ASAS-NANP SYMPOSIUM: prospects for interactive and dynamic graphics in the era of data-rich animal science

Statistical graphics, and data visualization, play an essential but under-utilized, role for data analysis in animal science, and also to visually illustrate the concepts, ideas, or outputs of research and in curricula. The recent rise in web technologies and ubiquitous availability of web browsers enables easier sharing of interactive and dynamic graphics. Interactivity and dynamic feedback enhance human–computer interaction and data exploration. Web applications such as decision support systems coupled with multimedia tools synergize with interactive and dynamic graphics. However, the importance of graphics for effectively communicating data, understanding data uncertainty, and the state of the field of interactive and dynamic graphics is underappreciated in animal science. To address this gap, we describe the current state of graphical methodology and technology that might be more broadly adopted. This includes an explanation of a conceptual framework for effective graphics construction. The ideas and technology are illustrated using publicly available animal datasets. We foresee that many new types of big and complex data being generated in precision livestock farming create exciting opportunities for applying interactive and dynamic graphics to improve data analysis and make data-supported decisions.     

Surveillance of antimicrobial resistance in clinical isolates of Pasteurella multocida and Streptococcus suis from Ontario swine

Susceptibility results for Pasteurella multocida and Streptococcus suis isolated from swine clinical samples were obtained from January 1998 to October 2010 from the Animal Health Laboratory at the University of Guelph, Guelph, Ontario, and used to describe variation in antimicrobial resistance (AMR) to 4 drugs of importance in the Ontario swine industry: ampicillin, tetracycline, tiamulin, and trimethoprim–sulfamethoxazole. Four temporal data-analysis options were used: visualization of trends in 12-month rolling averages, logistic-regression modeling, temporal-scan statistics, and a scan with the “What’s strange about recent events?” (WSARE) algorithm. The AMR trends varied among the antimicrobial drugs for a single pathogen and between pathogens for a single antimicrobial, suggesting that pathogen-specific AMR surveillance may be preferable to indicator data. The 4 methods provided complementary and, at times, redundant results. The most appropriate combination of analysis methods for surveillance using these data included temporal-scan statistics with a visualization method (rolling-average or predicted-probability plots following logistic-regression models). The WSARE algorithm provided interesting results for quality control and has the potential to detect new resistance patterns; however, missing data created problems for displaying the results in a way that would be meaningful to all surveillance stakeholders.     

Advancements in sensor technology and decision support intelligent tools to assist smart livestock farming

Remote monitoring, modern data collection through sensors, rapid data transfer, and vast data storage through the Internet of Things (IoT) have advanced precision livestock farming (PLF) in the last 20 yr. PLF is relevant to many fields of livestock production, including aerial- and satellite-based measurement of pasture’s forage quantity and quality; body weight and composition and physiological assessments; on-animal devices to monitor location, activity, and behaviors in grazing and foraging environments; early detection of lameness and other diseases; milk yield and composition; reproductive measurements and calving diseases; and feed intake and greenhouse gas emissions, to name just a few. There are many possibilities to improve animal production through PLF, but the combination of PLF and computer modeling is necessary to facilitate on-farm applicability. Concept- or knowledge-driven (mechanistic) models are established on scientific knowledge, and they are based on the conceptualization of hypotheses about variable interrelationships. Artificial intelligence (AI), on the other hand, is a data-driven approach that can manipulate and represent the big data accumulated by sensors and IoT. Still, it cannot explicitly explain the underlying assumptions of the intrinsic relationships in the data core because it lacks the wisdom that confers understanding and principles. The lack of wisdom in AI is because everything revolves around numbers. The associations among the numbers are obtained through the “automatized” learning process of mathematical correlations and covariances, not through “human causation” and abstract conceptualization of physiological or production principles. AI starts with comparative analogies to establish concepts and provides memory for future comparisons. Then, the learning process evolves from seeking wisdom through the systematic use of reasoning. AI is a relatively novel concept in many science fields. It may well be “the missing link” to expedite the transition of the traditional maximizing output mentality to a more mindful purpose of optimizing production efficiency while alleviating resource allocation for production. The integration between concept- and data-driven modeling through parallel hybridization of mechanistic and AI models will yield a hybrid intelligent mechanistic model that, along with data collection through PLF, is paramount to transcend the current status of livestock production in achieving sustainability.     

