Evaluation of a Computer-aided Lung Auscultation System for Diagnosis of Bovine Respiratory Disease in Feedlot Cattle

Associations Between Thoracic Ultrasound Chute-Side Evaluations and 60-Day Outcomes in Feedyard Cattle at Time of First Treatment for Respiratory Disease

Accurate prognosis at first treatment for bovine respiratory disease (BRD) is essential for timely interventions and management decisions. This cross-sectional observational study evaluated 819 commercial beef feedyard cattle at chute-side for first BRD treatment. Logistic regression models examined potential associations between two outcomes-first treatment failure (requiring additional treatment) and unfinished treatment (due to mortality or culling)-and several explanatory variables, including sex, days on feed, bodyweight, breed, pulse oximetry, lung auscultation scores, and ultrasound lung scores (ULS) measured in the caudo-dorsal lung region. Animals that ultimately did not finish treatment were significantly more likely to present a ULS of 5 (74%) compared with those scored 1-4 (18-38%). Similarly, cattle with a ULS of 5 had a much higher probability of first treatment failure (74%) than those with scores of 1-3 (35-41%). Moreover, three or more B-lines in the ultrasound image or a "moth sign" finding were both strongly associated with increased probability of negative outcomes. These results highlight key ultrasound-based and demographic factors that serve as practical prognostic indicators for cattle at the onset of BRD treatment.

Thoracic Ultrasound in Cattle: Methods, Diagnostics, and Prognostics

Thoracic ultrasonography (TUS) has emerged as a critical tool in the diagnosis and management of respiratory diseases in cattle, particularly bovine respiratory disease (BRD), which is one of the most economically significant health issues in feedyard operations. The objective of this review is to explore TUS in veterinary medicine, including the historical development, methodologies, and clinical applications for diagnosing and prognosing respiratory diseases. This review also emphasizes the importance of operator training, noting that even novice operators can achieve diagnostic consistency with proper instructions. Ultrasound was introduced in the mid-20th century for back-fat thickness measurements; TUS has evolved to offer a non-invasive, real-time imaging modality that allows for the detection of lung and pleural abnormalities such as consolidations, pleural effusions, and B-lines. These features are vital indicators of respiratory disease, and their early identification through TUS can significantly improve clinical outcomes. Compared to traditional diagnostic methods like auscultation or radiography, TUS provides superior accuracy in detecting both subclinical and advanced respiratory conditions, particularly in high-risk populations. Furthermore, TUS has demonstrated strong prognostic value, with studies showing that the extent of lung consolidation correlates with higher relapse risk, reduced growth performance, and increased mortality.

Literature Review of the Principal Diagnostic Tests to Detect Bovine Respiratory Disease in Pre-Weaned Dairy and Veal Calves

Bovine respiratory disease (BRD) is an infection of the upper and lower respiratory tract, characterized by an inflammation of the lung. Different diagnostic tests can be used to detect BRD, including clinical respiratory scoring systems, thoracic auscultation, and imaging tests like thoracic ultrasonography and thoracic radiography. Although commonly used, none of these diagnostic tests are perfect for detecting BRD. This article reviews the advantages and drawbacks of these techniques and their performance in detecting BRD in pre-weaned dairy and veal calves.

Assessment of pain associated with bovine respiratory disease and its mitigation with flunixin meglumine in cattle with induced bacterial pneumonia

