Etiology and epidemiology of digital dermatitis in Australian dairy herds.

Bovine digital dermatitis (BDD) is an important cause of lameness in dairy cows worldwide. However, very little is known about this disease in Australian herds, which are predominantly managed on pasture. The primary objectives of this cross-sectional study were to describe the presence and prevalence of BDD in Australian dairy herds and to characterize the microbiota of healthy skin and M4 lesions of BDD-affected, pasture-managed cows. Cows from 71 dairy herds were examined at milking time to identify the presence of BDD lesions. True prevalence was estimated using Bayesian methods with informative priors for sensitivity and specificity. Biopsy samples (n = 60) were collected from cows with and without BDD lesions in 7 pasture-based herds. The microbiota in the superficial and deep strata of each tissue biopsy were characterized via sequencing of the V3-V4 region of the bacterial ribosomal RNA gene. Lesions were detected in 1,817 (11.5%) of 15,813 cows and in 68 of 71 (95.8%) herds. The median herd-level apparent and true prevalences of BDD were 8.5% and 18.1%, respectively, but prevalences varied considerably between farms. On farms with BDD, M4 lesions accounted for 70% to 100% of all lesions (interquartile range = 95.1%-100%, median = 100%); M2 lesions (i.e., large ulcerative lesions) were observed at low prevalence (<2.2%) in the few herds (7/71, 9.9%) where they were found. There was a significant difference in the composition of the microbiota between healthy skin and M4 lesions but not between superficial and deep tissue layers. Several gut- and effluent-associated bacterial taxa, including Lentimicrobium and Porphyromonas, which have previously been associated with BDD, were abundant in BDD lesions but not in control biopsies. Our study supports the idea that such taxa are involved in, although possibly not essential to, lesion development and persistence in pasture-managed cows in Australia. Our results also suggest that Dichelobacter may contribute to the disease process. We conclude that BDD is likely to occur in most Australian dairy farms, but that further studies are needed to identify its effect on cow welfare and productivity. Further investigation of the etiology of BDD in Australian dairy herds is also necessary to inform prevention and control strategies.

Longitudinal study of herd udder hygiene and its association with clinical mastitis in pasture-based dairy cows.

The objectives of this exploratory study were to (1) describe the association between herd-level udder hygiene and clinical mastitis and (2) investigate how sample size and milking stage affect the accuracy and precision of herd udder hygiene assessments made at milking time. A prospective longitudinal study was conducted in a dairy herd in Northern Australia as part of a previously published clinical trial of premilking teat disinfection. Video footage from 35 afternoon milkings was used to conduct 12,544 udder hygiene scores from 504 cows during an 89-d period and measure udder hygiene of the herd (proportion of cows with udder hygiene ≥3 out of 4). Linear interpolation was used to estimate herd udder hygiene on the days that were not scored, such that a herd-level udder hygiene measure was available for all cow-days in the study. Clinical mastitis events occurring during the study period were detected and recorded by farm staff according to a standardized definition. The relationship between herd udder hygiene on each of 1, 2, and 3 d before each study day (d -1, -2, and -3, respectively) and clinical mastitis at the cow level on each study day (each in turn being set as d 0) was determined using multivariable generalized estimating equations (family = Poisson, link = log), with the unit of analysis being the cow-day, adjusting for potential confounders and the clustering within the data. In addition, sampling strategies were evaluated by simulating herd udder hygiene assessments using a subset of cows in the herd. Herd udder hygiene from d -1, -2, and -3 was positively associated with clinical mastitis on d 0 (incidence rate ratio = 1.4 per 10-point increase in the percentage of cows with poor udder hygiene). Sampling strategy simulation found that at least 80 cows needed to be scored to achieve sufficiently precise estimations of herd udder hygiene. Furthermore, cows scored later during milking were slightly more likely to have poor udder hygiene than those scored earlier (risk ratio = 1.02 for cows that were 10% later in the milking order). More research is needed to evaluate risk factors for poor udder hygiene and potential interventions in pasture-based dairy cows.