饲料科学的新概念——用系统思维诠释饲料科学的一些理论和技术问题

文章在总结近年来国内外动物营养学和饲料科学的最新进展的基础上,利用系统思维方式对饲料科学中间的一些理论和技术问题进行诠释,并提出了一些新概念,其中包括在后现代化时代饲料科学的历史任务、对饲料营养组成和营养特性的新见解、组合效应理论和技术、饲料营养价值评定技术新进展以及传统日粮配合技术的新进展等等,特别是首次提出了饲料-营养组学理论新的研究方向,对饲料科学和动物营养学理论和技术体系的现代化有重要意义。     

Culling policies in dairy herds. A review

The culling decision is one of the most complex decisions in farm animal management. This article reviews concepts of culling, risk factors for cows to be culled, different culling policies and the present knowledge on how to develop an optimal culling policy. It is pointed out that there are major interactions between other management complexes and culling that influence the result of field research concerning risk factors for culling. The estimated importance of risk factors for culling varies widely in literature. Culling decisions are part of the overall herd management. They cannot be analysed independently. Future research should analyse the interactions between management practices, cow health, economy, and culling in more detail.     

Target Group Segmentation in the Horse Buyers’ Market against the Background of Equestrian Experience

Whereas in former times horses were reserved primarily for people involved in agriculture, elite equestrians or the military, nowadays equestrian sport has become an activity for people with a wide variety of backgrounds. However, as more and more people become involved with equestrian sport today, the knowledge concerning animal husbandry in general is diminishing due to an alienation from agricultural themes in modern societies. As a consequence, this development affects both riding ability and the appraisal of horses, especially with respect to the purchase of horses. In order to analyse which factors influence purchase decisions in the horse market in conjunction with equestrian experience, 739 horse riders were surveyed on their purchase behaviour in this study. Using cluster analysis, a typology was generated that provides a differentiated picture of the preferences of the various rider groups. Three clusters were distinguished: the “amateurs”, the “experienced” and the “experts”. Taking personal horse riding proficiency into account, it could be concluded that especially the “amateur” group required objective criteria for the evaluation of a horse they are considering purchasing. Alongside “measureable” qualities, such as previous showing success or the level of training of the horse, also other attributes such as the simple handling of the horse should be taken into consideration. As particularly the “amateur” group in equestrian sport is increasing in numbers, it is therefore advisable when preparing a horse for sale to align oneself to the needs of this customer segment in order to ensure an effective and targeted marketing of horses.     

草原补奖政策对牧户牧业生产决策行为的影响研究

我国实施草原生态保护补助奖励政策已历经7年,实证分析该政策对牧户牧业决策行为的影响,对于完善第二期补奖政策和牧户生产决策行为的深入研究具有积极意义。研究基于草原补奖政策实施前后甘肃省牧区及半农半牧区7个县220户牧户的调查,运用Logistic模型和负二项回归模型分析了草原生态补奖政策对牧户生产决策行为的影响。结果表明:草原补奖政策对牧户的生产决策行为总体上产生了显著正向影响,但对半农半牧区牧户牧业生产决策行为的影响高于牧区;草原补奖政策并不是影响牧户生产决策行为的唯一因素,除补奖政策外,牧户生产决策行为影响因素具有非对称性。从前期牧户扩大牧业生产规模的可能性来看,牧区主要受家庭特征因素的影响,而半农半牧区主要受外部环境因素的影响。从后期牧户扩大多少牧业生产规模来看,牧区牧户关注更多的是资金、牧业生产的风险保障和饲草储备,而半农半牧区牧户则侧重于收入来源、市场行情和饲草储备。最后建议重视荒漠化草原类型,综合牧户家庭特征,实施差异化补贴;切合牧户需求,提高牧户主体决策水平,实现牧业生产效益最大化。     

The Domestic Livestock Resources of Turkey: Status,Use and Some Physical Characteristics of Mules

