Role of Schmallenberg virus infection in congenital malformations in ruminants in Scotland in 2017.

Scotland's Rural College (SRUC), together with the Moredun Research Institute, carries out surveillance for Schmallenberg virus (SBV) infection in cattle and sheep. This article reports findings relating to diagnoses of fetopathy associated with SBV infection and other congenital malformations in these species made between January 1 and May 5, 2017.

Exposure to viral and bacterial pathogens among Soay sheep (Ovis aries) of the St Kilda archipelago.

We assessed evidence of exposure to viruses and bacteria in an unmanaged and long-isolated population of Soay sheep (Ovis aries) inhabiting Hirta, in the St Kilda archipelago, 65 km west of Benbecula in the Outer Hebrides of Scotland. The sheep harbour many metazoan and protozoan parasites but their exposure to viral and bacterial pathogens is unknown. We tested for herpes viral DNA in leucocytes and found that 21 of 42 tested sheep were infected with ovine herpesvirus 2 (OHV-2). We also tested 750 plasma samples collected between 1997 and 2010 for evidence of exposure to seven other viral and bacterial agents common in domestic Scottish sheep. We found evidence of exposure to Leptospira spp., with overall seroprevalence of 6·5%. However, serological evidence indicated that the population had not been exposed to border disease, parainfluenza, maedi-visna, or orf viruses, nor to Chlamydia abortus. Some sheep tested positive for antibodies against Mycobacterium avium subsp. paratuberculosis (MAP) but, in the absence of retrospective faecal samples, the presence of this infection could not be confirmed. The roles of importation, the pathogen-host interaction, nematode co-infection and local transmission warrant future investigation, to elucidate the transmission ecology and fitness effects of the few viral and bacterial pathogens on Hirta.

Prevalence of antibodies to bovine viral diarrhoea virus in bulk tank milk and associated risk factors in Scottish dairy herds.

Bulk tank milk samples were collected from 374 dairy farms in Scotland in 2007/2008 along with questionnaire data relating to the management of the farm. Milk samples were tested for antibodies to bovine viral diarrhoea virus (BVDV) using a commercially available (Svanova) kit and percentage positivity scores calculated according to the manufacturer's guidelines. There were 220 farms that did not routinely vaccinate for bovine viral diarrhoea (BVD), and these were distributed according to the Swedish BVD eradication classes as 12.7 per cent, 22.3 per cent, 44.5 per cent and 20.5 per cent for Classes 0, 1, 2 and 3, respectively. A more sophisticated statistical method (finite mixture modelling) which does not depend on arbitrary thresholds and categories suggested a 73 per cent prevalence of herds with high mean levels of antibodies. Risk factor analysis suggested that routine vaccination for BVD, suspicion of BVD, housing of pregnant cows with calves, total number of cows and the proportion of cows that were dry were all associated with increased BVDV antibodies in bulk milk. The inclusion of BVD within the farm's health plan was associated with decreased BVDV antibodies in the bulk milk.

Structure discovery in Bayesian networks: an analytical tool for analysing complex animal health data.

Analysing animal health data can be a complex task as the health status of individuals or groups of animals, might depend on many inter-related variables. The objective is to differentiate variables that are directly associated with health status and therefore promising targets for intervention, from variables that are indirectly associated with health status and can therefore at best only affect this indirectly through association with other variables. Bayesian network (BN) modelling is a machine learning technique for empirically identifying associations in complex and high dimensional data, so-called "structure discovery". An introduction to structure discovery using BN modelling is presented, comprising the key assumptions required by the methodology, along with a discussion of advantages and limitations. To demonstrate the various steps required to apply BN structure discovery to animal health data, illustrative analyses of data collected during a previously published study concerned with exposure to bovine viral diarrhoea virus in beef cow-calf herds in Scotland are presented.

Diagnostic accuracy of PCR for Jaagsiekte sheep retrovirus using field data from 125 Scottish sheep flocks.

