Journal Articles

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    Rule Discovery in Milk Content towards Mastitis Diagnosis: Dealing with Farm Heterogeneity over Multiple Years through Classification Based on Associations
    (MDPI (Basel, Switzerland), 2021-06-01) Ebrahimie E; Mohammadi-Dehcheshmeh M; Laven R; Petrovski KR; Alfson KJ; Clemmons EA; Dutton III JW
    Subclinical mastitis, an economically challenging disease of dairy cattle, is associated with an increased use of antimicrobials which reduces milk quantity and quality. It is more common than clinical mastitis and far more difficult to detect. Recently, much attention has been paid to the development of machine-learning expert systems for early detection of subclinical mastitis from milking features. However, differences between animals within a farm as well as between farms, particularly across multiple years, are major obstacles to the generalisation of machine learning models. Here, for the first time, we integrated scaling by quartiling with classification based on associations in a multi-year study to deal with farm heterogeneity by discovery of multiple patterns towards mastitis. The data were obtained from one farm comprising Holstein Friesian cows in Ongaonga, New Zealand, using an electronic automated monitoring system. The data collection was repeated annually over 3 consecutive years. Some discovered rules, such as when the milking peak flow is low, electrical conductivity (EC) of milk is low, milk lactose is low, milk fat is high, and milk volume is low, the cow has subclinical mastitis, reached high confidence (>70%) in multiple years. On averages, over 3 years, low level of milk lactose and high value of milk EC were part of 93% and 83.8% of all subclinical mastitis detecting rules, offering a reproducible pattern of subclinical mastitis detection. The scaled year-independent combinational rules provide an easy-to-apply and cost-effective machine-learning expert system for early detection of hidden mastitis using milking parameters.
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    Risk Factors Associated With Mastitis in Smallholder Dairy Farms in Southeast Brazil
    (MDPI (Basel, Switzerland), 2021-07-14) Silva AC; Laven R; Benites NR; Persson Y; Rahman MM
    The aim of this study was to investigate the potential risk factors for clinical and subclinical mastitis in smallholder dairy farms in Brazil. A prospective, repeated cross-sectional study was carried out between May 2018 and June 2019 on 10 smallholder dairy farms. Potential risk factors for subclinical and clinical mastitis at the herd and cow level were recorded through interviewing the owner and by observation. A combination of clinical udder examination and the Tamis (screened mug with a dark base) test (Tadabras Indústria e Comércio de Produtos Agrovetereinário LTDA, Bragrança Paulista, SP, Brazil) were applied to observe clinical mastitis, and the California Mastitis Test (Tadabras Indústria e Comércio de Produtos Agrovetereinário LTDA, Bragrança Paulista, SP, Brazil) was used to determine subclinical mastitis. A total of 4567 quarters were tested, 107 (2.3%) had clinical mastitis, while 1519 (33.2%) had subclinical mastitis. At the cow level, clinical mastitis risk was highest in mid-lactation (50-150 days in milk) with OR 2.62 with 95% confidence interval (CI) of 1.03-6.67, while subclinical mastitis was highest in late lactation (> 150 days in milk) with OR 2.74 (95% CI 2.05-3.63) and lower in primiparous (OR 0.54, 95% CI 0.41-0.71) than multiparous cows. At the herd level, using dry-cow treatment (OR 4.23, 95% CI 1.42-12.62) was associated with an increased risk of clinical mastitis. Milking clinical (OR 0.37, 95% CI 0.24-0.56) and subclinical cases last (OR 0.21, 95% CI 0.09-0.47) and cleaning the milking parlor regularly (OR 0.27, 95% CI 0.15-0.46) had decreased odds for subclinical mastitis, while herds with optimized feed had greater odds (OR 9.11, 95% CI 2.59-31.9). Prevalence of clinical mastitis was at its lowest at the first visit in June/July and highest at the last visit in April/June (OR 3.81, 95% CI 1.93-7.52). Subclinical mastitis also presented increased odds in the last visit (OR 2.62, 95% CI 2.0-3.36). This study has identified some risk factors for mastitis on smallholder farms but further research on more farms across more areas of Brazil is required to develop a targeted mastitis control program for smallholder farms.