Pleuritic chest pain from bacterial pneumonia is often reported in human medicine. However, studies investigating pain associated with bovine respiratory disease (BRD) are lacking. The objectives of this study were to assess if bacterial pneumonia elicits a pain response in calves with experimentally induced BRD and to determine the analgesic effects of transdermally administered flunixin. Twenty-six calves, 6-7 months of age, with no history of BRD were enrolled into 1 of 3 treatment groups: (1) experimentally induced BRD + transdermal flunixin at 3.3 mg/kg twice, 24 h apart (BRD + FTD); (2) experimentally induced BRD + placebo (BRD + PLBO); and (3) sham induction + placebo (CNTL + PLBO). Calves induced with BRD were inoculated with Mannheimia haemolytica via bronchoalveolar lavage. Outcomes were collected from -48 to 192 hours post-treatment and included serum cortisol; infrared thermography; mechanical nociceptive threshold; substance P; kinematic gait analysis; visual analog scale (VAS); clinical illness score; computerized lung score; average activity and rumination level; prostaglandin E2 metabolite; plasma serum amyloid A and rectal temperature. Outcomes were evaluated using either a generalized logistic mixed model for categorical variables or a generalized linear mixed model for continuous variables. Right front force differed by treatment (P = 0.01). The BRD + PLBO had lower mean force applied to the right front limb (85.5 kg) compared to BRD + FTD (96.5 kg) (P < 0.01). Average VAS differed by a treatment by time interaction (P = 0.01). The VAS scores differed for BRD + PLBO at -48 (3.49 mm) compared to 168 and 192 h (13.49 and 13.64 mm, respectively) (P < 0.01). Activity for BRD + PLBO was higher at -48 h (27 min/h) compared to 48, 72, 120 and 168 h (≤ 22.24 min/h) (P < 0.01). Activity differed by a treatment by time interaction (P = 0.01). Activity for BRD + FTD was higher at -48 and 0 h (28.2 and 28.2 min/h, respectively) compared to 48, 72, 96 and 168 h (≤ 23.7 min/h) (P < 0.01). Results show a combination of reduced activity levels, decreased force on the right front limb, and increased visual analog scale pain scores all support that bacterial pneumonia in cattle is painful. Differences in right front force indicate that flunixin transdermal may attenuate certain pain biomarkers in cattle with BRD. These findings suggest that BRD is painful and analgesic drugs may improve the humane aspects of care for cattle with BRD.

Portable Electronic Nose for Analyzing the Smell of Nasal Secretions in Calves: Toward Noninvasive Diagnosis of Infectious Bronchopneumonia

The paper demonstrates a new approach to identify healthy calves (“healthy”) and naturally occurring infectious bronchopneumonia (“sick”) calves by analysis of the gaseous phase over nasal secretions using 16 piezoelectric sensors in two portable devices. Samples of nasal secretions were obtained from 50 red-motley Holstein calves aged 14–42 days. Calves were subjected to rectal temperature measurements, clinical score according to the Wisconsin respiratory scoring chart, thoracic auscultation, and radiography (Carestream DR, New York, USA). Of the 50 calves, we included samples from 40 (20 “healthy” and 20 “sick”) in the training sample. The remaining ten calves (five “healthy” and five “sick”) were included in the test sample. It was possible to divide calves into “healthy” and “sick” groups according to the output data of the sensor arrays (maximum sensor signals and calculated parameters A_i/j) using the principal component linear discriminant analysis (PCA–LDA) with an accuracy of 100%. The adequacy of the PCA–LDA model was verified on a test sample. It was found that data of sensors with films of carbon nanotubes, zirconium nitrate, hydroxyapatite, methyl orange, bromocresol green, and Triton X-100 had the most significance for dividing samples into groups. The differences in the composition of the gaseous phase over the samples of nasal secretions for such a classification could be explained by the appearance or change in the concentrations of ketones, alcohols, organic carboxylic acids, aldehydes, amines, including cyclic amines or those with a branched hydrocarbon chain.

Predicting bovine respiratory disease outcome in feedlot cattle using latent class analysis

