Hans Hoheisen Wildlife Research Station hosts international EpiSTIS meetings

During the week of 22 to 25 March 2011, Hans Hoheisen Wildlife Research Station (HHWRS), managed by the Faculty of Veterinary Science, hosted various international meetings of the EpiSTIS project in its recently upgraded auditorium and boardroom/library. These meetings included an Open Science Day, a training workshop as well as the Project's final review meeting.Originally published as HTML file, converted to PDF with Adobe Acrobat 9 Pro Version 9.0.0

Research to enhance protection of livestock against Foot and mouth disease

During the official opening of the Hans Hoheisen Wildlife Research Station (HHWRS) in August 2010, Peace Parks Foundation (PPF) made available R1 million towards priority research concerning veterinary issues in trans-frontier conservation areas. With Foot and Mouth disease (FMD) making the headlines regularly throughout southern Africa, it was no surprise that this disease was chosen as the topic for the research project. Two students have recently been appointed to pursue these objectives through Master's degrees at University of Pretoria's (UP) Departments of Veterinary Tropical Diseases and Production Animal Studies.Originally published as HTML file, converted to PDF with Adobe Acrobat 9 Pro Version 9.0.0

Bone density and calcium and phosphorus content of the giraffe (Giraffa camelopardalis) and African buffalo (Syncerus caffer) skeletons

Apart from its slender appearance, four main factors lead to questions regarding the bone density, mineral content and morphology of the giraffe skeleton: X A rapid vertical growth rate ¡V especially in the neck and metapodials X Biomechanical considerations pertaining to the tall and slender shape of the skeleton X A proportionally larger skeleton in relation to body mass X A seemingly abnormal mineral balance in their diet with possible signs of mineral deficiency (i.e. osteophagia) In this study the skeleton of the giraffe was compared with that of the African buffalo with regards to bone density, skeletal calcium (Ca) and phosphorus (P) content and certain femoral and metacarpal morphological characteristics. The aim was to establish if, compared to buffalo, the features of the giraffe skeleton differed in any unique way. Fourteen similar bones or parts of bones were collected from carcasses of six adult giraffe bulls and nine adult buffalo bulls. These bones were cleaned, weighed and their volume determined through water displacement, from which their density could be calculated. Hereafter, Ca and P content were analysed in 10 bones from each carcass. Morphological characteristics of cross-sections from femoral and metacarpal shafts were also measured. No significant differences between the density or mineral content of bones in the two species could be found. In both species 19,5% Ca and 9,5% P were measured in defatted bone. Although similar in mineral concentration, the giraffe skeleton contains three times more absolute Ca and P, which translates into a 1,5-2-fold higher dietary requirement for these minerals compared to buffaloes. A gradation in the volume and weight of cervical vertebrae was also seen in giraffes. This could hold biomechanical advantage for the carriage and manoeuvrability of the long neck. Bone wall thickness of the giraffe femur and metacarpus is increased compared to buffaloes. This could hold biomechanical advantage for the slender legs that are subjected to increased vertical forces. Adequate Ca seems to be acquired through very specific browse selection, which seems to be of evolutionary origin, while the acquisition of adequate P seems to be critical and a possible cause for osteophagia. This study is the first of its kind in these species and therefore also provide valuable baseline data for future work in this field.Dissertation (MSc (Veterinary Science))--University of Pretoria, 2004.Production Animal Studiesunrestricte

Ecological suitability modeling for anthrax in the Kruger National Park, South Africa

