Browsing by Author "Reid, Neil"
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Item Badger Ecology, Bovine Tuberculosis, and Population Management: Lessons from the Island of Ireland(Wiley-Hindawi, 2024-01-16) Byrne, Andrew W.; Allen, Adrian; Ciuti, Simone; Gormley, Eamonn; Kelly, David J.; Marks, Nikki J.; Marples, Nicola M.; Menzies, Fraser; Montgomery, Ian; Newman, Chris; O’Hagan, Maria; Reid, Neil; Scantlebury, David M.; Stuart, Peter; Tsai, Ming-shan; Animal Health and WelfareThe European badger, Meles meles, is an important wildlife host for Mycobacterium bovis and contributes to the epidemiology of bovine tuberculosis (bTB) in cattle in several countries. The control of zoonotic diseases, such as bTB, is a central component of global One-Health strategies. Such strategies are complicated by human–wildlife conflicts, particularly where wildlife reservoirs are legally protected. The contrasting objectives of disease management and wildlife conservation, therefore, can require significant investment in research to support evidence-based policies. In Britain and Ireland, for example, badgers are a legally protected species but are also subject to lethal control and vaccination for disease management. In this paper, we review recent (2012–2022) advances in research on this wildlife host on the island of Ireland, which is used to underpin national policies and identify research gaps. In recent years, significant advances in estimating key parameters related to badger management and population dynamics have been made, including estimating population abundance at varying scales (local, landscape, and national). Advances in tracking technology, integrated with mark-recapture and modelling tools, have provided significant insights into the movement ecology of badgers and their interactions with cattle. The adaptation of genetic technologies has improved our understanding of the transmission dynamics of M. bovis among different hosts. As a disease management strategy, the culling of badgers to control bTB has reduced badger densities significantly, although this is not considered a sustainable sole long-term solution to the problem of spillback infection. The recent development of vaccination strategies presents an additional approach to control the disease in wild populations. These types of interventions will require significant applied research to ensure they are sustainable and to maximise benefits. It is also expected that focused research efforts will improve human–wildlife coexistence in the context of the broader One-Health strategy.Item Case Report of Puffinosis in a Manx Shearwater (Puffinus puffinus) Suggesting Environmental Aetiology(MDPI, 2022-12-07) Esmonde, Niamh P.G.; Hanna, Robert E.B.; Patel, Jignasha G.; Smyth, Victoria; Caplat, Paul; Smyth, Wesley; Jaggers, Paris; Padget, Oliver; Guilford, Tim; Perrins, Chris; Reid, NeilPuffinosis is a disease of a range of seabirds characterised by dorsal and ventral blistering of their webbed feet, conjunctivitis, dry necrosis, leg spasticity, head shaking, loss of balance, tremors, and death. It is associated with Manx shearwaters (Puffinus puffinus), frequently affecting chicks within their underground nesting burrows. The aetiology of the disease is unclear but has been attributed to a type-2 coronavirus associated with Neotombicula mites as a potential vector. However, there is some uncertainty given potential laboratory contamination with mouse hepatitis virus and failure to fulfil Koch’s postulates, with birds injected with isolates remaining healthy. We describe a detailed case report of puffinosis in a Manx Shearwater covering necropsy, histology, bacteriology, and metagenomics including viral sequencing. We found no evidence of viral infection or parasites. Our results are consistent with an entirely environmental aetiology, with caustic faecal ammonia in damp nesting burrows causing conjunctivitis and foot dermatitis breaking the skin, allowing common soil bacteria (i.e., Flavobacterium, Staphylococcus and Serratia spp., Clostridia perfringens and Enterococcus faecalis) to cause opportunistic infection, debilitating the bird and leading to death. A similar condition (foot pad dermatitis or FPD) has been reported in broiler chickens, attributed to caustic faeces, high humidity, and poor environmental conditions during indoor rearing, preventable by adequate ventilation and husbandry. This is consistent with puffinosis being observed in Shearwater nesting burrows situated in tall, dense, vegetation (e.g., bracken Pteridium aquilinum) but rarely reported in burrows situated in well-ventilated, short coastal grasslands. This proposed environmental aetiology accounts for the disease’s non-epizootic prevalence, spatial variation within colonies, and higher frequency in chicks that are restricted to nesting burrows.Item Grazing cattle exposure to neighbouring herds and badgers in relation to bovine tuberculosis risk(Elsevier, 2020-09-30) Campbell, Emma; Menzies, Frazer D.; Byrne, Andrew W.; Porter, Siobhán; McCormick, Carl M.; McBride, Kathryn R.; Scantlebury, D. Michael; Reid, NeilBovine tuberculosis (bTB) can be spread between and among cattle and wildlife hosts e.g. European badger (Meles meles). The majority of cattle in the UK and Ireland are grazed during the summer, potentially exposing them to Mycobacterium bovis. 