Comparing Occurrence of Bovine Respiratory Pathogens Detected by High-Throughput Real-Time PCR in Nasal Swabs and Non-Endoscopic Bronchoalveolar Lavage Samples from Dairy and Veal Calves.

This study aimed to enhance our understanding of the agreement between two sampling methods for the detection of bovine respiratory disease (BRD) pathogens in calves using high-throughput real-time qPCR (ht-RT-qPCR). In total, 233 paired nasal swab (NS) and non-endoscopic bronchoalveolar lavage (nBAL) samples were collected from 152 calves from 12 Danish cattle herds. In 202 of the observations, the calves were examined using a standardized clinical protocol. Samples were tested for three viruses (bovine respiratory syncytial virus, bovine corona virus, and influenza D virus) and six bacteria (Histophilus somni, Mannheimia haemolytica, Mycoplasma bovis, Mycoplasma species, Pasteurella multocida, and Truepurella pyogenes). The results showed age-related differences in disease and pathogen occurrence, with the highest detection rates in calves aged 35 days or older. Poor to moderate agreement was found between the NS and nBAL results. The presence of Mannheimia haemolytica in both NS and nBAL in younger calves and in nBAL in older calves was associated with clinical BRD. There was a potential link between BRD and influenza D virus in older calves, although it was only found in one herd in a small sample size. Overall, NS was a relatively poor predictor of pathogens in the lower respiratory tract. The present study confirms the complexity of pathogen detection in BRD, with marked influences of age and the sampling method on pathogen detection and disease associations.

Monitoring bovine dairy calf health and related risk factors in the first three months of rearing.

BACKGROUND: Rearing replacement heifers is pivotal for the dairy industry and is associated with high input costs for the preweaned calves, due to their higher susceptibility to diseases. Ensuring calf health and viability calls for systematic approaches in order to mitigate the costs induced by managing sick calves and to ensure animal welfare. The objective of this study was to develop a systematic and feasible health-monitoring tool for bovine dairy calves based on repeated clinical observations and diagnostic results of calves at three time points; the 1st (T0), the 3rd (T1) and the 12th (T3) week of age. The study included observations from 77 dairy heifer calves in nine Danish commercial dairy herds. Immunisation status was assessed by serum Brix% at T0. Clinical scoring included gastrointestinal disease (GD) and respiratory disease (RD). The average daily weight gain (ADWG) was estimated from heart-girth measurements. Pathogen detection from nasal swabs and faecal samples were analysed for 16 respiratory and enteric pathogens by means of high-throughput real time-PCR. All measures obtained in each herd were visualised in a panel to follow the health status of each calf over time. RESULTS: The individual clinical observations combined with diagnostic information from immunisation and pathogen detection form each enrolled calf are presented in a herd dashboard illustrating the health status over the study period. This monitoring revealed failure of passive transfer (Brix% < 8.1) in 31% of the 77 enrolled calves, signs of severe GD peaked at T0 with 20% affected calves, while signs of severe RD peaked at T2 with 42% affected calves. ADWG over the first eight weeks was estimated to be 760 g (± 190 g). Pathogen profiles varied between herds. CONCLUSIONS: The large variation in both clinical disease and pathogen occurrence across herds emphasizes the need for herd specific monitoring. Combining the results of the present study from measures of immunisation, health and growth from individual calves in one visualisation panel allowed for the detection of patterns across age groups in the specific herds, showing promising potential for early detection and interventions that can lead to enhanced calf health and welfare.

Identifying areas of animal welfare concern in different production stages in Danish pig herds using the Danish Animal Welfare Index (DAWIN).

Animal welfare is of increasing public interest, and the pig industry in particular is subject to much attention. The aim of this study was to identify and compare areas of animal welfare concern for commercial pigs in four different production stages: (1) gestating sows and gilts; (2) lactating sows; (3) piglets; and (4) weaner-to-finisher pigs. One welfare assessment protocol was developed for each stage, comprising of between 20 and 29 animal welfare measures including resource-, management- and animal-based ones. Twenty-one Danish farms were visited once between January 2015 and February 2016 in a cross-sectional design. Experts (n = 26; advisors, scientists and animal welfare controllers) assessed the severity of the outcome measures. This was combined with the on-farm prevalence of each measure and the outcome was used to calculate areas of concern, defined as measures where the median of all farms fell below the value defined as 'acceptable welfare.' Between five and seven areas of concern were identified for each production stage. With the exception of carpal lesions in piglets, all areas of concern were resource- and management-based and mainly related to housing, with inadequate available space and the floor type in the resting area being overall concerns across all production stages. This means that animal-based measures were largely unaffected by perceived deficits in resource-based measures. Great variation existed for the majority of measures identified as areas of concern, demonstrating that achieving a high welfare score is possible in the Danish system.