The spores of the soil-borne bacterium, Bacillus anthracis, which causes anthrax are highly resistant to adverse environmental conditions. Under ideal conditions, anthrax spores can survive for many years in the soil. Anthrax is known to be endemic in the northern part of Kruger National Park (KNP) in South Africa (SA), with occasional epidemics spreading southward. The aim of this study was to identify and map areas that are ecologically suitable for the harboring of B. anthracis spores within the KNP. Anthrax surveillance data and selected environmental variables were used as inputs to the maximum entropy (Maxent) species distribution modeling method. Anthrax positive carcasses from 1988±2011 in KNP (n = 597) and a total of 40 environmental variables were used to predict and evaluate their relative contribution to suitability for anthrax occurrence in KNP. The environmental variables that contributed the most to the occurrence of anthrax were soil type, normalized difference vegetation index (NDVI) and precipitation. Apart from the endemic Pafuri region, several other areas within KNP were classified as ecologically suitable. The outputs of this study could guide future surveillance efforts to focus on predicted suitable areas for anthrax, since the KNP currently uses passive surveillance to detect anthrax outbreaks.S1 Table. Worldclim variables used in Maxent model.S2 Table. Overview of environmental data used in Maxent indicating the variables, type of data and source.S1 Fig. Spatially unique cases of Bacillus anthracis and the predicted suitability for B. anthracis occurrence.S2 Fig. Twelve environmental variables used in the final Maxent model.http://www.plosone.orgam2018Production Animal StudiesVeterinary Tropical Disease

Patterns of rabies cases in South Africa between 1993 and 2019, including the role of wildlife

DATA AVAILABILITY STATEMENT : The data that support the findings of this study are openly available in DALRRD. (2019). Rabies Data South Africa from http://www.daff.gov.za/daffweb3/Branches/Agricultural-Production-Health-Food-Safety/Animal-Health/Epidemiology/diseasedatabase], reference number [17].Rabies is a global viral zoonosis endemic to South Africa, resulting in fatal encephalitis in warm-blooded animals, including humans. The loss of human lives and economic losses in rural areas through loss of livestock are substantial. A review was conducted of all confirmed animal rabies cases in South Africa from 1993 to 2019, with a total of 11 701 cases identified to species level to assess the role that wildlife plays in the epidemiology of rabies. A spatio-temporal cluster analysis using a discrete Poisson space-time probability model, accounting for underlying estimated dog and livestock densities, identified 13 significant clusters (p < .05). These included four long-term clusters lasting more than 8 years in duration and seven short-term clusters lasting less than 2 years, with the remaining two clusters being of intermediate length. Outside of these endemic clusters, wildlife outbreaks in the remainder of South Africa were often less than one and a half years in duration most likely due to the rapid decline of wildlife vectors, especially jackals associated with rabies infection. Domestic dogs accounted for 59.8% of cases, with domestic cats (3.2%), livestock (21.1%) and wildlife (15.8%) making up the remainder of the cases. Yellow mongoose (Cynictis penicillata) was the most frequently affected wildlife species, followed by bat-eared fox (Otocyon megalotis), black-backed jackal (Canis mesomelas), meerkat (Suricata suricatta) and aardwolf (Proteles cristatus). Rabies in wildlife species followed different spatial distributions: black-backed jackal cases were more common in the north-western parts of South Africa, yellow mongoose cases more frequent in central South Africa, and bat-eared fox and aardwolf cases were more frequent in southern and western South Africa. Clusters often spanned several provinces, showing the importance of coordinated rabies control campaigns across administrative boundaries, and high-risk areas were highlighted for rabies in South Africa.The South African Veterinary Association Wildlife Group.http://wileyonlinelibrary.com/journal/tbedhj2023Centre for Veterinary Wildlife StudiesProduction Animal StudiesVeterinary Tropical Disease

Spatial partitioning by a subordinate carnivore is mediated by conspecific overlap

