The African buffalo (Syncerus caffer) is a member of one of Africa’s most well known tourist attractions and unique grouping of mammals – the ‘big five’. Historical records indicate that during the 19th century approximately 3 million African buffaloes inhabited almost the whole of sub-Saharan Africa. Several factors such as disease, habitat fragmentation, over-hunting and drought reduced the buffalo population to approximately 400 000 by 1990. The African buffalo is host to a variety of sub-acute diseases, such as bovine tuberculosis (BTB), foot-and-mouth disease (FMD) and corridor disease (CD). Disease is an important factor which influenced African buffalo populations throughout the continent and more specifically the Kruger National Park (KNP) and is largely responsible for the fact that buffaloes are restricted to enclosed areas with strict regulations imposed on their movement. The social organization of animals influences the distribution and spread of a disease - especially in the case of the African buffalo in the KNP. The emergence of BTB in the largest conservation area in South Africa (the KNP), threatens wild and domestic animals and humans who are in close proximity to the Park. The potential economic losses associated with this disease are excessive. The results presented in this thesis provide baseline information into the genetic status of sampled African buffaloes in the KNP, genetic relatedness between sampled individuals as well as BTB associations between sampled African buffaloes in the KNP, based on a limited dataset of 181 animals. Twelve microsatellite markers were used to evaluate 181 samples which were collected from 39 locations dispersed throughout the KNP. Specific population genetic parameters revealed information based on the intra and inter - relationships at the ‘per population’ level as well as at the ‘per prevalence group’ level. Evidence indicates a medium to high level of genetic diversity, a low to medium level of inbreeding (inbreeding coefficient (Fis) for each group ranges between 0.143 and 0.147) and a relatively high level of migration for buffaloes associated with each prevalence group. Pairwise relatedness estimates were determined between individuals, to reveal their level of relatedness (unrelated, full siblings, parent-offspring or half siblings), based on Queller and Goodnight’s (1989) coefficient of relatedness. Relatedness was determined on different levels, intra and interpopulation level, BTB infected and BTB uninfected group level as well as prevalence group levels. Evaluation of data based on these different levels and between different groups, painted an overall picture of the disease condition and genetic relatedness within and between sampled BTB infected and BTB uninfected buffaloes. Evidence indicated that the greater majority of our sampled African buffaloes (BTB infected or uninfected), were genetically unrelated (in terms of sibling and parent-offspring relationships), irrespective of their disease status. M. bovis infected buffaloes sampled and used in our study are not more closely related to each other than to uninfected buffaloes in the same population or prevalence group. / Dissertation (MSc)--University of Pretoria, 2010. / Production Animal Studies / unrestricted

Les maladies animales émergentes, les maladies zoonotiques et le développement du commerce international ont conduit à une augmentation des besoins en systèmes de surveillance en santé animale performants. Toutefois, le contexte économique actuel conduit à des restrictions budgétaires importantes, induisant une diminution des ressources allouées à la surveillance. Dans ce contexte, l’évaluation régulière des dispositifs de surveillance, sur lesquels sont fondées les décisions sanitaires, est indispensable afin de vérifier leur bon fonctionnement, la qualité des données collectées, et permettre leur amélioration.Notre travail a porté sur l’évaluation d’un dispositif de surveillance complexe, Sylvatub, le dispositif de surveillance de l’infection à Mycobacterium bovis dans la faune sauvage, constitué de plusieurs composantes de surveillance et ciblant plusieurs espèces sauvages. Nous avons appliqué quatre méthodes d’évaluation : (i) une méthode quantitative d’estimation de la sensibilité de la surveillance par arbres de scénarios, (ii) une méthode quantitative d’estimation des coûts de la surveillance, permettant le calcul d’un ratio coût-efficacité, (iii) une méthode semi-quantitative permettant l’étude du fonctionnement général du dispositif et (iv) une méthode qualitative permettant d’investiguer l’acceptabilité de la surveillance. Ces travaux ont permis d’évaluer le dispositif Sylvatub dans son contexte environnemental et économique, en intégrant des facteurs comportementaux et sociaux, et ont permis la formulation de recommandations pour l’évolution du dispositif et son amélioration.Ces travaux ont également permis de souligner les avantages méthodologiques et opérationnels de l’utilisation complémentaire de plusieurs méthodes pour l’évaluation de dispositifs de surveillance complexes et proposent des perspectives méthodologiques pour favoriser l’intégration des méthodes d’évaluation. L’évaluation du dispositif Sylvatub devra être poursuivie et complétée par celle du dispositif de surveillance en élevage bovin afin d’étudier les interconnexions entre les populations domestiques et sauvages dans ce système multi-hôtes particulier. / Emerging animal diseases, zoonotic diseases and the development of international trade have led to an increase in the need for efficient animal health surveillance systems. However, the current economic environment led to significant budget cuts, resulting in a reallocation of resources dedicated to surveillance. In this context, regular evaluation of surveillance systems, on which are based the health decisions, is essential to ensure their operation, the quality of the collected data and to allow their improvement.This study focused on the evaluation of a complex surveillance system, the Sylvatub network for the surveillance of Mycobacterium bovis infection in wildlife, which consists of several surveillance components focusing on several wild species. We have used four evaluation methods: (i) a quantitative method to estimate the surveillance sensitivity by scenario trees modelling, (ii) a quantitative method to estimate the surveillance costs, enabling the estimation of a cost-effectiveness ratio, (iii) a semi-quantitative method to estimate the global operation of the system, and (iv) a qualitative method to investigate the acceptability of the surveillance. This study allowed to assess the Sylvatub network in its environmental and economical context, with the integration of behavioral and social factors; and allowed the development of recommendations for the evolution of the surveillance system and its improvement.This study has highlighted the methodological and operational advantages of the complementary use of several methods for the evaluation of complex surveillance systems. It provides methodological perspectives to support the integration of evaluation methods. The assessment of the Sylvatub system should be deepened and complemented by the evaluation of the surveillance system in cattle to explore interconnections between domestic and wild populations in this particular multi-host system.