Erratum: Identifying areas of animal welfare concern in different production stages in Danish pig herds using the Danish Animal Welfare Index (DAWIN) - CORRIGENDUM.

[This corrects the article DOI: 10.1017/awf.2023.37.].

Application of Methods to Assess Animal Welfare and Suffering Caused by Infectious Diseases in Cattle and Swine Populations.

Control of infectious diseases in livestock has often been motivated by food safety concerns and the economic impact on livestock production. However, diseases may also affect animal welfare. We present an approach to quantify the effect of five infectious diseases on animal welfare in cattle (three diseases) and pigs (two diseases). We grouped clinical manifestations that often occur together into lists of clinical entities for each disease based on literature reviews, and subsequently estimated "suffering scores" based on an aggregation of duration, frequency, and severity. The duration and severity were based on literature reviews and expert knowledge elicitation, while frequency was based mainly on estimates from the literature. The resulting suffering scores were compared to scores from common welfare hazards found under Danish conditions. Most notably, the suffering scores for cattle diseases were ranked as: bovine viral diarrhoea and infection with Mycobacterium avium subsp. paratuberculosis > infectious bovine rhinotracheitis, and for pigs as: porcine respiratory and reproductive syndrome > Aujeszky's disease. The approach has limitations due to the limited data available in literature and uncertainties associated with expert knowledge, but it can provide decision makers with a tool to quantify the impact of infections on animal welfare given these uncertainties.

Evaluation of Dynamic Structural Disorders in the Upper Airways and Applied Rein Tension in Healthy Dressage Horses During Riding in Different Gaits and Head-Neck Positions.

Flexion of the horse's head and neck during dressage riding reduces the pharyngeal lumen with the risk of increased upper airway resistance and upper airway obstructions. According to the Fédération Equestre Internationale, hyperflexion is achieved through force, whereas the position low-deep-round is nonforced. The objectives of this study were to evaluate (1) applied rein tension and (2) dynamic structural disorders in the upper airways in dressage horses in different gaits and different head-neck positions (HNPs). Overground endoscopy (OGE) and rein tension were evaluated in 13 clinically healthy and high-performance Warmblood dressage horses while being ridden in a standardized program comprised of four different gaits (halt, walk, trot, and canter) and in four HNPs (unrestrained, competition frame, hyperflexion, and low-deep-round). All included horses were able to achieve the desired HNPs. The HNP low-deep-round showed significantly lower rein tension than competition frame (P < .001) and hyperflexion (P < .001). An association was found between dynamic structural disorders in the upper airway tract evaluated by OGE and head-neck flexion, but this association was not linked to the degree of flexion. The HNP hyperflexion was neither associated with greater rein tension nor severe dynamic structural disorders than the HNP competition frame. This study confirms that low-deep-round is a nonforced position, in contrast to hyperflexion. Further studies are needed to evaluate whether dynamic structural disorders are a result of flexion or if the degree of flexion has an impact.

Evaluation of the performance of register data as indicators for dairy herds with high lameness prevalence.

BACKGROUND: The modern dairy industry routinely generates data on production and disease. Therefore, the use of these cheap and at times even "free" data to predict a given state of welfare in a cost-effective manner is evaluated in the present study. Such register data could potentially be used in the identification of herds at risk of having animal welfare problems. The present study evaluated the diagnostic performance of four routinely registered indicators for identifying herds with high lameness prevalence among 40 Danish dairy herds. Indicators were extracted as within-herd annual means for a one-year period for cow mortality, bulk milk somatic cell count, proportion of lean cows at slaughter and the standard deviation (SD) of age at first calving. The target condition "high lameness prevalence" was defined as a within-herd prevalence of lame cows of ≥ 16% (third quartile). Diagnostic performance was evaluated by constructing and analysing Receiver Operating Characteristic curves and their area under the curve (AUC) for single indicators and indicator combinations. Sensitivity (Se) and specificity (Sp) of the indicators were assessed at the optimal cut-off based on data and compared to a set of predefined cut-off levels (national annual means or 90-percentile). RESULTS: Cow mortality had the highest AUC (0.76), while adding the three other indicators to the model did not yield significant increase in AUC. Cow mortality and SD of age at first calving had highest Se (100%, 95% confidence interval (CI): 72-100%), while highest Sp was found for the proportion of lean cows at slaughter (83%, 95% CI: 66-93%). The highest differential positive rate (DPR = 0.53) optimizing both Se and Sp was found for cow mortality. Optimal cut-off points were lower than the presently used pre-defined cut-offs. CONCLUSIONS: The selected register-based indicators proved to be able to identify herds with high lameness prevalences. Optimized cut-offs improved the predictive ability and should therefore be preferred in official control schemes.