Mules are known to have been used as carriage and riding animals in Mesopotamia and Anatolia as early as the beginning of the second millennium BC but may have been first bred in Anatolia in the Third Century BC. They have thus contributed to Turkey’s cultural, social and economic heritage for more than 4,000 years and were an ancient component of its guild of domestic animals and overall biodiversity. Once bred country-wide most mules are now introduced “illegally” to the southeast and east from Iraq and Iran. Mules are now bred only in one small area in north-central Turkey close to the Black Sea. The major role as a pack animal has been usurped since the mid-twentieth century by increasing use of motor transport and numbers have declined rapidly since the early 1980s. In 2009 about 51,500 mules remained in Turkey, mainly distributed in discrete areas in the extreme southeast, the centre-south, the northwest and the centre-north. In the southeast the main role is in cross-border trade (much of it described as smuggling) whereas in other areas mules are used in support of pastoral and farming operations. Mules in Turkey are of various colours but are generally large and strong compared to those found in many other countries. Pressure on numbers will continue and will exert a negative effect on a part of Turkey’s national heritage and domestic animal biodiversity.     

Business intelligence tools to optimize the appropriateness of the diagnostic process for clinical and epidemiologic purposes in a multicenter veterinary pathology service

Laboratory tests provide essential support to the veterinary practitioner, and their use has grown exponentially. This growth is the result of several factors, such as the eradication of historical diseases, the occurrence of multifactorial diseases, and the obligation to control endemic and epidemic diseases. However, the introduction of novel techniques is counterbalanced by economic constraints, and the establishment of evidence- and consensus-based guidelines is essential to support the pathologist. Therefore, we developed standardized protocols, categorized by species, type of production, age, and syndrome at the Istituto Zooprofilattico Sperimentale delle Venezie (IZSVe), a multicenter institution for animal health and food safety. We have 72 protocols in use for livestock, poultry, and pets, categorized as, for example, “bovine enteric calf”, “rabbit respiratory”, “broiler articular”. Each protocol consists of a panel of tests, divided into ‘mandatory’ and ‘ancillary’, to be selected by the pathologist in order to reach the final diagnosis. After autopsy, the case is categorized into a specific syndrome, subsequently referred to as a syndrome-specific panel of analyses. The activity of the laboratories is monitored through a web-based dynamic reporting system developed using a business intelligence product (QlikView) connected to the laboratory information management system (IZILAB). On a daily basis, reports become available at general, laboratory, and case levels, and are updated as needed. The reporting system highlights epidemiologic variations in the field and allows verification of compliance with the protocols within the organization. The diagnostic protocols are revised annually to increase system efficiency and to address stakeholder requests.     

Assessing the statistical training in animal science graduate programs in the United States: survey on statistical training

Statistical analysis of data and understanding of experimental design are critical skills needed by animal science graduate students (ASGS). These skills are even more valuable with the increased development of high-throughput technologies. The objective of this study was to evaluate the perceived statistical training of U.S. ASGS. A survey with 38 questions was shared across U.S. universities, and 416 eligible ASGS from 43 universities participated in this study. The survey included questions on the demographics and overall training, graduate education on statistics, and self-assessment on statistics and career path of ASGS. Several analyses were performed: relationship between perceived received education (PRE; i.e., how ASGS evaluated their graduate education in statistics) and perceived knowledge (PK; i.e., how ASGS evaluated their knowledge in statistics from their education); ranking of statistical topics based on PRE, PK, and confidence in performing statistical analyses (CPSA); cluster analysis of statistical topics for PRE, PK, and CPSA; and factors (demographic, overall training, interest in statistics, and field of study) associated with the overall scores (OS) for PRE, PK, and CPSA. Students had greater (P < 0.05) PRE than PK for most of the statistical topics included in this study. The moderate to high repeatability of answers within statistical topics indicates substantial correlations in ASGS answers between PRE and PK. The cluster analysis resulted in distinct groups of “Traditional” and “Nontraditional” statistical topics. ASGS showed lower (P < 0.05) scores of PRE, PK, and CPSA in “Nontraditional” compared with “Traditional” statistical methods. Several factors were associated (P < 0.05) with the OS of PRE, PK, and CSPA. In general, factors related to greater training and interest in statistics of ASGS were associated with greater OS, such as taking more credits in statistics courses, having additional training in statistics outside the classroom, knowing more than one statistics software, and more. This study provided comprehensive information on the perceived level of education, knowledge, and confidence in statistics in ASGS in the United States. Although objective measurements of their training in statistics are needed, the current study suggests that ASGS have limited statistical training on topics of major importance for the current and future trends of data-driven research in animal sciences.     