Bovine respiratory disease (BRD) is the most significant disease affecting feedlot cattle. Indicators of BRD often used in feedlots such as visual signs, rectal temperature, computer-assisted lung auscultation (CALA) score, the number of BRD treatments, presence of viral pathogens, viral seroconversion, and lung damage at slaughter vary in their ability to predict an animal’s BRD outcome, and no studies have been published determining how a combination of these BRD indicators may define the number of BRD disease outcome groups. The objectives of the current study were (1) to identify BRD outcome groups using BRD indicators collected during the feeding phase and at slaughter through latent class analysis (LCA) and (2) to determine the importance of these BRD indicators to predict disease outcome. Animals with BRD (n = 127) were identified by visual signs and removed from production pens for further examination. Control animals displaying no visual signs of BRD (n = 143) were also removed and examined. Blood, nasal swab samples, and clinical measurements were collected. Lung and pleural lesions indicative of BRD were scored at slaughter. LCA was applied to identify possible outcome groups. Three latent classes were identified in the best model fit, categorized as non-BRD, mild BRD, and severe BRD. Animals in the mild BRD group had a higher probability of having visual signs of BRD compared with non-BRD and severe BRD animals. Animals in the severe BRD group were more likely to require more than 1 treatment for BRD and have ≥40 °C rectal temperature, ≥10% total lung consolidation, and severe pleural lesions at slaughter. Animals in the severe BRD group were also more likely to be naïve at feedlot entry and the first BRD pull for Bovine Viral Diarrhoea Virus, Bovine Parainfluenza 3 Virus, and Bovine Adenovirus and have a positive nasal swab result for Bovine Herpesvirus Type 1 and Bovine Coronavirus. Animals with severe BRD had 0.9 and 0.6 kg/d lower overall ADG (average daily gain) compared with non-BRD animals and mild BRD animals (P < 0.001). These results demonstrate that there are important indicators of BRD severity. Using this information to predict an animal’s BRD outcome would greatly enhance treatment efficacy and aid in better management of animals at risk of suffering from severe BRD.

Evaluation of Antimicrobial or Non-antimicrobial Treatments in Commercial Feedlot Cattle With Mild Bovine Respiratory Disease Based on a Refined Case-Definition

The study objective was to compare clinical and performance outcomes among feedlot steers treated for bovine respiratory disease (BRD) with tildipirosin (TIL), flunixin transdermal solution (FTS; topical application), or both, based on a refined BRD case-definition. Crossbred steer calves (N = 2,380) were enrolled based on a clinical illness score (CIS) of 1–3; a rectal temperature between >102.5° F and ≤103.9° F; and a Whisper Score (WS) = 1 or ≥2. Within each WS stratum, steers were randomly allocated to Saline, TIL, FTS, or TIL + FTS to reflect a 2 × 2 factorial design. Individual health and performance outcomes were measured on Day 60 and closeout. From Day 0 through Day 60, in both strata, TIL resulted in significantly (P ≤ 0.05) fewer BRD retreatment events, fewer 3rd BRD treatments, fewer steers that did not finish, and greater average daily gain when compared to steers that were not treated with TIL. From Day 0 through closeout, cattle with a WS ≥ 2, treated with TIL had fewer animals (P ≤ 0.05) that did not finish compared to steers not treated with TIL. In this study, feedlot steers with clinical signs of BRD and rectal temperatures lower than traditional cutoffs displayed a positive response to antimicrobial therapy. A clear benefit of FTS was not observed in this study. Calves with a WS ≥ 2 were lighter at the time of first BRD treatment compared to calves with a WS = 1. However, standalone TIL therapy was the optimal BRD treatment modality across WS strata in this study.

Progression of nasopharyngeal and tracheal bacterial microbiotas of feedlot cattle during development of bovine respiratory disease

It is generally accepted that as bovine respiratory disease (BRD) develops, bacterial pathogens first proliferate in the nasopharynx and then colonize the lungs, leading to bronchopneumonia. However, such temporal changes have never been definitively demonstrated. Therefore, the objective was to describe the progression of the nasopharyngeal and tracheal bacterial microbiotas of feedlot cattle during development of BRD. Nasopharyngeal swabs and tracheal wash samples were collected from 24 heifers over 20 d after arrival at a feedlot. Heifers were assessed daily and sampled based on reticulo-rumen/rectal temperatures and development of clinical signs of BRD. The study end point for each heifer was either at BRD treatment (BRD group; n = 15) or day 20 if the heifer remained healthy or did not meet BRD treatment criteria (TOL group; n = 9). Total DNA was extracted from each sample and the 16S rRNA gene (V3-V4) sequenced. Alpha and beta diversity were compared between BRD-TOL groups and sampling locations over time. There were no common patterns of change over time in composition or diversity of either the nasopharyngeal or tracheal bacterial microbiotas of cattle that developed BRD. Health status affected bacterial composition (R² = 0.043; < 0.001), though this effect was low compared to variation among individual animals (R² = 0.335; < 0.001) and effects of days on feed (R² = 0.082; < 0.001). Specific bacterial taxa (Moraxella and Mycoplasma dispar) nevertheless appeared to have a potential role in respiratory health.