There are several hypotheses that could explain territory size in mammals, including the resource dispersion hypothesis (RDH), the intruder pressure hypothesis (IPH), and the intraguild predation hypothesis (IGPH). In this study, we tested predictions of these three hypotheses regarding territories of 19 packs of endangered African wild dogs (Lycaon pictus) over 2 years in the Kruger National Park, South Africa. If territory size was supported by the RDH, then we would observe (1) wild dog territories would be larger when resource patches were more dispersed, (2) pack sizes would be larger when resource patches were rich, and (3) pack size would not affect territory size. If supported by the IPH, then we would observe (4) larger territories would experience less intrusions, and (5) there would be an increase in territory overlap in areas of low resource dispersion. Finally, if supported by the IGPH, we would observe (6) territories would be larger in areas of higher lion (Panthera leo) density, as evidence of a spatial avoidance strategy. We found that the IGPH was fully supported (6), the IPH half supported (5), and the RDH partially supported (1 and 3), where we found spatial partitioning of wild dogs with lions, potentially mediated by resources and territory overlap with conspecifics. Ultimately, our results show that subordinate carnivores must balance a trade-off between dominant interspecific competitors and conspecifics to successfully coexist in areas with dominant carnivores.South African National Parks (SANParks) honorary rangers and the Endangered Wildlife Trust (EWT).http://link.springer.com/journal/4422020-09-18hj2020Mammal Research InstituteZoology and Entomolog

African wild dogs (Lycaon pictus) from the Kruger National Park, South Africa are currently not inbred but have low genomic diversity

African wild dogs (Lycaon pictus) have undergone severe population reductions and are listed as endangered on the International Union for Conservation of Nature Red List. Small, isolated populations have the potential to suffer from threats to their genetic diversity that may impact species viability and future survival. This study provides the first set of population-wide genomic data to address conservation concerns for this endangered species. Whole genome sequencing data were generated for 71 free-ranging African wild dogs from the Kruger National Park (KNP), South Africa, and used to estimate important population genomic parameters. Genomic diversity metrics revealed that variation levels were low; however, this African wild dog population showed low levels of inbreeding. Very few first- and second-order relationships were observed in this cohort, with most relationships falling into the third-order or distant category. Patterns of homozygosity could have resulted from historical inbreeding or a loss in genome variation due to a population bottleneck. Although the results suggest that this stronghold African wild dog population maintains low levels of inbreeding, likely due to their cooperative breeding system, it may lead to a continuous population decline when a reduced number of suitable mates are available. Consequently, the low genomic variation may influence species viability over time. This study highlights the importance of assessing population genomic parameters to set conservation priorities. Future studies should include the investigation of the potential of this endangered species.https://www.nature.com/srepdm2022Veterinary Tropical Disease

Pervasive within-host recombination and epistasis as major determinants of the molecular evolution of the foot-and-mouth disease virus capsid

Although recombination is known to occur in foot-and-mouth disease virus (FMDV), it is considered only a minor determinant of virus sequence diversity. Analysis at phylogenetic scales shows inter-serotypic recombination events are rare, whereby recombination occurs almost exclusively in non-structural proteins. In this study we have estimated recombination rates within a natural host in an experimental setting. African buffaloes were inoculated with a SAT-1 FMDV strain containing two major viral sub-populations differing in their capsid sequence. This population structure enabled the detection of extensive within-host recombination in the genomic region coding for structural proteins and allowed recombination rates between the two sub-populations to be estimated. Quite surprisingly, the effective recombination rate in VP1 during the acute infection phase turns out to be about 0.1 per base per year, i.e. comparable to the mutation/substitution rate. Using a high-resolution map of effective within-host recombination in the capsid-coding region, we identified a linkage disequilibrium pattern in VP1 that is consistent with a mosaic structure with two main genetic blocks. Positive epistatic interactions between co-evolved variants appear to be present both within and between blocks. These interactions are due to intra-host selection both at the RNA and protein level. Overall our findings show that during FMDV co-infections by closely related strains, capsid-coding genes recombine within the host at a much higher rate than expected, despite the presence of strong constraints dictated by the capsid structure. Although these intra-host results are not immediately translatable to a phylogenetic setting, recombination and epistasis must play a major and so far underappreciated role in the molecular evolution of the virus at all scales.File. Supplementary methods and figures. Supplementary Information containing further details on statistical methods, data analysis and evolutionary consequences.Writing – review & editing: Luca Ferretti, Eva Pe´rez-Martı´n, Franc¸ois Maree, Bryan Charleston, Paolo Ribeca.The Pirbright Institute receives grant aided support from the Biotechnology and Biological Sciences Research Council of the United Kingdom (projects BB/E/I/00007035, BB/E/I/ 00007036, BB/E/I/00007032, BBS/E/I/00007039 and grant BB/L011085/1 as part of the joint USDANSF- NIH-BBSRC Ecology and Evolution of Infectious Diseases program).http://www.plospathogens.orgam2020Microbiology and Plant Patholog