Integrated surveillance of antimicrobial resistance and antimicrobial use: Evaluation of the status in Canada (2014–2019)

Objective Integrated surveillance of antimicrobial resistance (AMR) and antimicrobial use (AMU) across One Health sectors is critically important for effective, evidence-based policy, stewardship, and control of AMR. Our objective was to evaluate progress towards achieving comprehensive, integrated AMR/AMU surveillance in Canada.Materials and methods Based on an environmental scan, interviews of subject matter experts, and reports from the 2014 National Collaborating Centre for Infectious Diseases and the 2016 Canadian Council of Chief Veterinary Officers, we identified 8 core surveillance requirements and their specific components; the latter were assessed using a 2-way classification matrix, with 7 common elements ranked according to development stage.Results Components that mapped to requirements of a comprehensive, fully integrated AMR/AMU surveillance system were mostly in the lowest stages of development (Exploration or Program Adoption). However, both the establishment of the Canadian AMR Surveillance System integrated reporting and expansion of existing components under the Canadian Nosocomial Infection Surveillance Program and the Canadian Integrated Program for AMR Surveillance are improvements. Regardless, obvious gaps in Canadian AMR/AMU surveillance prevent this from being a comprehensive and integrated One Health program.Conclusion Action is needed in 3 crucial areas: i) development of a complete, integrated AMR/AMU surveillance program, based on current success; ii) changes in Federal/Provincial/Territorial policies to require standardized AMR/AMU reporting; and iii) more resources for AMR/AMU surveillance (dedicated persons, funding, and enabling structures and policy). There is an urgent need for prioritization by Federal/Provincial/Territorial governments to address governance, leadership, and funding to create surveillance systems that inform stewardship and policy.     

Flight Distance and Avoidance Score in Thoroughbred Foals and Yearlings and the Relationship with Handling Frequency in the Young Ages

Flight and avoidance reactions from human were examined using 168 postweaning Thoroughbred foals in 22 breeding farms. Further 114 yearlings of 168 foals were tested in the following summer. The foal handlings by the stabler were asked in questionnaire. The relationship between the behavioural reactions and the foal handling frequencies was analyzed. The flight reaction was estimated as the distance from the animal to a stranger when the animal began to flight away from his approach. The avoidance scores were set up from (1) (not resistant) to (5) (touch rejection) from human touching. In the stabler questionnaire, handling frequencies of “body brushing”, “rectal temperature measurement”, “hoof cleaning”, and “stall cleaning” in the early nursing period were asked. The handling frequencies were scored from (1) (not done) to (5) (every day). In the preliminary test, a measurement reliability of the flight distance and the avoidance score was confirmed. The mean flight distances were 0.56 m and 0.27 m in the postweaning foals and the yearlings, respectively. Touch-avoidance scores of the highest frequency were (3) and (2) in the postweaning foals and the yearlings, respectively. As the results of Spearman’s rank-correlation analysis, “body brushing” showed highly negative relationships with “flight distance” (ρ=–0.31, P<0.001) and “avoidance score” (ρ=–0.37, P<0.001) in the postweaning foals. In the yearlings, “hoof cleaning” also showed significantly negative relationships with these behavioural indices (ρ=–0.24, P<0.01; ρ=–0.22, P<0.01, respectively).     

Historical aspects of Potomac horse fever in Ontario (1924–2010)

In the summer of 1924 Dr. Frank W. Schofield conducted investigations into an endemic disease of horses in the Kent and Essex counties of Ontario. According to farmers in these counties the disease had existed in this region for at least 50 years previously. The clinical, pathological, histopathological, and epidemiological findings outlined in Schofield’s detailed report strongly suggest that this endemic disease was what was designated in 1979 as “Potomac horse fever” (PHF). This assumption is further substantiated by transmission experiments involving horses and laboratory animals that were conducted by Schofield utilizing horse feces, whole blood, and mayflies. The aim of this paper is to present Schofield’s detailed investigations and findings and to compare these with PHF research conducted from 1979 to 2010 that ultimately led to the discovery of Neorickettsia risticii as the etiological agent and to elucidation of the organism’s complex life cycle.     

