Measurement of joint angles for the objective assessment of limb conformation in dairy calves

Poor limb conformation in cattle is believed to be closely associated with claw and limb disorders. Limb conformation is part of genetic evaluation and is assessed visually. In this descriptive study, the assessment of conformation in calves was evaluated objectively using joint angle measurements. A total of 100, 30- to 90-d-old, heifer calves of the Brown Swiss (n = 50) and Holstein (n = 50) breeds were photographed from both sides and the front and rear. Carpal, tarsal, autopodium and fetlock joint angles of the fore- or hind limbs were measured on the images using anatomic reference points and the ImageJ/Fiji® program. Each angle was measured 3 times, and the mean was used for analysis. Values from both sides were pooled. Deviations from defined standard angles were classified as slight or moderate. The positions of the front and hind feet were measured and scored. On average, the calves had moderate "knock-kneed" carpal conformation, and the autopodium of the front limb had a slight lateral deviation. In the rear view, the calves had slight, but close to moderate, "cow-hocked" tarsal conformation, and the autopodium of the hind limbs was parallel, but close to slightly deviated. Holstein calves were moderately, and Brown Swiss calves were slightly "cow-hocked". A moderate lateral deviation occurred in the metacarpal-digit angle in the front view and a slight lateral deviation occurred in the metatarsal-digit angle in the rear view. The front feet position score was >17° in 69% of the calves, and the hind feet position score was <17° in 90% of the calves. In the side views, the calves were slightly "over at the carpus" and slightly "straight-hocked" and had average fetlock conformation. In the mean values, most measured joint angles did not correspond to the straight or parallel classifications in our calves; moderate "knock-kneed" and slight "cow-hocked", and "toed-out" classifications were most common. The limb angles measured were based on anatomical features and therefore are unlikely to change substantially with increasing age. These aspects should be considered when assessing linear traits and investigating the relationship between limb conformation and claw diseases.

Routine hoof-trimming data provides insight into the occurrence of claw lesions in Holstein herds in the central region of South Africa

Claw lesions in dairy cows contribute significantly to lameness, causing distress and discomfort for affected cows and raising welfare concerns. Despite increased awareness, lameness incidence continues to rise. Defining and recording claw traits are particularly problematic. In South Africa (SA), claw data is limited to paper-based records kept by private hoof trimmers. This research analysed claw-trimming data from five dairy farms over 6 years to examine the occurrence and recording of claw lesions in SA Holstein cattle. Lesion identification followed the Claw Lesion Identification in Dairy Cattle brochure. Among the recorded lesions, digital dermatitis (DD) had the highest prevalence (64.02%), followed by sole ulcers (SU; 8.59%), white line disease (WLD; 6.27%), and sole haemorrhage (SH; 4.28%), and most lesions occurred in the rear feet. Chi-square tests and correspondence analysis (CA) were employed to explore the relationships between lesions, feet, and housing. Results indicated that the prevalence of SU and SH showed high similarity for foot and lesion association, and that these were more highly associated with the rear feet. Additionally, the prevalence of DD and interdigital phlegmon were strongly associated, and closely associated with SU, and all these lesions were associated with both dirt lot and free-stall housing systems. CA further confirmed a close association between WLD and SH, and the prevalence of these lesions in the combination housing system. Results of this study highlight the complexity of lesion data and that specific associations between lesions could lead to simplifying the recording thereof. Consolidating the most informative claw lesions into categories will aid in the practical prevention, management, and treatment of lameness on-farm.

