Assessing Risk Factors for Reproductive Failure and Associated Welfare Impacts in Elephants in European Zoos

This document is the Accepted Manuscript version of a published work that appeared in final form in Journal of Zoo and Aquarium Research. To access the final edited and published work see http://dx.doi.org/10.19227/jzar.v4i3.162Reproductive failure in elephants is thought to be caused or influenced by a range of factors such as obesity, infectious disease, husbandry, facilities, stress, behaviour, maternal experience, herd size and social grouping. Due to the low reproductive activity of the small zoo elephant population, scientific study into the relative importance of these factors is limited. This study takes an epidemiological approach using risk analysis methodologies to collate information from expert opinion, data set analysis and a targeted questionnaire to identify and assess a range of physical, behavioural and husbandry based risk factors, which may affect reproductive success in elephants housed in European Zoos. Much of our knowledge on reproduction in zoo elephant populations originates from North America where there are significant differences in herd structure, management practices, climate and mean age. By combining multiple sources of evidence including a large survey of reproduction in the European elephant population and eliciting expert opinion from scientists, zoo managers, veterinarians and keepers working with European zoo elephants in a structured, transparent and scientifically recognised process it has been possible to identify the most important causes of reproductive failure and assess the influence of a range of potential confounding factors. Important causes of reproductive failure included lack of access to a compatible bull, herd stability and compatibility, allomothering or maternal experience, management practices at parturition and the impact of Elephant Endotheliotropic Herpes Virus. This work is to be used in the development of evidence-based elephant management and welfare recommendations and highlights priority areas for further research

Survey of reproduction and calf rearing in Asian and African elephants in European zoos

This document is a version of a published work that appeared in final form in Journal of Zoo and Aquarium Research. To access the final edited and published work see http://www.jzar.org/jzar/article/view/161.Acyclicity, conception failure, abortion, stillbirth, dystocia, infanticide and neonatal mortality have all been reported as causes of reproductive failure in zoo elephants. These events are often reported as single case reports or in specific studies focused on a particular stage in the reproductive process. In North America wider surveys of reproduction in the zoo elephant population have been completed and repeated to provide data over a number of years. This study is the largest and most comprehensive study of reproduction in the European zoo elephant population to date. Two questionnaires collected data from throughout the reproductive process from assessing cyclicity to independence of the calf at 5 years old. Information was collected regarding 189 birth events. Many causative and contributing factors such as obesity, infectious disease, husbandry, facilities, stress, behaviour, herd size and social grouping have been proposed. The importance of these was assessed and where possible association identified using statistical analysis. In African elephants, this study found that age, obesity, reproductive pathology and dominance, identified as important risk factors for failure to conceive in the American zoo elephant population were of low importance. The most significant cause in Europe was lack of access to a compatible bull. In Asian elephants reproductive failure was much less common but when it did occur age and reproductive pathologies were significant factors as found in previous studies. Previous studies have found that age, obesity and infanticide were considered as the most important risk factors in the period from birth to rearing. In this survey it was found that herd stability and compatibility, allomothering or maternal experience and management at parturition can significantly influence reproductive success. Elephant Endotheliotropic Herpes virus was confirmed as the biggest cause of calf mortality. This work provides evidence to support changes to elephant management in European zoos in order to encourage development of social and affiliative herd behaviours and improve reproductive success

Risk based testing for Mycobacterium bovis following a clinical case in a zoological garden

This document is the version of a published work that appeared in final form in Journal of Zoo and Aquarium Research. To access the final edited and published work see http://dx.doi.org/10.19227/jzar.v2i1.62Mycobacterium bovis is a strictly controlled disease. Outbreaks in zoos result in animal movement bans, disease investigation and euthanasia of infected animals. Both specific tuberculosis legislation and European Directive 92/65, often known as the "Balai" directive, require zoos to be free from tuberculosis in order to import and export animals. This paper describes the use of a risk based targeted testing programme for tuberculosis following a confirmed case of disease. This regime ensured a comprehensive but proportionate disease investigation developed through close co-operation with government veterinary officials, therefore limiting the impact of anaesthetic procedures and animal handling required to complete the necessary testing

The Use of Qualitative Risk Analysis Methods to Facilitate Decision Making in the Management of Health and Welfare in Wildlife