Bovine Respiratory Disease: Looking Back and Looking Forward, What Do We See?

Changes in cattle feeding in the twentieth century led to the "Golden Age of Cattle Feeding" on the US High Plains; this was accompanied by recognition that bovine respiratory disease (BRD) is the leading cause of feedlot morbidity and mortality. Decades of research have illuminated the multiple viruses and bacteria that contribute to BRD, which led to vaccines and antimicrobials to prevent, treat, and control BRD. Despite these discoveries, feedlot BRD morbidities do not appear to have changed substantially over this time. New technologies are being developed that have the potential to improve accuracy of BRD detection.

Bovine Respiratory Disease Diagnosis: What Progress Has Been Made in Clinical Diagnosis?

Bovine respiratory disease (BRD) complex is a worldwide health problem in cattle and is a major reason for antimicrobial use in young cattle. Several challenges may explain why it is difficult to make progress in the management of this disease. This article defines the limitation of BRD complex nomenclature, which may not easily distinguish upper versus lower respiratory tract infection and infectious bronchopneumonia versus other types of respiratory diseases. It then discusses the obstacles to clinical diagnosis and reviews the current knowledge of readily available diagnostic test to reach a diagnosis of infectious bronchopneumonia.

Details to Attend to When Managing High-Risk Cattle

This article provides insights into the management of bovine respiratory disease in high-risk cattle populations. Biocontainment strategies, records, procurement, transport, arrival/receiving management, vaccination, and treatment protocols are discussed from practical and systems-thinking perspectives regarding their impact on health in high-risk cattle. Arrival management considerations, such as facilities, nutritional management, metaphylaxis, bovine viral diarrhea virus persistent infection testing, parasite control, and castration, are also addressed. Caretaker morale and job satisfaction are suggested as important factors to consider when managing high-risk cattle. The inter-relationships of variables within the system are explored as contributing causative factors to bovine respiratory disease in high-risk cattle.

Diagnosis of Bovine Respiratory Disease in feedlot cattle using blood 1H NMR metabolomics

Current diagnosis methods for Bovine Respiratory Disease (BRD) in feedlots have a low diagnostic accuracy. The current study aimed to search for blood biomarkers of BRD using ¹H NMR metabolomics and determine their accuracy in diagnosing BRD. Animals with visual signs of BRD (n = 149) and visually healthy (non-BRD; n = 148) were sampled for blood metabolomics analysis. Lung lesions indicative of BRD were scored at slaughter. Non-targeted ¹H NMR metabolomics was used to develop predictive algorithms for disease classification using classification and regression trees. In the absence of a gold standard for BRD diagnosis, six reference diagnosis methods were used to define an animal as BRD or non-BRD. Sensitivity (Se) and specificity (Sp) were used to estimate diagnostic accuracy (Acc). Blood metabolomics demonstrated a high accuracy at diagnosing BRD when using visual signs of BRD (Acc = 0.85), however was less accurate at diagnosing BRD using rectal temperature (Acc = 0.65), lung auscultation score (Acc = 0.61) and lung lesions at slaughter as reference diagnosis methods (Acc = 0.71). Phenylalanine, lactate, hydroxybutyrate, tyrosine, citrate and leucine were identified as metabolites of importance in classifying animals as BRD or non-BRD. The blood metabolome classified BRD and non-BRD animals with high accuracy and shows potential for use as a BRD diagnosis tool.