Modeling the economic impacts of mobility scores in dairy cows under Irish spring pasture-based management

Moderate to severe forms of suboptimal mobility on dairy cows are associated with yield losses, whereas mild forms of suboptimal mobility are associated with elevated somatic cell count and an increased risk to be culled. Although the economic consequences of severe forms of suboptimal mobility (also referred as clinical lameness) have been studied extensively, the mild forms are generally ignored. Therefore, the aim of the current study was to determine the economic consequences associated with varying prevalence and forms of suboptimal mobility within spring calving, pasture-based dairy herds. A new submodel predicting mobility scores was developed and integrated within an existing pastured-based herd dynamic model. Using a daily timestep, this model simulates claw disorders, and the consequent mobility score of individual cows. The impact of a cow having varying forms of suboptimal mobility on production and reproduction was simulated. The economic impact was simulated including treatment costs, as well as the production and reproductive impacts of varying levels of suboptimal mobility. Furthermore, different genetic predispositions for mobility issues and their interaction with herd-level management associated with each level of suboptimal mobility were simulated. Overall, 13 scenarios were simulated, representing a typical spring calving, pasture-based dairy herd with 100 cows. The first scenario represents a perfect herd wherein 100% of the cows had mobility score 0 (optimal mobility) throughout the lactation. The remaining 12 scenarios represent a combination of (1) 3 different herd-management levels, and (2) 4 different levels of a genetic predisposition for suboptimal mobility. The analysis showed that a 17% decrease in farm net profit was achieved in the worst outcome (wherein just 5% of the herd had optimal mobility) compared with the perfect herd. This was due to reduced milk yield, increased culling, and increased treatment costs for mobility issues compared the ideal scenario.

Drivers and indicators of dairy animal welfare in large-scale dairies (review)

While animal welfare concerns are rising globally, this has not been the case with lower- and middle-income economies in Africa and Asia such as Zimbabwe. These developing countries have their own problems which are not reported in developed countries, such as the harsh economic environment, limited technologies and different political and food security priorities. These factors limit focusing on animal welfare. Meanwhile, studies on animal welfare in these countries have been limited. The task of determining animal welfare is a very complex and can sometimes be very subjective since there is no gold standard protocol to be used in many developing countries. This paper reviews the main factors that are used to assess dairy animal welfare at a farm situation. The factors were categorised and generally discussed as drivers and indicators of dairy animal welfare. Key indicators reviewed in this study include but are not limited to production performance indicators, body condition scores, cleanliness scores, presence of clinical disease signs and physiological and behavioural indicators. Dairy animal welfare drivers discussed in this paper include but not limited to the general design of dairy cattle housing, presence of foot bath and shading facilities, presence and use of maternity paddocks, state of feeder and water troughs.

Pleiotropic Loci Associated With Foot Disorders and Common Periparturient Diseases in Holstein Cattle

Lameness is an animal welfare issue that incurs substantial financial and environmental costs. This condition is commonly caused by digital dermatitis (DD), sole ulcers (SU), and white line disease (WLD). Susceptibility to these three foot disorders is due in part to genetics, indicating that genomic selection against these foot lesions can be used to reduce lameness prevalence. It is unclear whether selection against foot lesions will lead to increased susceptibility to other common diseases such as mastitis and metritis. Thus, the aim of this study was to determine the genetic correlation between causes of lameness and other common health disorders to identify loci contributing to the correlation. Genetic correlation estimates between SU and DD and between SU and WLD were significantly different from zero (p < 0.05), whereas estimates between DD and mastitis, DD and milk fever, and SU and metritis were suggestive (p < 0.1). All five of these genetic correlation estimates were positive. Two-trait genome-wide association studies (GWAS) for each of these five pairs of traits revealed common regions of association on BTA1 and BTA8 for pairs that included DD or SU as one of the traits, respectively. Other regions of association were unique to the pair of traits and not observed in GWAS for other pairs of traits. The positive genetic correlation estimates between foot disorders and other health disorders imply that selection against foot disorders may also decrease susceptibility to other health disorders. Linkage disequilibrium blocks defined around significant and suggestive SNPs from the two-trait GWAS included genes and QTL that were functionally relevant, supporting that these regions included pleiotropic loci.