This thesis is composed of a series of papers, all of which have been published in peer reviewed publications. The papers use the recognised process of qualitative risk assessment in a range of scenarios in the field of wildlife health and welfare in both in situ and ex situ environments. Chapter 1 discusses the challenges faced regarding availability of empirical data in field of wildlife and zoological health and welfare and justifies the exploration of techniques to assist with decision making. The development of risk analysis and its integration with risk management and risk communication to become risk assessment is described before being put into the specific context of wildlife and zoological disease. Chapters 2 and 3 consider two scenarios where disease risk assessment is well established as a tool, importation across national borders and in conservation interventions. Chapter 2 develops the standard import risk assessment approach to include multiple species and multiple diseases. Chapter 3 reviews developments made over the last 25 years and proposes best practice approaches to implement. Chapter 4 describes how the risk assessments formulated as described in Chapter 3 are used for licensing purposes emphasising the importance of risk management and communication. This theme is continued in Chapter 6 where the integration of risk assessment and evidence based decision making is considered in the broad context of a strategic approach to wildlife health bringing together the outcomes and processes described in Chapters 2, 3, 4 and 5. The papers in Chapters 2,5 and 8 are focused on how risk analysis aids in development of disease control approaches and policy. The evidence base is composed primarily of peer-reviewed literature supported by expert review of the finalised assessment. Chapter 7 uses risk assessment in an applied scenario, taking the recognised process and modifying it to structure an active disease investigation demonstrating the versatility of the technique. Chapter 9 takes this a step further by again adapting the methodology which, has historically been used primarily for infectious diseases, to consider reproduction and assess risks to welfare rather than purely health. The paper in Chapter 9 builds on the methodology by combining existing peer-reviewed literature with data collected specifically for the purpose of feeding into the assessment and utilising a stakeholder and expert opinion elicitation workshop to obtain data too. These process are proposed and described in Chapter 3. The final chapter critically reviews risk assessment, highlighting three key areas of potential weakness and proposing approaches to address these criticisms. The value of the approach in wildlife and zoological health and welfare as demonstrated by this series of papers is describe

Working to Educate Global Citizens and Create Neighborly Communities Locally and Globally: Penn’s Partnerships in West Philadelphia as a Democratic Experiment in Progress

In the rapidly accelerating global era in which we now live, human beings must solve a vast array of unprecedently complex problems. Perhaps the most complex and significant problems facing society today are persistent, widening, and increasingly destructive social, economic, and political inequality; globally destructive, man-made climate change; and increasingly frequent and savage terrorist acts. Given their proclaimed dedication to critical intelligence, and their unique constellation of formidable resources to develop it, institutions of higher education, we submit, have a unique responsibility to help solve these problems—indeed all the problems intensified by globalization

Camera traps and genetic identification of faecal samples for detection and monitoring of an Endangered ungulate.

Almost all Indochinese ungulates are classified as globally threatened but efforts to assess and monitor population status have been hampered by their rarity, cryptic nature and uncertainty in accurate identification from sightings. An improved approach is urgently needed to gather information about threatened ungulate species in order to effectively conserve them as, a lack of reliable monitoring methods means that basic information such as population sizes, distribution and habitat associations is currently unknown. Here, we used a combination of camera trapping and genetic detection of the Endangered Eld’s deer, Rucervus eldii, to investigate the utility of these methods to infer intensity of site use within a protected Cambodian dry forest. We asked: 1) Are Eld's deer present in our study area?; 2) How is site use influenced by local habitat?; and 3) Do camera traps or genetic detection perform better in terms of detection and monitoring? Camera traps were deployed and faecal samples collected from Chhaeb Wildlife Sanctuary in Northern Cambodia during the 2017 dry season. Faecal samples were identified as Eld’s deer using newly developed species-specific mitochondrial DNA primers. Camera traps recorded 20 Eld’s deer observations across 3905 trap-nights and 44 out of 71 collected faecal samples, identified by fieldworkers as likely to belong to Eld’s deer, were positively identified to be so. Camera trap surveys and genetic detection demonstrated that Eld’s deer were present in Chhaeb Wildlife Sanctuary, although the number of detections relative to sampling effort was low in both methods (detected at 29% and 1% of sample sites, respectively). Occupancy models showed that water level and tree diameter both had positive relationships, whilst human and domestic or feral pig activity had a negative relationship, with the relative intensity of Eld’s deer site use. Overall, our data suggest that both of our methods can prove effective for monitoring Eld’s deer but that repeated sampling is necessary to account for their low detectability in this area. We suggest that faecal samples are collected during future camera trap monitoring visits to maximise efficiency, increase detectability, and provide the most information to support conservation