Modelling the transmission dynamics of bovine digital dermatitis in New Zealand pastoral dairy production systems.

Bovine digital dermatitis (DD) is an important infectious cause of cattle lameness worldwide that has become increasingly prevalent in New Zealand pastoral dairy herds. In this study, a simplified DD scoring system after considering both M and Iowa DD scoring systems was applied to explore the transmission dynamics of DD in a typical spring-calving pastoral New Zealand dairy herd. The modified model only included three compartments: normal skin, early stage lesions and advanced lesions. Lesions regressing after treatment were excluded as DD lesions are rarely treated in New Zealand. Furthermore, sub-classes within each lesion class were not defined due to the lack of variability in DD lesion presentations within New Zealand. The model was validated based on longitudinal field data from three dairy herds in the Waikato region during one lactation season (2017-18). The model suggested that in infected dairy herds, although DD prevalence will tend to increase year-on-year it is likely to remain relatively low (< 18%) even after 10 years of within-herd transmission. It is likely that the low transmission rate during the late lactation (model assumption) results in more cases resolving than developing during this period and therefore results in the low prevalence of infectious cattle at the start of each subsequent lactation. Cattle with advanced lesions had a stronger influence on the establishment and maintenance of DD than cattle with early stage lesions highlighting the importance of targeting these animals for intervention. On-going monitoring of DD is highly recommended to assess the long-term progression of the disease in affected dairy herds.

Bayesian analysis of herd-level risk factors for bovine digital dermatitis in New Zealand dairy herds.

BACKGROUND: Bovine digital dermatitis (BDD) is considered the most important infectious cause of lameness in dairy cattle worldwide, but has only recently been observed in New Zealand. Although many studies have investigated the risk factors for BDD in confined dairy systems, information on risk factors in pasture-based system is limited. Therefore a cross-sectional study including 59,849 animals from 127 dairy herds in four regions of New Zealand was conducted to identify the herd-level factors associated with the probability of a herd being BDD-lesion positive and with within-herd BDD prevalence. RESULTS: Purchasing heifers was associated with increased odds of a herd being BDD-lesion positive (odds ratio [OR]: 2.33, 95% probability interval [PI]: 1.26-4.42) and a cow being BDD affected (OR: 3.76, 95%PI: 1.73-8.38), respectively. Higher odds of a herd being BDD-lesion positive (OR: 2.06, 95%PI: 1.17-3.62) and a cow being BDD affected (OR: 2.87, 95%PI: 1.43-5.94) were also seen in herds where heifers co-grazed with cattle from other properties. In addition, using outside staff to treat lameness was associated with higher odds of a cow being BDD affected (OR: 2.18, 95%PI: 0.96-4.98). CONCLUSION: This study highlighted that movements of heifers are significantly associated with the spread of BDD within and between dairy herds in New Zealand. To minimise the risk of disease introductions in herds where moving heifers cannot be avoided, it is best to purchase heifers only from herds where BDD-freedom has been confirmed and, if heifers have to graze-off a farm, they should be reared as a single biosecure management group, especially since animals may be BDD-infected without having clinically obvious lesions.

Effects of dietary supplementation of bentonite and Saccharomyces cerevisiae cell wall on acute-phase protein and liver function in high-producing dairy cows during transition period.