Genetic parameters and association of national evaluations with breeding values for health traits in US organic Holstein cows

Among other regulations, organic cows in the United States cannot receive antibiotics and preserve their organic status, emphasizing the importance of prevention of illness and benefit of high genetic merit for disease resistance. At the same time, data underlying national genetic evaluations primarily come from conventional cows, drawing concern to the possibility of a genotype by environment interaction whereby the value of a genotype varies depending on the environment, and potentially limits the relevance of these evaluations to organic cows. The objectives of this study were to characterize the genetics of and determine the presence of genotype by environment interaction for health traits in US organic dairy cows. Individual cow health data were obtained from 16 US Department of Agriculture certified organic dairy farms from across the United States that used artificial insemination and maintained detailed records. Data were obtained for the following traits: died, lameness, mastitis, metabolic diseases (displaced abomasum, ketosis, and milk fever), reproductive diseases (abortion, metritis, and retained placenta), transition health events (any health event occurring 21 d before or after parturition), and all health events. Binary phenotypes (1 = diseased, 0 = otherwise) for 38,949 lactations on 19,139 Holstein cows were used. Genotypes from 2,347 cows with 87.5% or greater Holstein breed-based representation were incorporated into single-step multitrait threshold animal models that included stayability (1 = completed lactation, 0 = otherwise). Gibbs sampling was used. Genomic predicted transmitting abilities (gPTA) from national genetic evaluations were obtained for sires for production, fitness, health, and conformation traits. We approximated genetic correlations for sires using these gPTA and our estimated breeding values. We also regressed health phenotypes on cow estimated breeding values and sire gPTA. Heritabilities (± standard error) ranged from 0.03 ± 0.01 (reproductive diseases) to 0.11 ± 0.03 (metabolic diseases). Most genetic correlations among health traits were positive, though the genetic correlation between metabolic disease and mastitis was -0.42 ± 0.17. Approximate genetic correlations between disease resistance for our health trait categories and disease resistance for the nationally-evaluated health traits generally carried the expected sign with the strongest correlation for mastitis (0.72 ± 0.084). Regression coefficients carried the expected sign and were mostly different from zero, indicating that evaluations from primarily conventional herd data predicted health on organic farms. In conclusion, use of national evaluations for health traits should afford genetic improvement for health in US organic herds.

Review of guidelines for functional claw trimming and therapeutic approach to claw horn lesions in cattle

Lameness is one of the most pressing health and welfare problems in cattle, especially on dairy farms. The most common cause of lameness is claw pathology, often due to lack of appropriate functional claw trimming. Functional claw trimming restores the physiological shape of the claws and distributes weight properly between the claws and over the claw weight-bearing surface. It also allows closer examination of the claws for early signs of pathology. The methods of functional claw trimming described in the previous century are still applicable today, considering some recent findings on the subject. It is essential not to over-trim the claws and to maintain strict hygiene of the trimming tools. Claw horn pathology in the early stages is usually treated effectively by therapeutic claw trimming alone. The stoic nature of cattle and their natural tendency to hide pain often result in delayed treatment of claw diseases, leading to more advanced stages of disease/pathology associated with higher-grade lameness. This situation often leads to the development of neuropathic pain and hyperalgesia requiring multimodal treatment. Because claw horn diseases are multifactorial, veterinarians and others involved in animal management must be familiar with the preventive measures available to improve claw health in a cattle herd. Further research to improve claw horn quality and effectively control/prevent claw infections without polluting the environment or negatively affecting worker and animal health is still needed. This article reviews the latest knowledge on functional claw trimming and treatment of the most common claw horn diseases in cattle.

Including milk production, conformation, and functional traits in multivariate models for genetic evaluation of lameness