Performance of multiple diagnostic methods in assessing the progression of bovine respiratory disease in calves challenged with infectious bovine rhinotracheitis virus and Mannheimia haemolytica1

The objective of this study was to evaluate the diagnostic performance of chute-side diagnostic methods for detecting physiological and pathological changes as indicators of early bovine respiratory disease (BRD) in calves experimentally inoculated with infectious bovine rhinotracheitis virus (IBR) and Mannheimia haemolytica (Mh). A challenge study was performed over 14 d in 30 Holstein steers [average weight (±SEM) = 211 kilograms (kg) ± 2.4 kg] inoculated on day 0 with IBR and on day 6 with Mh. Diagnostic methods included clinical illness scores (CIS), lung auscultation using a computer-aided stethoscope (CAS), rectal temperature, facial thermography, pulse oximetry, and bilateral thoracic ultrasonography. Animals were randomized into 1 of 5 necropsy days (days 6, 7, 9, 11, and 13) when the percentage of lung consolidation was estimated. The effect of study day on the results of the diagnostic methods and associations between each diagnostic method's values with lung consolidation measured at necropsy were determined with mixed models. Values for all diagnostic methods differed significantly (P < 0.01) by day. During the IBR phase (days 0 to 6) calves had "normal" to "moderate" CIS, whereas during the Mh phase (days 6.5 to 13) scores were predominantly "severe" to "moribund." Similarly, CAS scores were "normal" and "mild acute" during the IBR phase and "mild acute" to "moderate acute" after the Mh challenge. Oxygen saturation did not differ significantly between days 0, 1, 2, 4, and 6; however, significantly decreased 12 h after inoculation with Mh (P < 0.05). Mean lung consolidation between animal's right and left side recorded by ultrasound was 0.13% (±0.07) before the inoculation with Mh. However, during the Mh phase, mean consolidation increased significantly over time (P < 0.05). The percentage of lung consolidation at necropsy ranged from 1.7% (±0.82) on day 6 to 55.4% (±7.49) on day 10. Clinical illness scores, rectal temperature, facial thermography, oxygen saturation, and ultrasonography were significantly associated (P < 0.05) with lung consolidation at necropsy. In addition, there was a significant trend (P = 0.07) between CAS and lung consolidation scores at necropsy. These chute-side diagnostic methods are useful for detecting disease progression on animals with early stages of BRD.

Accuracy and inter-rater reliability of lung auscultation by bovine practitioners when compared with ultrasonographic findings

In practice, veterinary surgeons frequently rely on lung auscultation as a confirmation test for pneumonia. To what extent diagnostic accuracy of lung auscultation varies between different practitioners is currently unknown. In this diagnostic test study, 49 Dutch veterinarians each auscultated between 8 and 10 calves, and communicated whether they would decide to treat the animal with antimicrobials or not. They were not allowed to perform any other aspect of the clinical examination. Their decisions were compared with lung ultrasonography findings. The average sensitivity and specificity of lung auscultation were 0.63 (sd=0.2; range=0.2-1.0) and 0.46 (sd=0.3; range=0.0-1.0), respectively. Of the participants, 8.2 per cent were 100 per cent sensitive, 16.3 per cent were 100 per cent specific, and only 4.0 per cent were perfect. The Krippendorff's alpha was 0.18 (95 per cent confidence interval: -0.01 to 0.38), signifying poor reliability between multiple raters. Regardless of the poor diagnostic accuracy in this study, especially the large variation in a confirmation test between different practitioners could potentially cause professional damage as well as misuse of antimicrobials. This study could be seen as a gentle stimulus to regularly evaluate one's diagnostic skills. Both complementary training and the use of more accurate techniques with less inter-rater variation could improve the situation.

Inter-rater agreement and reliability of thoracic ultrasonographic findings in feedlot calves, with or without naturally occurring bronchopneumonia

BACKGROUND

Thoracic ultrasonography (TUS) can be used to assess the extent and severity of lung lesions associated with bronchopneumonia (BP) in feedlot cattle.