Using a representative sample of Scottish sheep comprising 125 flocks, the sensitivity and specificity of PCR for Jaagsiekte sheep retrovirus (JSRV) was estimated. By combining and adapting existing methods, the characteristics of the diagnostic test were estimated (in the absence of a gold standard reference) using repeated laboratory replicates. As the results of replicates within the same animal cannot be considered to be independent, the performance of the PCR was calculated at individual replicate level. The median diagnostic specificity of the PCR when applied to individual animals drawn from the Scottish flock was estimated to be 0.997 (95% confidence interval [CI] 0.996-0.999), whereas the median sensitivity was 0.107 (95% CI 0.077-0.152). Considering the diagnostic test as three replicates where a positive result on any one or more replicates results in a positive test, the median sensitivity increased to 0.279. Reasons for the low observed sensitivity were explored by comparing the performance of the test as a function of the concentration of target DNA using spiked positive controls with known concentrations of target DNA. The median sensitivity of the test when used with positive samples with a mean concentration of 1.0 target DNA sequence per 25µL was estimated to be 0.160, which suggests that the PCR had a high true (analytical) sensitivity and that the low observed (diagnostic) sensitivity in individual samples was due to low concentrations of target DNA in the blood of clinically healthy animals.

The application of food safety interventions in primary production of beef and lamb: a review.

The production of safe red meat depends on effective control of pathogenic microorganisms at all stages of the "farm-to-fork" chain. Eight microorganisms have been selected as the focus of the PathogenCombat project: Shiga toxin producing Escherichia coli (STEC), Mycobacterium avium subspecies paratuberculosis (Map), Listeria monocytogenes, Campylobacter jejuni, Penicillium nordicum, invasive variants of Saccharomyces cerevisiae, hepatitis E virus and tick borne encephalitis virus. The need and potential for coordinated control of the selected food-borne pathogens by on-farm interventions is assessed using a decision tree and a review of the relevant scientific literature. Control measures to reduce the carriage of these pathogens in ruminants prior to slaughter are reviewed with reference to the current regulations and guidelines relating to the primary production. From the eight pathogens investigated, two (STEC and Map), are likely to be effectively controlled by interventions at farm level and the applicable interventions are described and discussed. Ruminants are the main reservoir for these two pathogens; hence a reduction of carriage in livestock should directly reduce human exposure through the consumption of beef and lamb.

Prevalence of Pasteurella multocida and other respiratory pathogens in the nasal tract of Scottish calves.

The prevalence of Pasteurella multocida, a cause of bovine respiratory disease, was studied in a random sample of beef suckler and dairy farms throughout Scotland, by means of a cross-sectional survey. A total of 637 calves from 68 farms from six geographical regions of Scotland were sampled between February and June 2008. Deep nasal swabs were taken, and samples that were culture-positive for P multocida were confirmed by PCR. Prevalence of P multocida was 17 per cent (105 of 616 calves); 47 per cent of farms had at least one positive animal. A higher prevalence was detected in dairy calves than beef calves (P=0.04). It was found that P multocida was associated with Mycoplasma-like organisms (P=0.06) and bovine parainfluenza type 3 virus (BPI-3) (P=0.04), detected by culture and quantitative PCR of nasal swabs, respectively. Detection of P multocida was not associated with bovine respiratory syncytial virus (BRSV), bovine herpesvirus type 1 (BoHV-1) or bovine viral diarrhoea virus (BVDV). Mycoplasma-like organisms, BPI-3, BRSV, BoHV-1 and BVDV were detected in 58, 17, four, 0 and eight calves, on 25, five, two, 0 and five of the 68 farms, respectively.

An integrated approach to assessing the viability of eradicating BVD in Scottish beef suckler herds.

The viability of eradicating bovine viral diarrhoea (BVD) in Scottish suckler herds is dependent on the continued compliance with eradication schemes. At the farm level, the costs of BVD have been identified in previous studies and show a substantial financial imperative to avoid infection. At a regional level the incentives of BVD eradication to individuals are unclear, for example the requirement for vaccination strategies despite achieving disease-free status. Ensuring farmer compliance with an eradication scheme is therefore difficult. Experience of eradicating BVD from beef-dominated areas is limited and theoretical models have tended to focus on the dairy sector. Here we present a stochastic epidemiological model of a typical beef suckler herd to explore the interaction of a farm with a regional pool of replacements, utilising information from a BVD virus seroprevalence survey of Scottish beef suckler herds. Our epidemiological model is then used to assess the relative costs to individuals assuming different regional endemic prevalences, which are used to represent the likelihood of BVD re-introduction. We explore the relative cost of BVD, taken as likelihood and consequence, at an endemic steady state in contrast to previous models that have assumed the introduction or control of BVD in an epidemic state (e.g. a closed and mostly susceptible population). Where endemic, BVD is unlikely to affect all farms evenly and will cost most farmers very little due to herd immunity or self-clearance of the virus. Compliance is likely to be boosted by pump-priming to initiate and complete eradication schemes with cost-sharing.