Lameness is a serious health and welfare issue that can negatively affect the economic performance of cows, especially on pasture-based dairy farms. However, most genetic predictions (GP) of lameness have low accuracy because lameness data are often incomplete as data are collected voluntarily by farmers in countries such as Australia. The objective of this study was to find routinely measured traits that are correlated with lameness and use them in multivariate evaluation models to improve the accuracy of GP for lameness. We used health events and treatments associated with lameness recorded by Australian farmers from 2002 to early 2019. The lameness incidence rates in Holstein and Jersey cows were 3.3% and 4.6%, respectively. We analyzed the records of 36 other traits (milk production, conformation, fertility, and survival traits) to estimate genetic correlations with lameness. The estimated heritability ± standard error (and repeatability ± standard error) for lameness in both Holstein and Jersey breeds were very low: 0.007 ± 0.002 (and 0.029 ± 0.002) and 0.005 ± 0.003 (and 0.027 ± 0.006), respectively, in univariate sire models. For the GP models, we tested including measurements of overall type to prediction models for Holsteins, stature and body length for Jersey, and milk yield and fertility traits for both breeds. The average accuracy of GP, calculated from prediction error variances, were 0.38 and 0.24 for Holstein and Jersey sires, respectively, when estimated using univariate sire models and both increased to 0.43 using multivariate sire models. In conclusion, we found that the accuracy of GP for lameness could be improved by including genetically correlated traits in a multivariate model. However, to further improve the accuracy of predictions of lameness, precise identification and recording incidences of hoof or leg disorder, or large-scale recording of locomotion and claw scores by trained personnel should be considered.

Genome-Wide Association Studies Reveal Susceptibility Loci for Noninfectious Claw Lesions in Holstein Dairy Cattle

Sole ulcers (SUs) and white line disease (WLD) are two common noninfectious claw lesions (NICL) that arise due to a compromised horn production and are frequent causes of lameness in dairy cattle, imposing welfare and profitability concerns. Low to moderate heritability estimates of SU and WLD susceptibility indicate that genetic selection could reduce their prevalence. To identify the susceptibility loci for SU, WLD, SU and/or WLD, and any type of noninfectious claw lesion, genome-wide association studies (GWAS) were performed using generalized linear mixed model (GLMM) regression, chunk-based association testing (CBAT), and a random forest (RF) approach. Cows from five commercial dairies in California were classified as controls having no lameness records and ≥6 years old (n = 102) or cases having SU (n = 152), WLD (n = 117), SU and/or WLD (SU + WLD, n = 198), or any type of noninfectious claw lesion (n = 217). The top single nucleotide polymorphisms (SNPs) were defined as those passing the Bonferroni-corrected suggestive and significance thresholds in the GLMM analysis or those that a validated RF model considered important. Effects of the top SNPs were quantified using Bayesian estimation. Linkage disequilibrium (LD) blocks defined by the top SNPs were explored for candidate genes and previously identified, functionally relevant quantitative trait loci. The GLMM and CBAT approaches revealed the same regions of association on BTA8 for SU and BTA13 common to WLD, SU + WLD, and NICL. These SNPs had effects significantly different from zero, and the LD blocks they defined explained a significant amount of phenotypic variance for each dataset (6.1-8.1%, p < 0.05), indicating the small but notable contribution of these regions to susceptibility. These regions contained candidate genes involved in wound healing, skin lesions, bone growth and mineralization, adipose tissue, and keratinization. The LD block defined by the most significant SNP on BTA8 for SU included a SNP previously associated with SU. The RF models were overfitted, indicating that the SNP effects were very small, thereby preventing meaningful interpretation of SNPs and any downstream analyses. These findings suggested that variants associated with various physiological systems may contribute to susceptibility for NICL, demonstrating the complexity of genetic predisposition.

Comparison of distal forelimb conformations between Japanese Black and Holstein-Friesian newborn calves

Flexural and hyperextension deformities are congenital problems in calves. We, therefore, aimed to investigate the distal limb conformation in 1 day- and 28-day-old female Holstein-Friesian (HF) calves (n=21), male Japanese Black (JB) calves (n=15), and female JB calves (n=15). The claw angle of the forelimb dorsal claw wall in a standing position and recorded other parameters, including body weight, withers height, circumference of forelimbs, and flexor tendon thickness in the forelimbs, were measured and compared these between the three groups. At 1 day old, the mean claw angles were 51.1° in female HF calves, 47.0° in male JB calves, and 41.8° in female JB calves; the 95% confidence intervals (CIs) of the claw angles showed large distributions in all three groups. One female HF and one male JB calves showed mild flexural deformity, whereas four JB calves showed hyperextension deformity. At 28 days old, the mean claw angles were 51.7° in female HF calves, 51.2° in male JB calves, and 48.4° in female JB calves; the 95% CIs of the claw angles showed smaller distributions than those at 1 day old in all groups. For all groups, the limb deformities had improved without treatment at 28 days old. As a feature of the breed, female JB calves were apt to show hyperextended deformities inversely proportional to the body weight. These limb deformities healed spontaneously and were thought to be physiological.