The aim of this study was to investigate the efficacy of dietary endotoxin binders [bentonite (BEN) and Saccharomyces cerevisiae cell wall (SCW)] on acute-phase protein (APP) response and liver function in cows during the transition period. Twenty-four multiparous Holstein cows were randomly assigned to one of four treatment groups. The experimental groups consisted of (1) the basal diet (BD) + SCW, (2) BD + SCW + BEN, (3) BD + BEN, and (4) BD (control). Blood samples were taken at 1, 3 and 4 weeks before and 1 and 3 weeks after parturition and serum concentrations of non-esterified fatty acids (NEFA), beta-hydroxybutyrate (BHBA), glucose, haptoglobin (Hp), serum amyloid A(SAA), albumin, g-glutamyl transferase (GGT), aspartate aminotransferase (AST), cholesterol, iron, and lipopolysaccharide (LPS) were measured. The concentrations of LPS, SAA, albumin, and Hp in the blood were within reference range at all times. The level of blood LPS was not high enough to initiate an APP response. Mean BHBA concentration was highest at 1 week after calving. For NEFA, the pattern was similar, with a peak at 1 week after calving. Cholesterol concentration was lower in the SCW group, probably due to a lower lipoprotein concentration. Mean AST concentration was highest at 1 week after calving, especially in the SCW + BEN group. The results of a current study showed that, if the carbohydrate level is not high in the diet to cause rumen acidosis, it is not profitable to supplement BEN and SCW for adsorbing endotoxins in the diet, in transition cows.

Measuring hoof horn haemorrhage in heifers: A history.

Understanding the aetiology and pathogenesis of claw-horn disease (CHD) is essential for developing prevention/treatment programmes. Haemorrhages in the hoof horn (i.e. white line/sole haemorrhages) are an important part of the pathogenesis of CHD, being precursors to and predictors of lesions such as white-line disease and sole ulcer. Understanding haemorrhage development can provide useful information about the aetiology and pathogenesis of CHD. The development of hoof horn haemorrhages is best studied in cattle without previous claw-horn damage, as previous history of damage can markedly alter the hoof's response to stressors. Since the early 1990s, many prospective studies of the risk factors associated with CHD have been undertaken in late pregnant and early lactation heifers, which have a low risk of having had CHD but which are exposed to the same risk factors as lactating cows. Those studies have used a range of methods to assess hoof horn haemorrhages, with the principal focus, particularly initially (but also more recently), being on measuring lesion severity. However, as the science developed it became clear that measuring lesion extent was also important and that combining severity and extent in a single measure was the best approach to assess hoof horn haemorrhages. Studies of hoof horn haemorrhage in heifers have significantly increased our understanding of CHD, demonstrating the importance of housing and the relative lack of importance of post-calving nutrition. Most importantly, they have shown the importance of parturition as a risk factor for CHD, and how parturition interacts with other risk factors to accentuate their effect. The use of such studies has decreased in recent years, despite recent research showing that we still have much to learn from prospective studies of hoof horn haemorrhages in heifers.

In vitro calibration and in vivo validation of phenomenological corrosion models for resorbable magnesium-based orthopaedic implants.

Metallic bioresorbable orthopaedic implants based on magnesium, iron and zinc-based alloys that provide rigid internal fixation without foreign-body complications associated with permanent implants have great potential as next-generation orthopaedic devices. Magnesium (Mg) based alloys exhibit excellent biocompatibility. However, the mechanical performance of such implants for orthopaedic applications is contingent on limiting the rate of corrosion in vivo throughout the bone healing process. Additionally, the surgical procedure for the implantation of internal bone fixation devices may impart plastic deformation to the device, potentially altering the corrosion rate of the device. The primary objective of this study was to develop a computer-based model for predicting the in vivo corrosion behaviour of implants manufactured from a Mg-1Zn-0.25Ca ternary alloy (ZX10). The proposed corrosion model was calibrated with an extensive range of mechanical and in vitro corrosion testing. Finally, the model was validated by comparing the in vivo corrosion performance of the implants during preliminary animal testing with the corrosion performance predicted by the model. The proposed model accurately predicts the in vitro corrosion rate, while overestimating the in vivo corrosion rate of ZX10 implants. Overall, the model provides a "first-line of design" for the development of new bioresorbable Mg-based orthopaedic devices. STATEMENT OF SIGNIFICANCE: Biodegradable metallic orthopaedic implant devices have emerged as a potential alternative to permanent implants, although successful adoption is contingent on achieving an acceptable degradation profile. A reliable computational method for accurately estimating the rate of biodegradation in vivo would greatly accelerate the development of resorbable orthopaedic implants by highlighting the potential risk of premature implant failure at an early stage of the device development. Phenomenological corrosion modelling approach is a promising computational tool for predicting the biodegradation of implants. However, the validity of the models for predicting the in vivo biodegradation of Mg alloys is yet to be determined. Present study investigates the validity of the phenomenological modelling approach for simulating the biodegradation of resorbable metallic orthopaedic implants by using a porcine model that targets craniofacial applications.