The eco-epidemiology of bovine tuberculosis (Tb) in wild deer (mainly red deer Cervus elaphus) in New Zealand was investigated. Bovine Tb is caused by Mycobacterium bovis. Specific aims were to clarify the likely routes of infection in deer, and to determine the status of deer as hosts of Tb, the likely rates and routes of inter- and intra-species transmission between deer and other wildlife hosts, the role of deer in spreading Tb, and the likely utility of deer as sentinels of Tb presence in wildlife. As the possum (Trichosurus vulpecula) is the main wildlife host of Tb, the research also included some investigation of transmission routes in possums. Patterns of infection were measured in 994 deer killed between 1993 and 2003. Tb prevalence varied between areas (range 8–36%). Few deer had generalised infection, with 21–68% of infected deer having no visible lesions, depending on the area. The retropharyngeal lymph nodes and oropharyngeal tonsils were commonly infected. No dependent fawns less than 0.75 years old were infected, indicating intra-species transmission is rare in wild deer. Where possums were not controlled, the net (cumulative) force of infection in young (1–4 y) deer was 0.10–0.24 per year in males and 0.09–0.12 per year in females, but much lower in older deer (less than 0.05 per year). Possum control reduced the net force of infection quickly, and eventually to zero. However, Tb persisted in possum-controlled areas through immigration of infected deer and, for almost a decade, through the survival of resident deer infected before possum control. Tb was lost from infected deer at an exponential rate of 0.13 per year, mostly as a result of deer recovering from infection rather than dying from it. Wild deer do die of Tb, but there was no discernible effect on age structure. The occurrence of infection in deer was not linked to the local deer or possum density at their kill sites (i.e. in their home range), but the area-wide prevalence of Tb in deer was closely correlated with Tb levels in possums, which were in turn correlated with area-wide measures of possum density. For wild deer in New Zealand, Tb is a persistent but usually inconsequential disease of the lymphatic system. It is acquired mainly by young independent deer, usually orally via the tonsils, and probably as a result of licking infected possums. Many species fed on deer carrion, including possums. Most possums encountering carrion did not feed on it, but a few fed for long periods. Other scavengers such ferrets (Mustela furo), hawks (Circus approximans), and weka (a hen-sized flightless native bird; Gallirallus australis) fed in a way that probably increased the infectivity of carrion to possums. Commercial deer hunting may have facilitated the historical establishment of Tb in possums. Scavenging (including cannibalism) and interactions with dead and dying possums are identified for the first time as potentially important routes for transmission of Tb to possums, and I develop new hypotheses involving peri- and post-mortem transmission in possums that explain many of the epidemiological patterns that are characteristic of the disease in possum. In continuous native forest, deer home range size averaged 250 hectares for six young females, and over twice that for two males. Over 90% of infected deer are likely to die within 2 km (females) or 6 km (males) of where they acquired Tb, but deer could occasionally carry Tb up to 30 km. Deer will be useful as sentinels, but only where other sentinels are rare, because the force of infection for a deer with a single infected possum in its home range is only 0.004 per year, compared to greater than 0.2 per year for deliberately released pigs. Deer are occasionally capable of initiating new cycles of infection in wildlife, but deer control is not essential to eradicate Tb from wildlife.