Cross-sectional analyses of a national database to determine if superior genetic merit translates to superior dairy cow performance

Various studies have validated that genetic divergence in dairy cattle translates to phenotypic differences; nonetheless, many studies that consider the breeding goal, or associated traits, have generally been small scale, often undertaken in controlled environments, and they lack consideration for the entire suite of traits included in the breeding goal. Therefore, the objective of the present study was to fill this void, and in doing so, provide producers with confidence that the estimated breeding values (EBV) included in the breeding goal do (or otherwise) translate to desired changes in performance among commercial cattle; an additional outcome of such an approach is the identification of potential areas for improvements. Performance data on 536,923 Irish dairy cows (and their progeny) from 13,399 commercial spring-calving herds were used. Association analyses between the cow's EBV of each trait included in the Irish total merit index for dairy cows (which was derived before her own performance data accumulated) and her subsequent performance were undertaken using linear mixed models; milk production, fertility, calving, maintenance (i.e., liveweight), beef, health, and management traits were all considered in the analyses. Results confirm that excelling in EBV for individual traits, as well as on the total merit index, generally delivers superior phenotypic performance; examples of the improved performance for genetically elite animals include a greater yield and concentration of both milk fat and milk protein, despite a lower milk volume, superior reproductive performance, better survival, improved udder and hoof health, lighter cows, and fewer calving complications; all these gains were achieved with minimal to no effect on the beef merit of the dairy cow's progeny. The associated phenotypic change in each performance trait per unit change in its respective EBV was largely in line with the direction and magnitude of expectation, the exception being for calving interval. Per unit change in calving interval EBV, the direction of phenotypic response was as anticipated but the magnitude of the response was only half of what was expected. Despite the deviation from expectation between the calving interval EBV and its associated phenotype, a superior total merit index or a superior fertility EBV was indeed associated with an improvement in all detailed fertility performance phenotypes investigated. Results substantiate that breeding is a sustainable strategy of improving phenotypic performance in commercial dairy cattle and, by extension, profit.

Prediction of genetic merit for live weight and body condition score in dairy cows using routinely available linear type and carcass data

Accurate estimates of genetic merit for both live weight and body condition score (BCS) could be useful additions to both national- and herd-breeding programs. Although recording live weight and BCS is not technologically arduous, data available for use in routine genetic evaluations are generally lacking. The objective of the present study was to explore the usefulness of routinely recorded data, namely linear type traits (which also included BCS but only assessed visually) and carcass traits in the pursuit of genetic evaluations for both live weight and BCS in dairy cows. The data consisted of on-farm records of live weight and BCS (assessed using both visual and tactile cues) from 33,242 dairy cows in 201 commercial Irish herds. These data were complemented with information on 6 body-related linear type traits (i.e., stature, angularity, chest width, body depth, BCS, and rump width) and 3 cull cow carcass measures (i.e., carcass weight, conformation, and fat cover) on a selection of these animals plus close relatives. (Co)variance components were estimated using animal linear mixed models. The genetic correlation between the type traits stature, angularity, body depth, chest width, rump width, and visually-assessed BCS with live weight was 0.68, -0.28, 0.43, 0.64, 0.61, and 0.44, respectively. The genetic correlation between angularity and BCS measured on farm (based on both visual and tactile appraisal) was -0.79; the genetic and phenotypic correlation between BCS assessed visually as part of the linear assessment with BCS assessed by producers using both tactile and visual cues was 0.90 and 0.27, respectively. The genetic (phenotypic) correlation between cull cow carcass weight and live weight was 0.81 (0.21), and the genetic (phenotypic) correlation between cull cow carcass fat cover and BCS assessed on live cows was 0.44 (0.12). Estimated breeding values (EBV) for live weight and BCS in a validation population of cows were generated using a multitrait evaluation with observations for just the type traits, just the carcass traits, and both the type traits and carcass traits; the EBV were compared with the respective live weight and BCS phenotypic observations. The regression of phenotypic live weight on its EBV from the multitrait evaluations was 1.00 (i.e., the expectation) when the EBV was generated using just linear type trait data, but less than 1 (0.83) when using just carcass data. However, the regression changed across parities and stages of lactation. The partial correlation (after adjusting for contemporary group, parity by stage of lactation, heterosis, and recombination loss) between phenotypic live weight and EBV for live weight estimated using the 3 different scenarios (i.e., type only, carcass only, type plus carcass) ranged from 0.38 to 0.43. Although the prediction of phenotypic BCS from its respective EBV was relatively good when using just the linear type trait data (regression coefficient of 0.83 with a partial correlation of 0.22), the predictive ability of BCS EBV based on just carcass data was poor and should not be used. Overall, linear type trait data are a useful source of information to predict live weight and BCS with minimal additional predictive value from also including carcass data. Nonetheless, in the absence of linear type trait data, information on carcass traits can be useful in predicting genetic merit for mature cow live weight. Prediction of cow BCS from cow carcass data is not recommended.

