalence among SHR mammals (OR=7.1; P<0.001). Small-home-range mammals are an essential part of T. gondii-antibody prevalence studies and can be used as sentinels for risk of disease exposure to humans and wildlife in natural areas. This study improves our understanding of ecologic drivers behind the occurrence of spatial variation of T. gondii within a natural area.     

Model–data synthesis in terrestrial carbon observation: methods, data requirements and data uncertainty specifications

Systematic, operational, long‐term observations of the terrestrial carbon cycle (including its interactions with water, energy and nutrient cycles and ecosystem dynamics) are important for the prediction and management of climate, water resources, food resources, biodiversity and desertification. To contribute to these goals, a terrestrial carbon observing system requires the synthesis of several kinds of observation into terrestrial biosphere models encompassing the coupled cycles of carbon, water, energy and nutrients. Relevant observations include atmospheric composition (concentrations of CO₂ and other gases); remote sensing; flux and process measurements from intensive study sites; in situ vegetation and soil monitoring; weather, climate and hydrological data; and contemporary and historical data on land use, land use change and disturbance (grazing, harvest, clearing, fire). A review of model–data synthesis tools for terrestrial carbon observation identifies ‘nonsequential’ and ‘sequential’ approaches as major categories, differing according to whether data are treated all at once or sequentially. The structure underlying both approaches is reviewed, highlighting several basic commonalities in formalism and data requirements. An essential commonality is that for all model–data synthesis problems, both nonsequential and sequential, data uncertainties are as important as data values themselves and have a comparable role in determining the outcome. Given the importance of data uncertainties, there is an urgent need for soundly based uncertainty characterizations for the main kinds of data used in terrestrial carbon observation. The first requirement is a specification of the main properties of the error covariance matrix. As a step towards this goal, semi‐quantitative estimates are made of the main properties of the error covariance matrix for four kinds of data essential for terrestrial carbon observation: remote sensing of land surface properties, atmospheric composition measurements, direct flux measurements, and measurements of carbon stores.     

The economic costs of wildlife predation on livestock in Gokwe communal land, Zimbabwe

In areas bordering wildlife reserves in Zimbabwe, agro-pastoralists suffer livestock depredation by wild carnivores. However, the economic value of these losses, and therefore the levels of compensation required has never been calculated. Between January 1993 and June 1996 in a 33-km² area of Gokwe communal land bordering the Sengwa Wildlife Research Area, 241 livestock were killed by wild carnivores. Baboons ( Papio ursinus Kerr), lions ( Panthera leo Linnaeus) and leopards ( P. pardus Linnaeus) were the most serious predators, contributing 52%, 34% and 12% of kills, respectively. Baboons only killed young goats ( Capra hircus Linnaeus) and sheep ( Ovis aries Linnaeus) by day, while lions and leopards jumped into fortified kraals at night and killed cattle ( Bos indicus Linnaeus), donkeys ( Equus asinus Linnaeus) and smallstock. In 1995, predators killed 5% of livestock holdings, double that recorded by other African studies. The annual total value of losses depended upon the degree of lion predation on the most valuable species, cattle and donkeys. The average annual loss per livestock-owning household was US$13, or 12% of each household's net annual income. Losses could be reduced by improving kraal defences against lion and leopard predation in the dry season, when attacks were most common.     

Background concentration of 226Ra in terrestrial animals

Evidence that environmental levels of vanadium are increasing hasraised concern over the injection of vanadium into the environmentfrom anthropogenic sources. Two simple global mass balance models(simulating current and pre-industrial conditions) were developed todemonstrate the influence of anthropogenic vanadium on the globaldistribution of this trace metal. Current vanadium emissions owing toman's current industrial activities were estimated to comprise 30% oftotal atmosphere loading, 3% of total ocean loading, and 6% of totalland loading. These loadings were always considerably less than thoseresulting from non-anthropogenic sources or events. Differences notedbetween the pre-industrial and current models were not sufficientlygreat to suggest that injection of anthropogenic vanadium constitutes asignificant environmental threat on a global scale.     

A compilation of soybean ESTs: generation and analysis.

Whole-genome sequencing is fundamental to understanding the genetic composition of an organism. Given the size and complexity of the soybean genome, an alternative approach is targeted random-gene sequencing, which provides an immediate and productive method of gene discovery. In this study, more than 120000 soybean expressed sequence tags (ESTs) generated from more than 50 cDNA libraries were evaluated. These ESTs coalesced into 16928 contigs and 17336 singletons. On average, each contig was composed of 6 ESTs and spanned 788 bases. The average sequence length submitted to dbEST was 414 bases. Using only those libraries generating more than 800 ESTs each and only those contigs with 10 or more ESTs each, correlated patterns of gene expression among libraries and genes were discerned. Two-dimensional qualitative representations of contig and library similarities were generated based on expression profiles. Genes with similar expression patterns and, potentially, similar functions were identified. These studies provide a rich source of publicly available gene sequences as well as valuable insight into the structure, function, and evolution of a model crop legume genome.     