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    The pattern of breeding and management within the New Zealand Thoroughbred breeding industry 2005-2015. (II) The mare population
    (CSIRO Publishing, 2024-01) Chin YY; Rogers CW; Gee EK; Stafford KJ; Cameron EZ
    Context: The New Zealand Thoroughbred breeding industry is heavily focused on producing horses for the export market and there has been a reduction in the number of horses racing in the past 20 years. The impact of these production constraints, and changes in production focus, have not been described at a national herd level. Aim: To describe the breeding management, reproductive performance, and careers of the New Zealand Thoroughbred broodmare herd during the 2005/06-2015/16 breeding seasons. Methods: The demographics, population structure, reproductive efficiency, breeding management and career descriptors of Thoroughbred mares were examined using descriptive analysis. Gestation length was modelled using a linear mixed effects model. The impact of different variables on breeding career were quantified by calculating odds ratio. Results: There was a consistent reduction in the size of the national broodmare herd over the 10 years investigated. Half of the mares not retained for breeding were mares that were breed to low-cost stallions. Despite a short (∼100 days) commercial breeding season few (20%) mares were mated early in the season (September), with most mating (70%) occurring between October and November. The 27 days mean foaling to conception interval (FCI) suggests that FCI was artificially shortened and most pregnancy was achieved within first oestrus cycle post-partum. Mare career length and lifetime productivity was positively associated with the stud fee of the first stallion that the mare was mated to and number of foals registered for racing. Conclusion: Mare replacement and loss within the national herd was disproportionately associated with mares that were producing foals for a contracting domestic racing market. There was a constricted breeding season with most mares being mated within the first oestrous cycle post-partum. Mare retention and breeding success were positively associated with the service fee of the sire and progeny that had raced, reflecting the commercial pressure of the industry on mare management. Implication: The changes in the broodmare herd and management reflects the increasing proportion of the industry focusing on breeding foals that will appeal to the export market. The economic drivers for early born foals provide management challenges as these are not aligned with the optimal reproductive season of the horse.
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    The pattern of breeding and management within the New Zealand Thoroughbred breeding industry 2005-2015. 1. the stallion population
    (CSIRO Publishing, 2024-01) Chin YY; Rogers CW; Gee EK; Stafford KJ; Cameron EZ; Bryden W
    Context: There has been a contraction within the New Zealand Thoroughbred racing industry and there are limited data demonstrating how this has affected, or been reflected, within the breeding industry that supplies horses for the racing industry. A reduction in the breeding industry, to a greater extent in the sector servicing domestic rather than export market has been speculated. Aim: To describe the demographics, breeding pattern, reproductive career and workload of New Zealand Thoroughbred stallions between 2005 and 2015. Methods: The breeding records of all Thoroughbred stallions covering >10 mares during 2005/2006-2015/2016 breeding seasons and the lifetime breeding records of all the mares covered by these stallions were extracted from the New Zealand Thoroughbred Racing website. The demographics, population numbers, career pattern, and 10-year trend in market share of stallions in different stud fee categories were examined using descriptive analysis. The stallion's reproductive workload was modelled deterministically. Results: The breeding population reduced over the 10 years examined (mares by 20%, sires by 32%). This industry consolidation was almost entirely due to the 50% reduction in the number of mares mated to the low-priced stallions, which generated horses for the domestic market. The relative proportion of mares sent to medium- and high-priced stallions (breed to sell and export sector) doubled. The commercial breeding career of low- and medium-priced stallions and shuttle stallions was short (4-5 years). The number of mares covered by a stallion increased with stud fee category. Stallions covered a greater number of mares in October and November than in September and December because of the restricted opportunity to cover foaled mares early in the season, caused by the long gestation length of mares and the need to cover mares before December. Conclusions: Findings in this study support that the contraction in the New Zealand Thoroughbred breeding industry was due to a reduction in the industry sector that focuses primarily on supplying horses for domestic racing. Commercial pressure and biological constraints heavily influenced the reproductive management of the breeding industry. The breeding management of stallions during the season is heavily influenced by stallion service fee category, which reflects his book size and the commercial appeal of the resultant progeny. Implications: The contraction within the domestic sector of the breeding industry was reflected in the concurrent contraction within New Zealands domestic racing population and fewer colts and geldings entering racing. Industry breeding trends demonstrate that economic viability and optimisation of revenue depend on the breeding industry focusing on the export rather than domestic market.