Camera Traps Confirm the Presence of the White-naped Mangabey Cercocebus lunulatus in Cape Three Points Forest Reserve, Western Ghana

The white-naped mangabey Cercocebus lunulatus is severely threatened by logging, mining, and hunting. In the last decade, wild populations have been confirmed in just three forested areas in Ghana and a handful of sites in neighboring Côte d’Ivoire and Burkina Faso. Sightings of this species were recently reported in a fourth area in Ghana, the Cape Three Points Forest Reserve, a forest patch in western Ghana, 60 km from the nearest recorded wild population, which is in the Ankasa Conservation Area. We deployed 14 camera traps across 21 different locations throughout the reserve, with the intention of confirming the presence of this species. Images of the white-naped mangabey were captured at four locations, consolidating recent evidence for a fourth sub-population of this species in Ghana and providing only the second-ever photograph of a wild member of this species in the country. We observed evidence of numerous illegal anthropogenic activities in the reserve, which threaten these mangabeys, and we make recommendations for the protection of the reserve, essential for the conservation of this highly endangered species

The XMM Cluster Survey: The interplay between the brightest cluster galaxy and the intra-cluster medium via AGN feedback

Using a sample of 123 X-ray clusters and groups drawn from the XMM-Cluster Survey first data release, we investigate the interplay between the brightest cluster galaxy (BCG), its black hole, and the intra-cluster/group medium (ICM). It appears that for groups and clusters with a BCG likely to host significant AGN feedback, gas cooling dominates in those with Tx > 2 keV while AGN feedback dominates below. This may be understood through the sub-unity exponent found in the scaling relation we derive between the BCG mass and cluster mass over the halo mass range 10^13 < M500 < 10^15Msol and the lack of correlation between radio luminosity and cluster mass, such that BCG AGN in groups can have relatively more energetic influence on the ICM. The Lx - Tx relation for systems with the most massive BCGs, or those with BCGs co-located with the peak of the ICM emission, is steeper than that for those with the least massive and most offset, which instead follows self-similarity. This is evidence that a combination of central gas cooling and powerful, well fuelled AGN causes the departure of the ICM from pure gravitational heating, with the steepened relation crossing self-similarity at Tx = 2 keV. Importantly, regardless of their black hole mass, BCGs are more likely to host radio-loud AGN if they are in a massive cluster (Tx > 2 keV) and again co-located with an effective fuel supply of dense, cooling gas. This demonstrates that the most massive black holes appear to know more about their host cluster than they do about their host galaxy. The results lead us to propose a physically motivated, empirical definition of 'cluster' and 'group', delineated at 2 keV.Comment: Accepted for publication in MNRAS - replaced to match corrected proo