Genomic epidemiology of bovine mastitis-causing Staphylococcus aureus in New Zealand.

We analysed the genomes of 188 bovine-mastitis-causing S. aureus isolates obtained over a 17-year period from more than 65 dairy farms across New Zealand. The analysis revealed a unique pattern of dominance over the entire period of study, of clonal complex 1, sequence type 1 (CC1/ST1), which accounted for ∼75% of the isolates. CC1/ST1 was also the commonest lineage infecting humans in New Zealand in the same period, but most bovine CC1/ST1 analysed in this study carried the genes coding for the bovine-adaptive bicomponent leucocidin lukF and lukM and lacked the corresponding human-adaptive lukF-PV and lukS-PV genes. Typical ruminant-associated lineages, such as ST97, ST151 and CC133 were also observed. Cluster analyses of the core and accessory genomes revealed genomic segregations according to the CCs, but lack of segregation based on the geographical location or collection year, suggesting a stable population in space and time. To our knowledge, this is the first identification of genomic markers of host adaptation to cattle in S. aureus CC1/ST1, a lineage commonly associated with humans, worldwide. The temporal clonal stability observed would enable the development of a S. aureus vaccine for New Zealand cattle, which is unlikely to undergo substantial reduction of efficacy due to clonal drifts or shifts.

Evaluating the Effect of Preventative Trimming on Distance from the Sole Surface to the Distal Phalanx Using Ultrasonography for Lameness Prevention in Pasture-Based Dairy Cows.

One common management strategy used to reduce the risk of lameness is prophylactic claw trimming. However, in pasture-based cattle, there is a concern that the immediate reduction in sole thickness resulting from sole trimming will lead to medium-to-long-term reductions in sole thickness, which may increase the risk of lameness. Nevertheless, there is a lack of data on sole thickness and trimming in pasture-based cows. Therefore, the aim of this study was to evaluate the effect of trimming on sole thickness over the medium-to-long term, as estimated using the ultrasound-measured distance from the external claw sole surface to the distal phalanx (DDP) and of DDP on the interval between calving and increased locomotion scores. A total of 38 cows were randomly selected from a 940-cow spring calving dairy farm in the North Island of New Zealand; 18 were allocated to the ultrasound hoof-trimming group and 20 were allocated to the ultrasound non-trimming group. Starting in May 2018, at the end of the 2017/18 lactation, ultrasound measurements of DDP of the right hind hoof were made on all 38 cows, and the hindlimbs of the trimming group cows were trimmed by an experienced professional hoof trimmer using the five-step Dutch method. This was repeated in October 2018 (early lactation) and May 2019 (late lactation). After calving, the cows were locomotion scored fortnightly until the end of lactation using the 4-point (0-3) scale DairyNZ system. The effect of DDP on the interval between calving and the first locomotion scores ≥1 and ≥2 was assessed using Cox proportional hazards models, and the association between trimming and DDP was explored using linear mixed models. The results suggest that DDP has no effect on the time to locomotion scores ≥1 or ≥2, although the wide confidence intervals of the latter suggest that more data are needed before any definitive conclusions can be drawn. The study failed to find any clinically important impact of prophylactic trimming on DDP. This is likely related to the finding that cows with the highest DDP at the first trimming were identified by the hoof trimmer as those needing the most trimming. The results of this study thus suggest that if the Dutch five-step method is properly applied, it is unlikely to affect sole thickness over the short-to-medium term in pasture-based cattle.

Assessing Alternatives to Locomotion Scoring for Detecting Lameness in Dairy Cattle in Tanzania: Infrared Thermography.