Immunological evidence of variation in exposure and immune response to Bacillus anthracis in herbivores of Kruger and Etosha national parks

Exposure and immunity to generalist pathogens differ among host species and vary across spatial scales. Anthrax, caused by a multi-host bacterial pathogen, Bacillus anthracis, is enzootic in Kruger National Park (KNP), South Africa and Etosha National Park (ENP), Namibia. These parks share many of the same potential host species, yet the main anthrax host in one (greater kudu (Tragelaphus strepsiceros) in KNP and plains zebra (Equus quagga) in ENP) is only a minor host in the other. We investigated species and spatial patterns in anthrax mortalities, B. anthracis exposure, and the ability to neutralize the anthrax lethal toxin to determine if observed host mortality differences between locations could be attributed to population-level variation in pathogen exposure and/or immune response. Using serum collected from zebra and kudu in high and low incidence areas of each park (18- 20 samples/species/area), we estimated pathogen exposure from anti-protective antigen (PA) antibody response using enzyme-linked immunosorbent assay (ELISA) and lethal toxin neutralization with a toxin neutralization assay (TNA). Serological evidence of pathogen exposure followed mortality patterns within each system (kudus: 95% positive in KNP versus 40% in ENP; zebras: 83% positive in ENP versus 63% in KNP). Animals in the high-incidence area of KNP had higher anti-PA responses than those in the low-incidence area, but there were no significant differences in exposure by area within ENP. Toxin neutralizing ability was higher for host populations with lower exposure prevalence, i.e., higher in ENP kudus and KNP zebras than their conspecifics in the other park. These results indicate that host species differ in their exposure to and adaptive immunity against B. anthracis in the two parks. These patterns may be due to environmental differences such as vegetation, rainfall patterns, landscape or forage availability between these systems and their interplay with host behavior (foraging or other risky behaviors), resulting in differences in exposure frequency and dose, and hence immune response.NSF Division of Environmental Biology.https://www.frontiersin.org/journals/immunologydm2022Veterinary Tropical Disease

Decision rules for determining terrestrial movement and the consequences for filtering high-resolution global positioning system tracks: a case study using the African lion ( Panthera leo )

The combined use of global positioning system (GPS) technology and motion sensors within the discipline of movement ecology has increased over recent years. This is particularly the case for instrumented wildlife, with many studies now opting to record parameters at high (infra-second) sampling frequencies. However, the detail with which GPS loggers can elucidate fine-scale movement depends on the precision and accuracy of fixes, with accuracy being affected by signal reception. We hypothesized that animal behaviour was the main factor affecting fix inaccuracy, with inherent GPS positional noise (jitter) being most apparent during GPS fixes for non-moving locations, thereby producing disproportionate error during rest periods. A movement-verified filtering (MVF) protocol was constructed to compare GPS-derived speed data with dynamic body acceleration, to provide a computationally quick method for identifying genuine travelling movement. This method was tested on 11 free-ranging lions (Panthera leo) fitted with collar-mounted GPS units and tri-axial motion sensors recording at 1 and 40 Hz, respectively. The findings support the hypothesis and show that distance moved estimates were, on average, overestimated by greater than 80% prior to GPS screening. We present the conceptual and mathematical protocols for screening fix inaccuracy within high-resolution GPS datasets and demonstrate the importance that MVF has for avoiding inaccurate and biased estimates of movement