Crop Updates 2007 - Cereals

This session covers twenty six papers from different authors: CEREAL BREEDING 1. Strategies for aligning producer and market imperatives in cereal breeding in Western Australia, R. Loughman, R. Lance, I. Barclay, G. Crosbie, S. Harasymow, W. Lambe, C. Li, R. McLean, C. Moore, K. Stefanova, A. Tarr and R. Wilson, Department of Agriculture and Food 2. LongReach plant breeders wheat variety trials – 2006, Matu Peipi and Matt Whiting, LongReach Plant Breeders WHEAT AGRONOMY 3. Response of wheat varieties to sowing time in the northern agricultural region in 2006, Christine Zaicou, Department of Agriculture and Food 4. Response of wheat varieties to sowing time in the central agricultural region in 2006, Shahajahan Miyan, Department of Agriculture and Food 5. Response of wheat varieties to sowing time in the Great Southern and Lakes region, Brenda Shackleyand Ian Hartley, Department of Agriculture and Food 6. Response of wheat varieties to time of sowing time in Esperance region in 2006, Christine Zaicou, Ben Curtis and Ian Hartley, Department of Agriculture and Food 7. Performance of wheat varieties in National Variety Testing (NVT) WA: Year 2, Peter Burgess, Agritech Crop Research 8. Flowering dates of wheat varieties in Western Australia in 2006, Darshan Sharma, Brenda Shackley and Christine Zaicou, Department of Agriculture and Food 9. Prospects for perennial wheat: A feasibility study, Len J. Wade, Lindsay W. Bell, Felicity Byrne (nee Flugge) and Mike A. Ewing, School of Plant Biology and CRC for Plant-based Management of Dryland Salinity, The University of Western Australia BARLEY AGRONOMY 10. Barley agronomy highlights: Time of sowing x variety, Blakely Paynter and Andrea Hills, Department of Agriculture and Food 11. Barley agronomy highlights: Weeds and row spacing, Blakely Paynter and Andrea Hills, Department of Agriculture and Food 12. Barley agronomy highlights: Weeds and barley variety, Blakely Paynter and Andrea Hills, Department of Agriculture and Food OAT AGRONOMY 13. Agronomic performance of dwarf potential milling oat varieties in varied environments of WA, Raj Malik, Blakely Paynter and Kellie Winfield, Department of Agriculture and Food 14. Sourcing oat production information in 2007, Kellie Winfield, Department of Agriculture and Food HERBICIDE TOLERANCE 15. Response of new wheat varieties to herbicides, Harmohinder Dhammu, Department of Agriculture and Food 16. Herbicide tolerance of new barley varieties, Harmohinder Dhammu, Vince Lambert and Chris Roberts, Department of Agriculture and Food 17. Herbicide tolerance of new oat varieties, Harmohinder Dhammu, Vince Lambert and Chris Roberts, Department of Agriculture and Food NUTRITION 18. Nitrogen Decision Tools – choose your weapon, Jeremy Lemon, Department of Agriculture and Food DISEASES 19. Barley agronomy highlights: Canopy management, Andrea Hills and Blakely Paynter, Department of Agriculture and Food 20. Barley agronomy highlights: Leaf diseases and spots, Andrea Hills and Blakely Paynter, Department of Agriculture and Food 21. Fungicide applications for stripe rust management in adult plant resistant (APR) wheat varieties, Geoff Thomas, Rob Loughman, Ian Hartley and Andrew Taylor; Department of Agriculture and Food 22. Effect of seed treatment with Jockey on time of onset and disease severity of stripe rust in wheat, Manisha Shankar, John Majewski and Rob Loughman, Department of Agriculture and Food 23. Rotations for management of Cereal Cyst Nematode, Vivien Vanstone, Department of Agriculture and Food 24. Occurrence of Wheat Streak Mosaic Virus in Western Australian grainbelt during the 2006 growing season, Brenda Coutts, Monica Kehoe and Roger Jones, Department of Agriculture and Food 25. Development of a seed test for Wheat Streak Mosaic Virus in bulk samples of wheat, Geoffrey Dwyer, Belinda Welsh, Cuiping Wang and Roger Jones, Department of Agriculture and Food MARKETS 26. Developing the Australian barley value chain, Linda Price, Barley Australi

Phylogenetic ctDNA analysis depicts early-stage lung cancer evolution.

The early detection of relapse following primary surgery for non-small-cell lung cancer and the characterization of emerging subclones, which seed metastatic sites, might offer new therapeutic approaches for limiting tumour recurrence. The ability to track the evolutionary dynamics of early-stage lung cancer non-invasively in circulating tumour DNA (ctDNA) has not yet been demonstrated. Here we use a tumour-specific phylogenetic approach to profile the ctDNA of the first 100 TRACERx (Tracking Non-Small-Cell Lung Cancer Evolution Through Therapy (Rx)) study participants, including one patient who was also recruited to the PEACE (Posthumous Evaluation of Advanced Cancer Environment) post-mortem study. We identify independent predictors of ctDNA release and analyse the tumour-volume detection limit. Through blinded profiling of postoperative plasma, we observe evidence of adjuvant chemotherapy resistance and identify patients who are very likely to experience recurrence of their lung cancer. Finally, we show that phylogenetic ctDNA profiling tracks the subclonal nature of lung cancer relapse and metastasis, providing a new approach for ctDNA-driven therapeutic studies