Many mammals are social. The most basic social behaviour is when the actions of one conspecific are directed toward another, what we call the dyadic interaction. Both intrinsic and extrinsic factors may affect an individuals propensity to interact with other members of a population. I used a social cervid, elk (Cervus elaphus), as a model species to test the importance of intrinsic and extrinsic factors of sociality on dyadic interactions. Dyadic interactions not only form the basis for social structure and information transfer within a population, but are also routes of pathogen transmission. My objective in this thesis was thus twofold: to improve our understanding of sociobiology, but also to gain insight into how sociality may underlie the transmission of communicable wildlife disease. I used a hierarchical, autecological approach from DNA, through individual, dyad, group, subpopulation, and ultimately population to explore the effects of intrinsic factors (e.g., sex and pairwise genetic relatedness) and extrinsic factors (e.g., season, conspecific density, habitat, and elk group size) on sociality. Elk in Riding Mountain National Park (RMNP), Manitoba, Canada, are exposed to the causal agent of bovine tuberculosis (Mycobacterium bovis; TB); however, spatial variation in apparent disease prevalence suggests that TB can only persist in one subpopulation within the Park. Using the natural RMNP system and a captive elk herd that I manipulated, I explored factors that influence interaction rates and durations (as a proxy for pathogen transmission) among elk. Sexual segregation in elk results in seasonal and sex-based differences in interaction rate and duration; with interactions peaking in autumn-winter for both sexes. Female-female dyads interact more frequently than male-male dyads. However, male-male dyads interact for longer durations than do female-female dyads. Interaction rate and duration did not covary with pairwise relatedness. Conspecific density also had sex-specific results for interaction rate and duration. Whereas male-male dyadic interaction rates increase with density, female-female dyads increase until they reach a threshold and subsequently reduce their interaction rates at high density. I observed density dependence in interaction rates in experimental trials and from field data. Furthermore, social networks revealed that social familiarity (i.e., heterogeneity of interactions) can be both frequency- and- density dependent depending on the strength of the relationship (i.e., number of repeat interactions). Density also affected the likelihood that an interaction would occur; however, this was modified by vegetation association used by elk. My results reveal several ecological and evolutionary implications for information transfer and pathogen transmission. In particular, I show that seasonal inter-sex routes of transfer may exist and that transfer is likely to be density-dependent. Finally, I conclude that such transfer is modified by available resources.

Many mammals are social. The most basic social behaviour is when the actions of one conspecific are directed toward another, what we call the dyadic interaction. Both intrinsic and extrinsic factors may affect an individuals propensity to interact with other members of a population. I used a social cervid, elk (Cervus elaphus), as a model species to test the importance of intrinsic and extrinsic factors of sociality on dyadic interactions. Dyadic interactions not only form the basis for social structure and information transfer within a population, but are also routes of pathogen transmission. My objective in this thesis was thus twofold: to improve our understanding of sociobiology, but also to gain insight into how sociality may underlie the transmission of communicable wildlife disease. I used a hierarchical, autecological approach from DNA, through individual, dyad, group, subpopulation, and ultimately population to explore the effects of intrinsic factors (e.g., sex and pairwise genetic relatedness) and extrinsic factors (e.g., season, conspecific density, habitat, and elk group size) on sociality. Elk in Riding Mountain National Park (RMNP), Manitoba, Canada, are exposed to the causal agent of bovine tuberculosis (Mycobacterium bovis; TB); however, spatial variation in apparent disease prevalence suggests that TB can only persist in one subpopulation within the Park. Using the natural RMNP system and a captive elk herd that I manipulated, I explored factors that influence interaction rates and durations (as a proxy for pathogen transmission) among elk. Sexual segregation in elk results in seasonal and sex-based differences in interaction rate and duration; with interactions peaking in autumn-winter for both sexes. Female-female dyads interact more frequently than male-male dyads. However, male-male dyads interact for longer durations than do female-female dyads. Interaction rate and duration did not covary with pairwise relatedness. Conspecific density also had sex-specific results for interaction rate and duration. Whereas male-male dyadic interaction rates increase with density, female-female dyads increase until they reach a threshold and subsequently reduce their interaction rates at high density. I observed density dependence in interaction rates in experimental trials and from field data. Furthermore, social networks revealed that social familiarity (i.e., heterogeneity of interactions) can be both frequency- and- density dependent depending on the strength of the relationship (i.e., number of repeat interactions). Density also affected the likelihood that an interaction would occur; however, this was modified by vegetation association used by elk. My results reveal several ecological and evolutionary implications for information transfer and pathogen transmission. In particular, I show that seasonal inter-sex routes of transfer may exist and that transfer is likely to be density-dependent. Finally, I conclude that such transfer is modified by available resources.