Lameness detection is a significant challenge. Locomotion scoring (LS), the most widely used system for detecting lameness, has several limitations, including its subjective nature and the existence of multiple systems, each with its own advantages and disadvantages. Therefore, this study aimed to evaluate whether the foot skin temperature (FST) of hind limbs, as measured using infrared thermography (IRT), could potentially be used as an alternative on Tanzanian dairy farms. Each of the three study farms were visited twice during the afternoon milking on consecutive days, with a total of 170 cows assessed. DairyNZ LS (4-point scale (0-3)) was undertaken on the first day as the cows exited the milking parlour after being milked, while on the following day, the plantar aspect of the hind limbs of the cows was thermally imaged while they were standing in the milking parlour, using a handheld T650sc forward-looking infrared camera. Mean FST was higher for cows with a locomotion score of 1 than those with a score of 0; higher for cows with a locomotion score of 2 than those with a score of 1; and higher for cows with a locomotion score of 3 than those with a score of 2, with each one-unit locomotion score increase being associated with a 0.57 °C increase in mean temperature across all zones. The optimal cut-off point of 38.0 °C for mean temperature across all zones was identified using a receiver operator characteristic curve. This cut-off point had a sensitivity of 73.2% and a specificity of 86.0% for distinguishing cows with a locomotion score ≥ 2 (clinical lameness). The prevalence of clinical lameness across all three farms was 33%, which meant that only 72% of cows with a mean FST across all zones ≥ 38.0 °C had been identified as clinically lame using LS. This study confirmed that IRT has the potential to be used to detect lameness on Tanzanian dairy farms. However, before it can be widely used, improvements in accuracy, especially specificity, are needed, as are reductions in equipment (IR camera) costs.

Comparison of four clinical sample types for detection and investigation of PCV3 prevalence in the pig farrowing room.

Porcine circovirus type 3 (PCV3) is a newly described circovirus that has been identified in pig populations across the globe. The virus is associated with multiple diseases including reproductive and systemic diseases. As effective vaccines are lacking, surveillance is crucial for PCV3 control, but there are currently, few side-by-side comparisons of the efficacy of different samples for the detection of PCV3. This study collected four sample types, including colostrum, udder skin wipes, placental umbilical cord blood, and processing fluid from 134 litters in a sow farm from July to September 2021 for PCV3 detection based on quantitative PCR tests. Udder skin wipes showed the highest detection rates (76.9%), while 71.6% of the processing fluid, 49.3% of the placental umbilical cord, and 29.1% of the colostrum samples were positive. Logistic regression analysis suggested that the detection rates of udder skin wipes and processing fluid were similar (odds ratio for processing fluid vs udder skin wipes was 0.76, 95% confidence interval (CI) 0.43-1.32), but the two tests were probably not identifying the same population as infected, as the agreement between the samples was only moderate (Gwet's AC1: 0.65). In this study, we were able to demonstrate that PCV3 was present in the farrowing room throughout the period from birth to weaning using udder skin wipes, although viral load decreased over time. The odds of PCV3 detection in colostrum from 2-parity sows was three times higher (95% CI 1.4-6.8) than that of primiparous sows, while the odds of PCV3 detection in sows with mummified fetuses was 2.7 times higher (95% CI 1.1-6.6) than sows with no mummified fetuses. In conclusion, these results indicate that udder skin wipes have high detection rates in infected animals over the whole period from birth to weaning and would thus be suitable samples for PCV3 surveillance in the farrowing rooms.

Prevalence and genetic diversity of Theileria equi from horses in Xinjiang Uygur Autonomous region, China.