HYPOTHESIS/OBJECTIVES

To assess inter-rater agreement and reliability of TUS findings in feedlot cattle, with or without naturally occurring BP.

ANIMALS

Feedlot steers with (n = 210) or without (n = 107) clinical signs of BP that were assessed by TUS in a previous case-control study.

METHODS

A random sample of 50 TUS videos (16-s duration) were scored by 6 raters with various levels of TUS expertise. Lung consolidation, comet tail artifacts, pleural irregularity and effusion were scored. Inter-rater agreement was assessed using raw percentage of agreement (Pa), Cohen's and Fleiss' Kappa (κ), and Gwet agreement coefficient (AC1). Intra-class correlation (ICC) was determined for variables with continuous measurements (mixed factorial design).

RESULTS

Median (interquartile range [IQR]) Pa were 0.84 (0.80-0.89), 0.82 (0.80-0.87), 0.62 (0.53-0.67), and 0.82 (0.75-0.86) for presence of lung consolidation, comet tails, pleural irregularity, and pleural effusion, respectively. For the same lesions, Fleiss κ (95% confidence intervals [CI]) were 0.67 (0.49-0.86), 0.56 (0.33-0.80), 0.20 (-0.05 to 0.44), and 0.36 (0.10-0.61), respectively. AC1 were 0.68 (0.51-0.86), 0.73 (0.58-0.89), 0.21 (-0.01 to 0.44), and 0.71 (0.51-0.92), respectively. Moderate reliability was found among raters for all quantitative variables (ICC ranged from 0.52 to 0.70).

CONCLUSIONS AND CLINICAL IMPORTANCE

Inter-rater agreement was good for presence of lung consolidation, comet tails and pleural effusion (based on Pa and AC1) but was slight to poor for pleural irregularity.

Antimicrobial Stewardship in Veterinary Medicine

While antimicrobial resistance is already a public health crisis in human medicine, therapeutic failure in veterinary medicine due to antimicrobial resistance remains relatively uncommon. However, there are many pathways by which antimicrobial resistance determinants can travel between animals and humans: by close contact, through the food chain, or indirectly via the environment. Antimicrobial stewardship describes measures that can help mitigate the public health crisis and preserve the effectiveness of available antimicrobial agents. Antimicrobial stewardship programs have been principally developed, implemented, and studied in human hospitals but are beginning to be adapted for other applications in human medicine. Key learning from the experiences of antimicrobial stewardship programs in human medicine are summarized in this article-guiding the development of a stewardship framework suitable for adaptation and use in both companion animal and livestock practice. The antimicrobial stewardship program for veterinary use integrates infection prevention and control together with approaches emphasizing avoidance of antimicrobial agents. The 5R framework of continuous improvement that is described recognizes the importance of executive support; highly motivated organizations and teams (responsibility); the need to review the starting position, set objectives, and determine means of measuring progress and success; and a critical focus on reducing, replacing, and refining the use of antimicrobial agents. Significant issues that are currently the focus of intensive research include improved detection and diagnosis of infections, refined dosing regimens that are simultaneously effective while not selecting resistance, searches for alternatives to antimicrobial agents, and development of improved vaccines to enhance immunity and reduce disease.

Performance and welfare of steers housed on concrete slatted floors at fixed and dynamic (allometric based) space allowances