Mycobacterium bovis is the causative agent of bovine tuberculosis (BTB) which has a diverse host range. The maintenance host of BTB in South Africa is the African buffalo (Syncerus caffer). It is believed that lions get infected by feeding on infected buffalo or through wounds. The spread of the disease amongst lions has raised concern regarding the future of the animals and the impact on tourism in the country. Diagnoses of tuberculosis in free ranging wildlife is often dependent on post-mortem samples due to logistical challenges, the use of the lion specific interferon gamma release assay as an antemortem test offers a simpler methodology to testing live animals. The aim was to optimise an already developed assay by Maas et al.,2012 and to harmonise it with the Rhinoceros specific interferon gamma assay developed by Morar-Leather et al 2007. Optimisation of the interferon gamma specific ELISA included: determination of optimal concentrations for the capture and detection monoclonal antibodies; optimal concentrations for the conjugate and evaluation of alternative blocking agents. Different mitogens and incubation times were evaluated for the stimulation of whole blood as positive control in the assay. The optimum concentration for coating the plates with the capture monoclonal antibody was 2 g/ml. An optimum dilution of 1:5000 was selected for both the biotinylated detection monoclonal antibody and the streptavidin horseradish peroxidase conjugate. The assay was optimised using recombinant lion interferon gamma and the lower detection limit was calculated to be 109 pg/ml. Phosphate buffered saline with 1% bovine serum albumin was found to be Chapter 1 © University of South Africa iii a suitable blocking agent. Native interferon gamma was detected in whole blood samples from 5 lions and a 24 hour incubation time with PMA and ionomycin was selected as the optimal mitogen positive control. This assay system demonstrated good potential as an ante mortem test for the diagnosis of tuberculosis in lions. In conclusion, the assay can detect IFN- from supernatants harvested from whole blood cultures stimulated with specific antigens and mitogens / Agriculture and  Animal Health / M. Sc. (Agriculture)

The eco-epidemiology of bovine tuberculosis (Tb) in wild deer (mainly red deer Cervus elaphus) in New Zealand was investigated. Bovine Tb is caused by Mycobacterium bovis. Specific aims were to clarify the likely routes of infection in deer, and to determine the status of deer as hosts of Tb, the likely rates and routes of inter- and intra-species transmission between deer and other wildlife hosts, the role of deer in spreading Tb, and the likely utility of deer as sentinels of Tb presence in wildlife. As the possum (Trichosurus vulpecula) is the main wildlife host of Tb, the research also included some investigation of transmission routes in possums. Patterns of infection were measured in 994 deer killed between 1993 and 2003. Tb prevalence varied between areas (range 8–36%). Few deer had generalised infection, with 21–68% of infected deer having no visible lesions, depending on the area. The retropharyngeal lymph nodes and oropharyngeal tonsils were commonly infected. No dependent fawns less than 0.75 years old were infected, indicating intra-species transmission is rare in wild deer. Where possums were not controlled, the net (cumulative) force of infection in young (1–4 y) deer was 0.10–0.24 per year in males and 0.09–0.12 per year in females, but much lower in older deer (less than 0.05 per year). Possum control reduced the net force of infection quickly, and eventually to zero. However, Tb persisted in possum-controlled areas through immigration of infected deer and, for almost a decade, through the survival of resident deer infected before possum control. Tb was lost from infected deer at an exponential rate of 0.13 per year, mostly as a result of deer recovering from infection rather than dying from it. Wild deer do die of Tb, but there was no discernible effect on age structure. The occurrence of infection in deer was not linked to the local deer or possum density at their kill sites (i.e. in their home range), but the area-wide prevalence of Tb in deer was closely correlated with Tb levels in possums, which were in turn correlated with area-wide measures of possum density. For wild deer in New Zealand, Tb is a persistent but usually inconsequential disease of the lymphatic system. It is acquired mainly by young independent deer, usually orally via the tonsils, and probably as a result of licking infected possums. Many species fed on deer carrion, including possums. Most possums encountering carrion did not feed on it, but a few fed for long periods. Other scavengers such ferrets (Mustela furo), hawks (Circus approximans), and weka (a hen-sized flightless native bird; Gallirallus australis) fed in a way that probably increased the infectivity of carrion to possums. Commercial deer hunting may have facilitated the historical establishment of Tb in possums. Scavenging (including cannibalism) and interactions with dead and dying possums are identified for the first time as potentially important routes for transmission of Tb to possums, and I develop new hypotheses involving peri- and post-mortem transmission in possums that explain many of the epidemiological patterns that are characteristic of the disease in possum. In continuous native forest, deer home range size averaged 250 hectares for six young females, and over twice that for two males. Over 90% of infected deer are likely to die within 2 km (females) or 6 km (males) of where they acquired Tb, but deer could occasionally carry Tb up to 30 km. Deer will be useful as sentinels, but only where other sentinels are rare, because the force of infection for a deer with a single infected possum in its home range is only 0.004 per year, compared to greater than 0.2 per year for deliberately released pigs. Deer are occasionally capable of initiating new cycles of infection in wildlife, but deer control is not essential to eradicate Tb from wildlife.