Theileria equi is a tick-borne intracellular apicomplexan protozoan parasite that causes equine theileriosis (ET). ET is an economically important disease with a worldwide distribution that significantly impacts international horse movement. Horses are an essential part of the economy in Xinjiang which is home to ∼10% of all the horses in China. However, there is very limited information on the prevalence and genetic complexity of T. equi in this region. Blood samples from 302 horses were collected from May to September 2021 in Ili, Xinjiang, and subjected to PCR examination for the presence of T. equi. In addition, a Bayesian latent class model was employed to estimate the true prevalence of T. equi, and a phylogenetic analysis was carried out based on the 18S rRNA gene of T. equi isolates. Seventy-two horses (23.8%) were PCR positive. After accounting for the imperfect PCR test using a Bayesian latent class model, the estimated true prevalence differed considerably between age groups, being 10.8% (95%CrI: 5.8% - 17.9%) in ≤ 3-year-old horses and 35.7% (95%CrI: 28.1% - 44.5%) in horses that were > 3 year-old. All T. equi isolates had their 18S rRNA gene (430bp) sequenced and analyzed in order to identify whether there were multiple genotypes of T. equi in the Xinjiang horse population. All of the 18S rRNA genes clustered into one phylogenetic group, clade E, which is thus probably the dominant genotype of T. equi in Xinjiang, China. To summarize, we monitored the prevalence of T. equi in horses of Xinjiang, China, with a focus on the association between age and the occurrence of T. equi by Bayesian modelling, accompanied by the genotyping of T. equi isolates. Obtaining the information on genotypes and age structure is significant in monitoring the spread of T. equi and studying the factors responsible for the distribution.

Performance of the StaphGold ELISA test in determining subclinical Staphylococcus aureus infections in dairy cows using a Gaussian mixture model.

BACKGROUND: A novel ELISA test has been developed to detect antigen-specific IgG in early and late lactation cows in New Zealand. OBJECTIVES: This study was to evaluate the discriminatory ability of the ELISA based on the detection of S. aureus-specific IgG as a screening test. METHODS: The ELISA was used for the composite milk samples taken during routine herd testing in 2018-2019 milking season in New Zealand. In the absence of a gold standard test, the diagnostic specificity and sensitivity was estimated using a Gaussian mixture model. RESULTS: The ELISA test had a high accuracy (AUC = 0.98) to detect antigen-specific IgG in early and late lactation cows with high somatic cell count due to either subsequent to or contemporaneous with the S. aureus invasion. Using an S/P ratio = 0.3 as the cut-off value, the ELISA test has sensitivity of 0.9 and specificity of 0.95, while the sensitivity increased to 0.94 at a cost of a decreased specificity of 0.9 at a lower cut-off value 0.26. CONCLUSIONS: The integration of the ELISA test as a screening tool into specific control programs may be useful to reduce the spread of S. aureus infections, to aid with treatment decisions, and to establish a correct milking order.

Practicability of a Time-Limited Welfare Assessment Protocol for Pasture-Based Dairy Farms, and a Preliminary Assessment of Welfare Outcome Thresholds.

This study assessed a new time-limited protocol developed for pasture-based cows across 23 dairy farms. The process started prior to milking with a questionnaire, followed by an assessment of resources (16 farms only) and behavioural observation of cows at pasture. Remaining animal-based measures were assessed during milking, usually by two assessors (one parlour based and one outside). The protocol proved to be practical and feasible with limited changes needed, except for the assessment of water availability and behaviour. As most cows could access only one water trough, distance between troughs was not a measure of water availability, while the observation of a large numbers of cows at pasture for 30 min resulted in few observations and an uncertain denominator (effective number of observed cows). Further research is needed to determine the best way of assessing water availability and cow behaviour in a time-limited assessment of pasture-based cows. Three animal-based measures (broken tails, dirtiness, and coughing) had mean values higher than the author-determined acceptable thresholds, while <50% of farms met trough cleanliness and track condition targets, and none met the criteria for shelter and shade. This was a sample of farms based on convenience, so more data are required to establish the representativeness of these results. Such testing should involve assessment of the repeatability and reliability of the measures in our protocol.

The Influence of Rotational Length, along with Pre- and Post-Grazing Measures on Nutritional Composition of Pasture during Winter and Spring on New Zealand Dairy Farms.