The objectives of the study were to determine whether allometric equations are suitable for estimating the space requirements of finishing beef cattle housed on concrete slatted floors (CSF) and to examine the effect of fixed and dynamic space allowances on the performance and welfare of these cattle. Continental crossbred steers [n = 120: mean initial live weight, 590 (SD 29.8) kg] were blocked by breed, weight, and age and assigned to 1 of 5 space allowance treatments (3 fixed and 2 dynamic) on CSF: 1) 2.0 m2 per animal, 2) 2.5 m2 per animal, 3) 3.0 m2 per animal, 4) Equation 1 (E1); y = 0.033w0.667, where y = m2 per animal and w = body weight, and 5) Equation 2 (E2); y = 0.048w0.667. The length of the feed face was 3.0 m for all treatments. Steers were offered grass silage and concentrates ad libitum. DMI was recorded weekly on a pen basis. Steers were weighed and dirt scored every 14 d. Blood samples were collected every 28 d, and analyzed for complete cell counts. Behavior was recorded using closed-circuit infrared cameras. Steers' hooves were inspected for lesions at the beginning of the study and post-slaughter. Slaughter weight and ADG were lowest, and feed conversion ratio (FCR) was poorest, for steers accommodated at 2.0 m2, and slaughter weight and ADG were greatest, and FCR was the best, for steers accommodated at E2 (P < 0.05); steers accommodated at 2.5 m2 were intermediate (P > 0.05) to those accommodated at 2.0 m2 and both 3.0 m2 and E1, whereas steers accommodated at 3.0 m2 and E1 were intermediate (P > 0.05) to 2.5 m2 and E2. Carcass weight of steers housed at 2.0 m2 was lower (P < 0.05) than all other treatments. Steers housed at 2.5 m2 had lower carcass weights (P < 0.05) than those with accommodated at E1 and E2, whereas the carcass weight of steers accommodated at 3.0 m2 was intermediate. Carcass fat scores and hide weights were lower (P < 0.05) in steers accommodated at 2.0 m2 than those housed at E2 with other treatments being intermediate. The number of steers lying at any one time and the number of steers observed grooming themselves was lower (P < 0.05) at 2.0 m2 than any other treatment. Dirt scores, hoof lesion number, and hematological measurements were not affected by treatment. It was concluded that 2.0 m2 per animal was an insufficient space allowance for housing finishing beef steers and that the equation y = 0.033w0.667 is sufficient for estimating the space required by finishing beef cattle housed on CSF.

Disparity in the nasopharyngeal microbiota between healthy cattle on feed, at entry processing and with respiratory disease

Bovine respiratory disease (BRD) is one of the most serious causes of health and economic problems in the beef production industry, especially in recently weaned, intensely raised and newly transported feedlot cattle. While the importance of upper airway structure and function in the susceptibility of the lower respiratory tract to colonization with potential pathogens is well established, the role of the mucosal microbiota in respirtatory health is less well defined. The objective of this study was to characterize the nasopharyngeal microbiota of feedlot cattle at entry into a commercial feedlot, during initial management processing, and to compare the dynamics of change in these microbial communities between clinically healthy calves and those that develop BRD within the first month after entry. Deep nasopharyngeal swabs were collected from randomly selected healthy calves (n=66) during initial handling and processing at the feedlot, and again at the initial diagnosis of BRD (n=22). Clinically healthy pen matched controls calves (n=10) were sampled at the same time as the BRD affected animals. Genomic DNA was extracted from each sample, and the 16S rRNA gene V1-V3 hypervariable region was amplified and sequenced using the Illumina MiSeq platform. Across all the samples, the predominant bacterial phyla were Proteobacteria, Firmicutes and Actinobacteria. While the predominant genera were Moraxella, Mycoplasma and Acinetobacter. Linear discriminant analysis (LDA) effect size (LEfSe) revealed significant differences in bacterial taxa between healthy and BRD affected calves. Discriminant analysis revealed that the nasopharyngeal microbiota in feedlot calves at entry and in BRD affected calves were distinct from pen matched healthy calves. While the temporal dynamics of this shift were not examined in this study, it is possible that the observed changes in mucosal microbiota are linked to the increased susceptibility of calves to BRD during the first month after entry in to the feedlot. Additional studies are needed to examine the trajectory of change in nasopharyngeal microbial communities from entry to disease onset, and to explore the impact of other factors such as diet transition, commingling, vaccination and housing on the nasopharyngeal microbiota of growing cattle.