Antimicrobial resistance in beef and dairy cattle production

Observational studies of cattle production systems usually find that cattle from conventional dairies harbor a higher prevalence of antimicrobial resistant (AMR) enteric bacteria compared to organic dairies or beef-cow operations; given that dairies usually use more antimicrobials, this result is not unexpected. Experimental studies have usually verified that application of antimicrobials leads to at least a transient expansion of AMR bacterial populations in treated cattle. Nevertheless, on dairy farms the majority of antibiotics are used to treat mastitis and yet AMR remains relatively low in mastitis pathogens. Other studies have shown no correlation between antimicrobial use and prevalence of AMR bacteria including documented cases where the prevalence of AMR bacteria is non-responsive to antimicrobial applications or remains relatively high in the absence of antimicrobial use or any other obvious selective pressures. Thus, there are multi-factorial events and pressures that influence AMR bacterial populations in cattle production systems. We introduce a heuristic model that illustrates how repeated antimicrobial selection pressure can increase the probability of genetic linkage between AMR genes and niche- or growth-specific fitness traits. This linkage allows persistence of AMR bacteria at the herd level because subpopulations of AMR bacteria are able to reside long-term within the host animals even in the absence of antimicrobial selection pressure. This model highlights the need for multiple approaches to manage herd health so that the total amount of antimicrobials is limited in a manner that meets animal welfare and public health needs while reducing costs for producers and consumers over the long-term.     

Ileocecocolic volvulus in a German shepherd dog

This report describes an ileocecocolic volvulus in a German shepherd dog with risk factors of previous abdominal surgeries and concurrent chronic enteropathy. Contrast-enhanced computed tomography (CT) with multiplanar reformatting was more sensitive than abdominal radiographs or ultrasound to obtain a diagnosis, because of the presence of a “whirl-sign” on CT. A combination of colopexy and cecopexy was succesfully used to treat the patient’s condition.     

The Business of Urban Animals Survey: The facts and statistics on companion animals in Canada

At the first Banff Summit for Urban Animal Strategies (BSUAS) in 2006, delegates clearly indicated that a lack of reliable Canadian statistics hampers municipal leaders and legislators in their efforts to develop urban animal strategies that create and sustain a healthy community for pets and people. To gain a better understanding of the situation, BSUAS municipal delegates and other industry stakeholders partnered with Ipsos Reid, one of the world’s leading polling firms, to conduct a national survey on the “Business of Urban Animals.” The results of the survey, summarized in this article, were presented at the BSUAS meeting in October 2008. In addition, each participating community will receive a comprehensive written analysis, as well as a customized report. The online survey was conducted from September 22 to October 1, 2008. There were 7208 participants, including 3973 pet and 3235 non-pet owners from the Ipsos-Reid’s proprietary Canadian online panel. The national results were weighted to reflect the true population distribution across Canada and the panel was balanced on all major demographics to mirror Statistics Canada census information. The margin for error for the national results is 1/− 1.15%.     

Dietary requirements of synthesizable amino acids by animals: a paradigm shift in protein nutrition

Amino acids are building blocks for proteins in all animals. Based on growth or nitrogen balance, amino acids were traditionally classified as nutritionally essential or nonessential for mammals, birds and fish. It was assumed that all the “nutritionally nonessential amino acids (NEAA)” were synthesized sufficiently in the body to meet the needs for maximal growth and optimal health. However, careful analysis of the scientific literature reveals that over the past century there has not been compelling experimental evidence to support this assumption. NEAA (e.g., glutamine, glutamate, proline, glycine and arginine) play important roles in regulating gene expression, cell signaling, antioxidative responses, fertility, neurotransmission, and immunity. Additionally, glutamate, glutamine and aspartate are major metabolic fuels for the small intestine to maintain its digestive function and to protect the integrity of the intestinal mucosa. Thus, diets for animals must contain all NEAA to optimize their survival, growth, development, reproduction, and health. Furthermore, NEAA should be taken into consideration in revising the “ideal protein” concept that is currently used to formulate swine and poultry diets. Adequate provision of all amino acids (including NEAA) in diets enhances the efficiency of animal production. In this regard, amino acids should not be classified as nutritionally essential or nonessential in animal or human nutrition. The new Texas A&M University’s optimal ratios of dietary amino acids for swine and chickens are expected to beneficially reduce dietary protein content and improve the efficiency of their nutrient utilization, growth, and production performance.