The quality of ryegrass−clover pasture was investigated between August (winter: start of calving) and November (spring: end of breeding) on pasture-based dairy farms (>85% of total feed from pasture) that had short (n = 2, Farms A and B; winter ~30 days, spring ~20−25 days) or long (n = 2, Farms C and D; winter ~35 days, spring ~25−30 days) grazing rotations to determine whether quality was affected by grazing rotation length (RT). Weekly assessments of pasture growth and herbage quality were made using a standardised electronic rising plate meter, and near-infrared spectroscopy, respectively. Data were subjected to repeated measure mixed model analysis, in which herbage quality was the outcome variable. The highest pre-grazing dry matter (PGDM) and height, post-grazing dry matter (DM) and height, and number of live leaves per tiller (leaf regrowth stage, LS) were present in late spring. Neutral detergent fibre (NDF), acid detergent fibre (ADF), metabolisable energy (ME), and organic matter digestibility (OMD) were positively correlated to each other (r2 ≥ 0.8) whilst ADF and lipid, and ADF and OMD were negatively correlated (r2 ≥ −0.8; p < 0.01). Metabolisable energy content was negatively correlated with ADF and NDF (r2 = −0.7, −0.8, respectively), and was inversely related to PGDM. Metabolisable energy was higher (p < 0.05) in farms with shorter (overall mean: 11.2 MJ/kg DM) than longer (10.9 MJ/kg DM) RT. Crude protein was also inversely related to PGDM and was higher with shorter (23.2% DM) than longer (18.3% DM; p < 0.05) RT. Pre-grazing DM affected the amount of pasture that was grazed and, hence, the amount of DM remaining after grazing (post-grazing DM or residual), so that PGDM was correlated with post-grazing height and residual DM (r2 = 0.88 and 0.51, respectively; both p < 0.001). In conclusion, RT, LS, and PGDM during winter and spring influenced the herbage quality, therefore, better management of pastures may enhance the productivity of dairy cows.

Keeping continuous diagnostic data continuous: Application of Bayesian latent class models in veterinary research.

Bayesian finite mixture models, frequently referred to as Bayesian latent class models have become increasingly common for diagnostic test data in the absence of a gold standard test. Most Bayesian analyses in the veterinary literature have dealt with a dichotomised diagnostic outcome. The use of Bayesian finite mixture models for continuous test outcomes, such as sample to positive (S/P) ratios produced by an ELISA, is much less common, despite continuous models taking advantage of all of the information captured in the test outcome. This paper revisits the idea of the Bayesian finite mixture model and provides a practical guide for researchers who would like to use this approach for modelling continuous diagnostic outcomes as it preserves all information from the observed data. Synthetic datasets and a dataset from literature were analysed to illustrate that a mixture model with continuous diagnostic outcomes can be used to estimate true prevalence and to evaluate test sensitivity and specificity. In addition, directly modelling the continuous test outcomes rather than dichotomising them, means that optimal cut-offs can be defined based on the test purpose rather than being determined before testing. Moreover, as animals with higher scores are more likely to be infected, using continuous data allows test interpretation to be made at the individual animal level. In contrast, dichotomization treats all animals above a cut-off as having the same infection risk. This study demonstrates that dichotomisation is not a 'must' when using Bayesian latent class analysis for diagnostic test data, and suggests that latent class analysis using continuous test outcomes should be favoured when evaluating veterinary diagnostic tests producing continuous outcomes.

Evaluating Alternatives to Locomotion Scoring for Detecting Lameness in Pasture-Based Dairy Cattle in New Zealand: In-Parlour Scoring.

Earlier detection followed by efficient treatment can reduce the impact of lameness. Currently, locomotion scoring (LS) is the most widely used method of early detection but has significant limitations in pasture-based cattle and is not commonly used routinely in New Zealand. Scoring in the milking parlour may be more achievable, so this study compared an in-parlour scoring (IPS) technique with LS in pasture-based dairy cows. For nine months on two dairy farms, whole herd LS (4-point 0−3 scale) was followed 24 h later by IPS, with cows being milked. Observed for shifting weight, abnormal weight distribution, swollen heel or hock joint, and overgrown hoof. Every third cow was scored. Sensitivity and specificity of individual IPS indicators and one or more, two or more or three positive indicators for detecting cows with locomotion scores ≥ 2 were calculated. Using a threshold of two or more positive indicators were optimal (sensitivity > 92% and specificity > 98%). Utilising the IPS indicators, a decision tree machine learning procedure classified cows with locomotion score class ≥2 with a true positive rate of 75% and a false positive rate of 0.2%. IPS has the potential to be an alternative to LS on pasture-based dairy farms.