Relationship between nasopharyngeal and bronchoalveolar microbial communities in clinically healthy feedlot cattle

BACKGROUND

The importance of upper airway structure in the susceptibility of the lower respiratory tract to colonization with potential pathogens is well established. With the advent of rapid, high throughput, next generation sequencing, there is a growing appreciation of the importance of commensal microbial populations in maintaining mucosal health, and a realization that bacteria colonize anatomical locations that were previously considered to be sterile. While upper respiratory tract microbial populations have been described, there are currently no published studies describing the normal microbial populations of the bovine lower respiratory tract. Consequently, we have little understanding of the relationship between upper and lower respiratory tract microbiota in healthy cattle. The primary objective of our study was to characterize the composition, structure and relationship of the lower and upper respiratory microbial communities in clinically healthy feedlot cattle. Nasopharyngeal swabs (NPS), and bronchoalveolar lavage (BAL) fluid, were collected from clinically healthy feedlot calves (n = 8). Genomic DNA from each sample was extracted, and the V3-V4 hypervariable region of the bacterial 16S rRNA gene was amplified and sequenced using Illumina Miseq platform.

RESULTS

Across all samples, the most predominant phyla were Proteobacteria, Actinobacteria and Firmicutes. The most common genera were Rathayibacter, Mycoplasma, Bibersteinia and Corynebacterium. The microbial community structure was distinct between these two biogeographical sites. Most of the bacterial genera identified in the BAL samples were also present in the NPS, but biogeographical-specific genera were enriched in both the NPS (Rathayibacter) and BAL (Bibersteinia) samples. There were strong associations between the presence of certain taxa at each specific location, and strong correlations between the presence of specific taxa in both the NPS and BAL samples.

CONCLUSIONS

The correlation between the presence of specific taxa in both the NPS and BAL samples, supports the notion of a mutualistic interrelationship between these microbial communities. Future studies, in large cohorts of animals, are needed to determine the role and clinical importance of the relationships of respiratory tract microbial communities with health, productivity, and susceptibility to the development of respiratory disease, in growing cattle.

Incremental Value (Bayesian Framework) of Thoracic Ultrasonography over Thoracic Auscultation for Diagnosis of Bronchopneumonia in Preweaned Dairy Calves

Background

Thoracic ultrasonography (TUS) is a specific and relatively sensitive method to diagnose bronchopneumonia (BP) in dairy calves. Unfortunately, as it requires specific training and equipment, veterinarians typically base their diagnosis on thoracic auscultation (AUSC), which is rapid and easy to perform.

Hypothesis/Objectives

We hypothesized that the use of TUS, in addition to AUSC, can significantly increase accuracy of BP diagnosis. Therefore, the objectives were to (i) determine the incremental value of TUS over AUSC for diagnosis of BP in preweaned dairy calves and (ii) assess diagnostic accuracy of AUSC.

Animals

Two hundred and nine dairy calves (<1 month of age) were enrolled in this cross‐sectional study.

Methods

Prospective cross‐sectional study. All calves from a veal calves unit were examined (independent operators) using the Wisconsin Calf Respiratory Scoring Criteria (CRSC), AUSC, and TUS. A Bayesian latent class approach was used to estimate the incremental value of AUSC over TUS (integrated discrimination improvement [IDI]) and the diagnostic accuracy of AUSC.

Results

Abnormal CRSC, AUSC, and TUS were recorded in 3.3, 53.1, and 23.9% of calves, respectively. AUSC was sensitive (72.9%; 95% Bayesian credible interval [BCI]: 50.1–96.4%), but not specific (53.3%; 95% BCI: 43.3–64.0%) to diagnose BP. Compared to AUSC, TUS was more specific (92.9%; 95% BCI: 86.5–97.1%), but had similar sensitivity (76.5%; 95% BCI: 60.2–88.8%). The incremental value of TUS over AUSC was high (IDI = 43.7%; 5% BCI: 22.0–63.0%) significantly improving proportions of sick and healthy calves appropriately classified.

Conclusions and Clinical Importance

The use of TUS over AUSC significantly improved accuracy of BP diagnosis in dairy calves.