Nutrient concentration ratios and co-limitation in South African grasslands

*Assessing plant nutrient limitation is a fundamental part of understanding grassland dynamics. The ratio of concentrations of nitrogen (N) and phosphorus (P) in vegetation has been proposed as an index of the relative limitation of biomass production by N and P, but its utility has not been tested well in grasslands. *At five sites in Kruger National Park, South Africa, across soil and precipitation contrasts, N and P were added in a factorial design to grass-dominated plots. *Although the N:P ratio of unfertilized vegetation across all sites (5.8) would have indicated that production was N-limited, aboveground production was consistently co-limited by N and P. Aboveground production was still greater in plots fertilized with N and P than in those fertilized with just N, but the N:P ratio did not exceed standard thresholds for P limitation in N-fertilized vegetation. Comparisons among sites showed little pattern between site N:P ratio and relative responses to N and P. *When combined with results from other grassland fertilization studies, these data suggest that the N:P ratio of grasses has little ability to predict limitation in upland grasslands. Co-limitation between N and P appears to be much more widespread than would be predicted from simple assumptions of vegetative N:P ratios.     

Human–wildlife conflicts in a fragmented Amazonian forest landscape: determinants of large felid depredation on livestock

Most large carnivore species are in global decline. Conflicts with people, particularly over depredation on small and large livestock, is one of the major causes of this decline. Along tropical deforestation frontiers, large felids often shift from natural to livestock prey because of their increased proximity to human agriculture, thus increasing the likelihood of conflicts with humans. On the basis of data from 236 cattle ranches, we describe levels of depredation by jaguars Panthera onca and pumas Puma concolor on bovine herd stocks and examine the effects of both landscape structure and cattle management on the spatial patterns and levels of predation in a highly fragmented forest landscape of southern Brazilian Amazonia. Generalized linear models showed that landscape variables, including proportion of forest area remaining and distance to the nearest riparian forest corridor, were key positive and negative determinants of predation events, respectively. We detected clear peaks of depredation during the peak calving period at the end of the dry season. Bovine herd size and proportion of forest area had positive effects on predation rates in 60 cattle ranches investigated in more detail. On the other hand, distance from the nearest riparian forest corridor was negatively correlated with the number of cattle predated. The mean proportion of cattle lost to large felids in 24 months for the region varied according to the herd class size (<500: 0.82%; 500–1500: 1.24%; >1500: 0.26%) but was never greater than 1.24%. The highest annual monetary costs were detected in large cattle ranches (>1500 head of cattle), reaching US$ 885.40. Patterns of depredation can be explained by a combination of landscape and livestock management variables such as proportion of forest area, distance to the nearest riparian corridor, annual calving peak and bovine herd size.     

Plant responses to livestock grazing frequency in an Australian temperate grassland

Livestock grazing is often thought to enhance native plant species co-existence in remnant grasslands but may also favour exotic invaders. Recommendations for appropriate grazing strategies are needed, for which an understanding of the response of plant species is necessary. We explored the response of plant species and plant functional groups to grazing in temperate grassland of the Monaro Tablelands of south-east Australia by comparing species abundance in adjacent areas that differed in livestock grazing regime (minimal, infrequent and frequent). We also examined whether species with similar responses to grazing share certain traits and consider whether these traits might provide a useful method of assessing grazing impact. At the scale measured (0.25 m²), an infrequent grazing regime maximised plant species co-existence in these grasslands due to widespread invasion by exotic plant species at infrequent grazing intensity. Many native species declined in abundance when grazing frequency increased from minimal to infrequent. Annuals invaded under infrequent grazing while perennials declined most strongly under high frequency grazing. Low levels of grazing apparently reduce cover and create sites suitable for seed recruitment whereas more frequent grazing reduces the persistence of perennials. While there was a tendency for native species to be more susceptible to grazing impact than exotics, plant traits, in particular longevity (perennial, annual) provided a better prediction of the response of plants to grazing. Although a few native plant species persisted at high grazing frequency, even infrequent livestock grazing may not be appropriate for the conservation of many native perennial grassland species. Targeted reductions in grazing frequency may be necessary to enable the long-term coexistence of grazing susceptible species.     

Estimating space-use and habitat preference from wildlife telemetry data

Management and conservation of populations of animals requires information on where they are, why they are there, and where else they could be. These objectives are typically approached by collecting data on the animals' use of space, relating these positional data to prevailing environmental conditions and employing the resulting statistical models to predict usage at other geographical regions. Technical advances in wildlife telemetry have accomplished manifold increases in the amount and quality of available data, creating the need for a statistical framework that can use them to make population‐level inferences for habitat preference and space‐use. This has been slow‐in‐coming because wildlife telemetry data are spatio‐temporally autocorrelated, often unbalanced, presence‐only observations of behaviourally complex animals, responding to a multitude of cross‐correlated environmental variables. We review the evolution of regression models for the analysis of space‐use and habitat preference and outline the essential features of a framework that emerges naturally from these foundations. This allows us to derive a relationship between usage of points in geographical space and preference of habitats in environmental space. Within this framework, we discuss eight challenges, inherent in the spatial analysis of telemetry data and, for each, we propose solutions that can work in tandem. Specifically, we propose a logistic, mixed‐effects approach that uses generalized additive transformations of the environmental covariates and is fitted to a response data‐set comprising the telemetry and simulated observations, under a case‐control design. We apply this framework to a non‐trivial case‐study using satellite‐tagged grey seals Halichoerus grypus from the east coast of Scotland. We perform model selection by cross‐validation and confront our final model's predictions with telemetry data from the same, as well as different, geographical regions. We conclude that, despite the complex behaviour of the study species, flexible empirical models can capture the environmental relationships that shape population distributions.