18 farms were surveyed (39% dairy, 61% beef; fields n = 697) for one grazing season (May-November 2016, n = 148,461 field days) to quantify the co-occurrence of cattle with badger setts and latrines and adjacency to neighbouring cattle herds. 3% (n = 24) of the fields had a badger sett or latrine recorded, dairy cattle were significantly more likely to co-occur with badger setts and latrines than beef cattle. Most farms (89%) grazed cattle adjacent to a neighbouring herd, which accounted for 18% of the grazing season. Potential exposure to neighbouring herds did not differ between production systems but did vary between life stages. A significant positive association between the proportion of time cattle spent grazing fields with setts present and the historic 1-, 3- and 5- year bTB status (p = 0.007, p = 0.013 and p = 0.013 respectively) was found. However, when cattle were grazed in fields with latrines, a significant negative association was found between the proportion of time cattle spent grazing fields with latrines present and the historic 3- and 5- year bTB status (p = 0.033 and p = 0.012 respectively). Historic bTB status and percentage of days spent beside a neighbouring herd was unrelated. Idiosyncrasies at farm-level and between risk factors indicated that individual farm assessments would be beneficial to understand potential exposure risk.Item Initial ecological change in plant and arthropod community composition after wildfires in designated areas of upland peatlands(Wiley, 2023-02-11) Kelly, Ruth; Montgomery, W. Ian; Reid, NeilWildfires are an increasing concern due to rising temperatures and incidence of droughts associated with changing climate, poor land management, and direct human interference. Most studies of the impact of fire on temperate heathland and bog examined the consequences of controlled or prescribed burning. Less is known about the impacts of uncontrolled wildfires on sites designated for their conservation value. We examined the initial impact and short-term trajectory (3.5 years) of cool temperate peatland plant and arthropod communities on designated upland sites in Northern Ireland following wildfires, that is, unplanned with respect to where and when they occur, severity, and duration. These near simultaneous wildfires were often due to a failure to control prescribed burns. Wildfires were associated with a loss of blanket bog and heath indicator species. Broad vegetation groups showed initial recovery characterized by a decrease in bare ground and increasing cover of shrub species and bryophytes. However, at a species level, Sphagnum spp and bryophyte communities, which are central to peatland ecosystem functioning, showed no sign of recovery to prefire composition. Rather, bryophyte communities became more divergent over the course of the study and were mainly characterized by increased abundance of the alien pioneer acrocarp Campylopus introflexus. Similarly, composition of arthropod communities (ground beetles and spiders) differed between burnt and unburnt areas and showed no evidence of a return to species composition in unburnt areas. The nationally rare beetle Carabus nitens was more common in the aftermath of wildfire. Synthesis. Whilst, long-term recovery was not investigated, these short-term changes suggest enduring detrimental impacts on the distinctive communities associated with peatlands, primarily through the loss of Sphagnum spp., affecting ecosystem services such as carbon sequestration and water and soil retention. It may not be possible to restore exact prefire species composition of plant and animal communities. We suggest a precautionary approach involving management of upland vegetation, public education, and vigilance, to prevent further wildfires and protect these key upland habitats.Item Landscape genetics identifies barriers to Natterjack toad metapopulation dispersal(Springer, 2023-02-21) Reyne, Marina I.; Dicks, Kara; Flanagan, Jason; Nolan, Paul; Twining, Joshua P.; Aubry, Aurélie; Emmerson, Mark; Marnell, Ferdia; Helyar, Sarah; Reid, Neil; Environmental ProtectionHabitat fragmentation and loss reduce population size and connectivity, which imperils populations. Functional connectivity is key for species persistence in human-modified landscapes. To inform species conservation management, we investigated spatial genetic structure, gene flow and inferred dispersal between twelve breeding sites of the Natterjack toad (Bufo calamita); regionally Red-Listed as Endangered in Ireland. Spatial genetic structure was determined using both Bayesian and non-Bayesian clustering analysis of 13 polymorphic microsatellite loci genotyping 247 individuals. We tested the influence of geographic distance, climate, habitat, geographical features, and anthropogenic pressure on pairwise genetic distances