The achievement of a given carcass specification is under moderate genetic control in cattle

The objective of the present study was to estimate the genetic parameters associated with the achievement of desirable weight, conformation, and fat specifications, represented by a series of binary traits. The desired specifications were those stipulated by Irish beef processors, in accordance with the EUROP carcass grading system, and were represented by a carcass weight between 270 and 380 kg, a fat score between 2+ and 4= (between 6 and 11 on a 15-point scale), and a conformation score of O= or better (≥5 on a 15-point scale). Using data from 58,868 beef carcasses, variance components were estimated using linear mixed models for these binary traits, as well as their underlying continuous measures. Heritability estimates for the continuous traits ranged from 0.63 to 0.73; heritability estimates for the binary traits ranged from 0.05 to 0.19. An additional trait was defined to reflect if all desired carcass specifications were met. All genetic correlations between this trait and the individual contributing binary traits were positive (0.38 to 0.87), while all genetic correlations between this trait and the continuous carcass measures were negative (-0.87 to -0.07). The genetic parameters estimated in the present study signify that potential exists to breed cattle that more consistently achieve desirable carcass metrics at harvest.

Profiling Detection and Classification of Lameness Methods in British Dairy Cattle Research: A Systematic Review and Meta-Analysis

Lameness is a serious concern in the dairy sector, reflecting its high incidence and impact on animal welfare and productivity. Research has provided figures on its frequency using different methodologies, making it difficult to compare results and hindering farm-level decision-making. The study's objectives were to determine the frequency levels of lameness in British dairy cattle through a meta-analysis approach, and to understand the chronological patterns of how lameness cases are detected and classified in scientific research. A systematic review was conducted using PRISMA-P guidelines for article selection. Random-effects models estimated the pooled frequency measure of lameness with heterogeneity managed through subgroup analysis and meta-regression. Sixty-eight papers were identified, 50 included prevalence and 36 incidence data. The pooled prevalence of lameness in British dairy cattle was estimated at 29.5% (95% CI 26.7-32.4%) whilst all-cause lameness incidence rate indicated 30.9 cases of lameness per 100 cow-years (95% CI 24.5-37.9). The pooled cause-specific lameness incidence rate per 100 cow-years was 66.1 (95% CI 24.1-128.8) for white line disease, 53.2 (95% CI 20.5-101.2) for sole ulcer, 53.6 (95% CI 19.2-105.34) for digital dermatitis, with 51.9 (95% CI 9.3-129.2) attributable to other lameness-related lesions. Heterogeneity levels remained high. Sixty-nine papers contributed to a chronological overview of lameness data source. Although the AHDB Dairy mobility scoring system (MSS) was launched in the UK in 2008 and adopted shortly after by the British Dairy sector as the standard tool for assessing lameness, other methods are used depending on the investigator. Automated lameness detection systems may offer a solution for the subjective nature of MSSs, yet it was utilized in one study only. Despite the recognition of under-reporting of lameness from farm records 22 (31.9%) studies used this data source. The diversity of lameness data collection methods and sources was a key finding. It limits the understanding of lameness burden and the refinement of policy making for lameness. Standardizing case definition and research methods would improve knowledge of and ability to manage lameness. Regardless of the measurement method lameness in British dairy cattle is high.