The prevalence of bovine viral diarrhoea virus infection in beef suckler herds in Scotland.

Bovine viral diarrhoea (BVD) is an endemic disease of cattle that causes substantial losses to both beef and dairy production worldwide. The goal of this study was to estimate the prevalence of active BVD virus (BVDV) infection in beef suckler herds in Scotland. Information was collected from 301 herds using a stratified random sampling design based on agricultural census data. Herds were classified as with and without active infection based on the within-herd BVDV seroprevalence in young stock using Bayesian finite mixture modelling. This method accounted for within- and between-herd variability and allowed for classification error by the diagnostic tests. The observed sample data enabled the discrimination of three distinct seroprevalence cohorts. The results provided evidence of active BVDV infection in 16% of herds and no evidence of recent exposure in approximately two thirds of herds. The epidemiological significance of the further 16% of herds containing young stock with a median BVDV seroprevalence of 26.3-38.5% remains unclear. The fact that a large percentage of herds did not show evidence of recent infection is encouraging from an animal health and welfare perspective and the study provides a model for the further exploration of strategies aimed at BVD control at national level.

Risk factors for the infection of Swiss goat herds with small ruminant lentivirus: a case-control study.

In the mid-1980s, Switzerland started a programme to eradicate caprine arthritis-encephalitis - an infectious disease of goats caused by the small ruminant lentivirus (srlv). Since 1996, progress towards eradication has slowed down, owing to infections occurring on farms from which the infection had previously been eliminated. To investigate specific risk factors for these new infections and to improve the eradication programme, a case-control study was conducted. Cases consisted of farms that had been officially free of srlv for at least three consecutive years but on which at least one srlv-seropositive animal had been detected during the annual serological surveys of 2001 and 2002. On all the case and control farms where sheep were housed together with goats, a subset of sheep was screened for antibodies to srlv. Potential risk factors were analysed in a logistic regression model; the results indicated that close contact with srlv-seropositive sheep was highly correlated with seroconversion in srlv-seronegative goat herds (odds ratio=26.9), supporting the hypothesis that srlv can be transmitted between sheep and goats, and suggesting that the measures taken so far will not lead to the complete eradication of srlv from Switzerland within the next few years.

[Prevalence of gastric lesions in the pars proventricularis in finishing pigs at slaughter in Switzerland]. / Prävalenz von Veränderungen der kutanen Magenschleimhaut bei Schlachtschweinen in der Schweiz.

A cross-sectional study was conducted at two large abattoirs in the winter 2003/04 to determine the prevalence of gastric lesions in Swiss finishing pigs. The stomachs of 1897 pigs from 107 slaughter groups were examined for macroscopic epithelial lesion of the pars proventricularis. Severe hyperceratosis, erosion, ulceration and constriction at the transition between oesophagus and stomach were described as gastric lesions. Lesions were observed in 36% of all animals, with slaughter group prevalence ranging from 0% to 94%. Ulceration or constriction was present in four percent of the examined pigs. Associations between gastric lesions, farm management data, and data obtained at ante and post mortem examinations conducted at the slaughterhouse were analysed. A significantly higher prevalence of gastric lesions was found in pigs originating from conventional housing systems compared to pigs raised on farms with 'animal-friendly' housing systems providing straw bedding and outdoor exercise to pigs. In addition, significantly higher prevalence was observed in pigs originating from herds with clinical signs of tail biting and peritarsitis.

[Anaplasmosis in a Swiss dairy farm: an epidemiological outbreak investigation]. / Anaplasmose in einem Milchviehbetrieb in Graubünden: Epidemiologische Ausbruchsuntersuchung.

In summer of 2002, a case of severe clinical bovine anaplasmosis caused great losses in a dairy farm of an animal trader in Grisons. This article outlines the general approach of an outbreak investigation considering the case of anaplasmosis as an example. The goals of such investigations are to identify and eliminate the source of a disease outbreak in order to avoid additional cases. In addition, recommendations should be developed for preventing or limiting the magnitude of similar outbreaks in the future. In the outbreak presented, the causative agents were probably brought into the dairy farm by animal trade. Due to the large herd size, a missing quarantine for new animals and the coinfection with several pathogens, this case led to a high number of fatalities. The investigations of this outbreak demonstrated the importance of an universal and consistent identification of individual animals for the reconstruction of their movements. The veterinary practitioner should be reminded to act cautiously when facing strange clinical cases and to also consider "exotic diseases" as a possible cause.