between breeding sites using Isolation-by-distance and Isolation-by-resistance based on least-cost path and circuit theory models of functional connectivity. There was clear spatial structuring with genetic distances increasing with geographic distance. Gene flow was best explained by Isolation-by-resistance models with coniferous forestry plantations, bog, marsh, moor and heath, scrub, anthropogenic presence (Human Influence Index) and rivers (riparian density) identified as habitats with high resistance to gene flow while metapopulation connectivity was enhanced by coastal habitats (beaches, sand dunes and salt marshes) and coastal grassland. Despite substantial declines in census numbers over the past 15 years and its regional status as Endangered, the Natterjack toad population in Ireland retains high genetic diversity. If declines continue, maintaining habitat connectivity to prevent genetic erosion by management of coastal grasslands, pond construction and assisted migration through translocation will be increasingly important.Item Population genetic structure of the Natterjack toad (Epidalea calamita) in Ireland: implications for conservation management(Springer, 2021-11-24) Reyne, Marina; Dicks, Kara; McFarlane, Claire; Aubry, Aurélie; Emmerson, Mark; Marnell, Ferdia; Reid, Neil; Helyar, Sarah; Environmental ProtectionMolecular methods can play a crucial role in species management and conservation. Despite the usefulness of genetic approaches, they are often not explicitly included as part of species recovery plans and conservation practises. The Natterjack toad (Epidalea calamita) is regionally Red-Listed as Endangered in Ireland. The species is declining and is now present at just seven sites within a highly restricted range. This study used 13 highly polymorphic microsatellite markers to analyse the population genetic diversity and structure. Genetic diversity was high with expected heterozygosity between 0.55 and 0.61 and allelic richness between 4.77 and 5.92. Effective population sizes were small (Ne < 100 individuals), but not abnormal for pond breeding amphibians. However, there was no evidence of historical or contemporary genetic bottlenecks or high levels of inbreeding. We identified a positive relationship between Ne and breeding pond surface area, suggesting that environmental factors are a key determinant of population size. Significant genetic structuring was detected throughout the species’ range, and we identified four genetic entities that should be considered in the species’ conservation strategies. Management should focus on preventing further population declines and future loss of genetic diversity overall and within genetic entities while maintaining adequate local effective population size through site-specific protection, human-mediated translocations and head-start programs. The apparent high levels of genetic variation give hope for the conservation of Ireland’s rarest amphibian if appropriately protected and managed.Item Rabbit Haemorrhagic Disease Virus 2 (RHDV2; GI.2) in Ireland Focusing on Wild Irish Hares (Lepus timidus hibernicus): An Overview of the First Outbreaks and Contextual Review.(MDPI, 2022-02-22) Byrne, Andrew W.; Marnell, Ferdia; Barrett, Damien; Reid, Neil; Hanna, Robert E.B.; McElroy, Maire C.; Casey, MichaelRabbit haemorrhagic disease virus 2 (RHDV2; GI.2) is a pathogenic lagovirus that emerged in 2010, and which now has a global distribution. Outbreaks have been associated with local population declines in several lagomorph species, due to rabbit haemorrhagic disease (RHD)-associated mortality raising concerns for its potential negative impact on threatened or vulnerable wild populations. The Irish hare (Lepus timidus hibernicus) is endemic to Ireland, and is of conservation interest. The first cases of RHDV2 in Ireland were reported in domestic rabbits (Oryctolagus cuniculus) in 2016, soon followed by the first known case in a wild rabbit also in 2016, from a population reported to be experiencing high fatalities. During summer 2019, outbreaks in wild rabbits were confirmed in several locations throughout Ireland. Six cases of RHDV2 in wild hares were confirmed between July and November 2019, at four locations. Overall, 27 cases in wildlife were confirmed in 2019 on the island of Ireland, with a predominantly southern distribution. Passive surveillance suggests that the Irish hare is susceptible to lethal RHDV2 infection, and that spillover infection to hares is geographically widespread in eastern areas of Ireland at least, but there is a paucity of data on epidemiology and population impacts. A literature review on RHD impact in closely related Lepus species suggests that intraspecific transmission, spillover transmission, and variable mortality occur in hares, but there is variability in reported resistance to severe disease and mortality amongst species. Several key questions on the impact of the pathogen in Irish hares remain. Surveillance activities throughout the island of Ireland will be important in understanding the spread of infection in this novel host