Cow and herd-level risk factors associated with mobility scores in pasture-based dairy cows

Lameness in dairy cows is an area of concern from an economic, environmental and animal welfare point of view. While the potential risk factors associated with suboptimal mobility in non-pasture-based systems are evident throughout the literature, the same information is less abundant for pasture-based systems specifically those coupled with seasonal calving, like those in Ireland. Therefore, the objective of this study was to determine the potential risk factors associated with specific mobility scores (0 = good, 1 = imperfect, 2 = impaired, and 3 = severely impaired mobility) for pasture-based dairy cows. Various cow and herd-level potential risk factors from Irish pasture-based systems were collected and analyzed for their association with suboptimal mobility, whereby a mobility score of 0 refers to cows with optimal mobility and a mobility score ≥ 1 refers to a cow with some form of suboptimal mobility. Combined cow and herd-level statistical models were used to determine the increased or decreased risk for mobility score 1, 2, and 3 (any form of suboptimal mobility) compared to the risk for mobility score 0 (optimal mobility), as the outcome variable and the various potential risk factors at both the cow and herd-level were included as predictor type variables. Cow-level variables included body condition score, milk yield, genetic predicted transmitting ability for 'lameness', somatic cell score, calving month and cow breed. Herd-level variables included various environmental and management practices on farm. These analyses have identified several cow-level potential risk factors (including low body condition score, high milk yield, elevated somatic cell count, stage of lactation, calving month, and certain breed types), as well as various herd-level potential risk factors (including the amount of time taken to complete the milking process, claw trimmer training, farm layout factors and foot bathing practices) which are associated with suboptimal mobility. The results of this study should be considered by farm advisors when advising and implementing a cow/herd health program for dairy cows in pasture-based systems.

Two-stage genome-wide association study for the identification of causal variants underlying hoof disorders in cattle

Feet and legs disorders influence dairy cattle breeding by their effect on animal welfare, economic losses due to lower production and fertility, costs of treatment, and problems with herd management. In our study, we estimated heritabilities and performed a 2-step GWAS for 3 traits describing hoof health: hoof health status defined by a veterinarian (HSV), hoof health status defined by a claw trimmer (HSC), and the total number of hoof disorders (NHD), scored in 1,998 Fleckvieh and 979 Braunvieh cows. The individuals were genotyped with a high-density (HD) panel consisting of 76,934 SNP. For significant genomic regions, the SNP information was enhanced by SNP imputed from the whole-genome sequence of Fleckvieh and Braunvieh bulls from the 1000 Bulls Genome project. The heritabilities were estimated to be 0.035 for HSV, 0.249 for HSC, and 0.279 for NHD. Based on the first-stage GWAS with SNP from the HD panel, 7 significant genomic regions on 6 chromosomes were defined: (1) 120 SNP spanning 15,522 bp on BTA1, including the TOPBP1 gene; (2) 4,139 SNP spanning 1,426,046 bp on BTA7, including the RIOK2 and RGMB genes; (3) 167 SNP spanning 167,352 bp on BTA13, including the C13H20orf194 gene; (4) 2 regions on BTA14, one harboring 1,071 SNP spanning 380,024 bp, including RRM2B and NCALD, and the other comprising 632 SNP spanning 385,111 bp, including STK3; (5) 328 SNP on BTA15, spanning 235,567 bp between FAM168A and PLEKHB1; and (6) 1,549 SNP on BTA22, spanning 596,101 bp in the neighborhood of PTPRG. Then, we conducted a second-stage GWAS based on SNP from whole-genome sequences within the significant regions obtained in the first stage of the analysis. For HSV, the highest additive effect was estimated for 23 SNP located within a region on BTA15, close to FAM168A, corresponding to a predicted gene sequence. For HSC, the highest additive effect was attributed to 44 SNP located within a region of BTA22 corresponding to 4 predicted gene sequences, with rs135082893 within a sequence encoding a microRNA. Another potential causal mutation for HSC was rs134142607 on BTA13, within the exon of C13H20orf194. For NHD, 33 SNP with the highest estimated effect were located on BTA7 within a region of a predicted gene positioned between RIOK2 and RGMB. On BTA14, all significant SNP were located in introns of STK3, which is responsible for the "abnormal gait" phenotype in mice.