Incidence of Inadequate Transfer of Passive Immunity in Dairy Heifer Calves in South Australia.

The objective of this observational study was to estimate the incidence of inadequate transfer of passive immunity (ITPI) on five pasture-based dairy farms in South Australia. Heifer calf uptake of colostrum was evaluated within the first 1−7 days of age (n = 2638) using a digital refractometer to estimate each calf's serum total protein concentration, as an indicator of colostrum uptake. Results of <51 g/L indicated inadequate transfer of passive immunity (ITPI). The data showed that the incidence of ITPI on the farms was 6.5%, 31.3%, 48.8%, 49.7% and 52.4%. The incidence of ITPI was calculated in relation to the age of the calf at testing and the breed of calf, and no significant differences were found. A significant difference was found in the incidence of ITPI when comparing the calf's first feed after separation from the dam (colostrum versus a colostrum-transition milk mixture). The farm with the lowest incidence of ITPI collected calves twice a day, measured colostrum quality on farm with a Brix refractometer and ensured that each calf received an appropriate amount of high-quality colostrum soon after collection. Further studies are required to establish the risk factors of ITPI in South Australian dairy heifers.

A Nutritional Investigation of Major Feed Types and Feed Rations Used in Medium-Scale Dairy Production Systems in Sri Lanka.

In this paper, the nutritional quality, digestibility, and chemical composition of major feed types as well as the use of those feeds in rations by medium-scale dairy farmers in the Kurunegala district of Sri Lanka were studied. Nine dairy farms were visited fortnightly over a five-month period to identify the feeds that were commonly used. All farms operated under a stall-feeding system in which a manually mixed ration (MMR) was fed 2-3 times daily. Four forages were identified: Guinea grass ecotype A (Panicum maximum), called Guinea grass; Hybrid Napier CO-3 (Pennisetum purpureum × Pennisetum americanum), called CO-3 grass; Gliricidia (Gliricidia sepium); and maize stover (Zea mays L.), along with three other supplementary feeds (maize silage, barley distillers' by-products, and commercially formulated cattle feed). These feeds were subjected to proximate analysis and in vitro digestibility analysis. The metabolisable energy (ME) of the forages ranged from 7.5-10.0 MJ/kg dry matter (DM), with the ME of Guinea grass and CO-3 grass (7.5 and 8.0 MJ/kg DM, respectively) being lower than that of Gliricidia (10.0 MJ/kg DM). The neutral detergent fibre (NDF) concentration of both Guinea grass and CO-3 grass (both 72% DM) was much higher than that of Gliricidia (47% DM). Crude protein (CP) was higher in Gliricidia (17.5% DM) than in either Guinea grass or CO-3 grass (8.0 and 8.8% DM, respectively). The ME of the supplementary feeds varied between 11.0 and 12.8 MJ/kg DM, while CP varied between 15.0 and 24.0% DM. The daily ME intake of cows was consistently 10% lower than their calculated daily energy requirement; for dry cows, the mean intake was 90 MJ/cow/day supplied vs. 101 MJ required, while for cows in early lactation the mean intake was 126 MJ/cow/day supplied vs. 140 MJ required. The average CP intake of lactating cows (13.5% DM) was inadequate (requirements: 16 to 17.5% DM), while the average CP intake of dry cows (11.8% DM) was satisfactory (requirements: 11 to 12% DM). The current study shows that the majority of the feed types used in these medium-scale dairy farms provide insufficient ME or CP to meet the nutritional requirements of either lactating or dry cows irrespective of the quantity of feed provided.