Genomic Regions Associated With Skeletal Type Traits in Beef and Dairy Cattle Are Common to Regions Associated With Carcass Traits, Feed Intake and Calving Difficulty

Linear type traits describing the skeletal characteristics of an animal are moderately to strongly genetically correlated with a range of other performance traits in cattle including feed intake, reproduction traits and carcass merit; thus, type traits could also provide useful insights into the morphological differences among animals underpinning phenotypic differences in these complex traits. The objective of the present study was to identify genomic regions associated with five subjectively scored skeletal linear traits, to determine if these associated regions are common in multiple beef and dairy breeds, and also to determine if these regions overlap with those proposed elsewhere to be associated with correlated performance traits. Analyses were carried out using linear mixed models on imputed whole genome sequence data separately in 1,444 Angus, 1,129 Hereford, 6,433 Charolais, 8,745 Limousin, 1,698 Simmental, and 4,494 Holstein-Friesian cattle, all scored for the linear type traits. There was, on average, 18 months difference in age at assessment of the beef versus the dairy animals. While the majority of the identified quantitative trait loci (QTL), and thus genes, were both trait-specific and breed-specific, a large-effect pleiotropic QTL on BTA6 containing the NCAPG and LCORL genes was associated with all skeletal traits in the Limousin population and with wither height in the Angus. Other than that, little overlap existed in detected QTLs for the skeletal type traits in the other breeds. Only two QTLs overlapped the beef and dairy breeds; both QTLs were located on BTA5 and were associated with height in both the Angus and the Holstein-Friesian, despite the difference in age at assessment. Several detected QTLs in the present study overlapped with QTLs documented elsewhere that are associated with carcass traits, feed intake, and calving difficulty. While most breeding programs select for the macro-traits like carcass weight, carcass conformation, and feed intake, the higher degree of granularity with selection on the individual linear type traits in a multi-trait index underpinning the macro-level goal traits, presents an opportunity to help resolve genetic antagonisms among morphological traits in the pursuit of the animal with optimum performance metrics.

Associating cow characteristics with mobility scores in pasture-based dairy cows

The quality of dairy cow mobility can have significant welfare, economic, and environmental consequences that have yet to be extensively quantified for pasture-based systems. The objective of this study was to characterize mobility quality by examining associations between specific mobility scores, claw disorders (both the type and severity), body condition score (BCS), and cow parity. Data were collected for 6,927 cows from 52 pasture-based dairy herds, including mobility score (0 = optimal mobility; 1, 2, or 3 = increasing severities of suboptimal mobility), claw disorder type and severity, BCS, and cow parity. Multinomial logistic regression was used for analysis. The outcome variable was mobility score, and the predictor variables were BCS, type and severity of claw disorders, and cow parity. Three models were run, each with 1 reference category (mobility score 0, 1, or 2). Each model also included claw disorders (overgrown claw, sole hemorrhage, white line disease, sole ulcer, and digital dermatitis), BCS, and cow parity as predictor variables. The presence of most types of claw disorders had odds ratios >1, indicating an increased likelihood of a cow having suboptimal mobility. Low BCS (BCS <3.00) was associated with an increased risk of a cow having suboptimal mobility, and relatively higher parity was also associated with an increased risk of suboptimal mobility. These results confirm an association between claw disorders, BCS, cow parity, and dairy cow mobility score. Therefore, mobility score should be routinely practiced to identify cows with slight deviations from the optimal mobility pattern and to take preventive measures to keep the problem from worsening.