Quantifying the sources of variability in equine faecal egg counts: implications for improving the utility of the method

The faecal egg count (FEC) is the most widely used means of quantifying the nematode burden of horses, and is frequently used in clinical practice to inform treatment and prevention. The statistical process underlying the FEC is complex, comprising a Poisson counting error process for each sample, compounded with an underlying continuous distribution of means between samples. Being able to quantify the sources of variability contributing to this distribution of means is a necessary step towards providing estimates of statistical power for future FEC and FECRT studies, and may help to improve the usefulness of the FEC technique by identifying and minimising unwanted sources of variability. Obtaining such estimates require a hierarchical statistical model coupled with repeated FEC observations from a single animal over a short period of time. Here, we use this approach to provide the first comparative estimate of multiple sources of within-horse FEC variability. The results demonstrate that a substantial proportion of the observed variation in FEC between horses occurs as a result of variation in FEC within an animal, with the major sources being aggregation of eggs within faeces and variation in egg concentration between faecal piles. The McMaster procedure itself is associated with a comparatively small coefficient of variation, and is therefore highly repeatable when a sufficiently large number of eggs are observed to reduce the error associated with the counting process. We conclude that the variation between samples taken from the same animal is substantial, but can be reduced through the use of larger homogenised faecal samples. Estimates are provided for the coefficient of variation (cv) associated with each within animal source of variability in observed FEC, allowing the usefulness of individual FEC to be quantified, and providing a basis for future FEC and FECRT studies.     

The evolution and maintenance of polymorphism in the major histocompatibility complex

Lambs with the G2 allele at the ovine major histocompatibility complex (mhc) class II locus DRB1 has previously been shown to have lower faecal nematode egg counts than lambs with the I allele at this locus. This association has been confirmed in separate cohorts from the same farm. Other alleles within the mhc have also shown associations with nematode resistance in other breeds of sheep. Therefore, variation in the mhc is responsible for part of the observed genetic variation in resistance to nematode infection. In addition to the specific effect of particular alleles, heterozygotes are also more resistant than homozygotes. This heterozygote advantage is capable of maintaining the high levels of polymorphism observed within the mhc.     

A descriptive study of 'kangaroo gait' in sheep in northern Britain

Two questionnaires were undertaken to obtain improved knowledge of the signalment, incidence and risk factors of the condition termed 'kangaroo gait' (KG; a forelimb locomotor disorder of adult female sheep). The first survey was mailed to 221 veterinary surgeons in practices in northern Britain which provided veterinary care for sheep, and the second was mailed to 438 sheep-flock owners and managers located in the Scottish Borders, who were recruited via their veterinary surgeons. Responses of 84.7 and 30.7% were achieved, respectively. In total, 29.7% of veterinary practices and 24.1% of flock owners and managers had identified one or more cases of KG in their practice area or flocks since the first case was reported in 1976. Almost all respondents indicated that adult females were affected-usually during lactation (and less commonly during late gestation). KG was more common among commercial crossbreeds and less common among sheep grazing hill pasture (than sheep grazing upland or lowland pasture). Cases usually occurred between March and June while sheep were at grass, although it was unclear whether the temporal pattern was associated with grazing or lambing patterns. Stocking densities were significantly higher among affected flocks than among non-affected flocks. The annual number of individuals and flocks identified as being affected had increased since the condition first was identified. Most cases of locomotor disorders resembling KG were not reported to veterinary surgeons.     

The use of a mass-action model to validate the output from a stochastic simulation model of bovine viral diarrhoea virus spread in a closed dairy herd

The spread of bovine virus diarrhoea virus (BVDV) in a closed dairy herd maintained under typical management conditions is studied using two approaches. In the first instance a stochastic computer model is used to simulate the month-to-month changes in the infection status of each animal. These results are contrasted with the results of a mass-action model which uses three differential equations. A comparison of the two approaches indicates that the results are in broad agreement. The stochastic approach has the benefit of providing an estimate of the probability of the infection becoming extinct and the herd becoming BVDV-free for different herd sizes.     

Assessing the convergence of Markov Chain Monte Carlo methods: an example from evaluation of diagnostic tests in absence of a gold standard

The accessibility of Markov Chain Monte Carlo (MCMC) methods for statistical inference have improved with the advent of general purpose software. This enables researchers with limited statistical skills to perform Bayesian analysis. Using MCMC sampling to do statistical inference requires convergence of the MCMC chain to its stationary distribution. There is no certain way to prove convergence; it is only possible to ascertain when convergence definitely has not been achieved. These methods are rather subjective and not implemented as automatic safeguards in general MCMC software. This paper considers a pragmatic approach towards assessing the convergence of MCMC methods illustrated by a Bayesian analysis of the Hui–Walter model for evaluating diagnostic tests in the absence of a gold standard. The Hui–Walter model has two optimal solutions, a property which causes problems with convergence when the solutions are sufficiently close in the parameter space. Using simulated data we demonstrate tools to assess the convergence and mixing of MCMC chains using examples with and without convergence. Suggestions to remedy the situation when the MCMC sampler fails to converge are given. The epidemiological implications of the two solutions of the Hui–Walter model are discussed.     

Risk factors for hide contamination of Scottish cattle at slaughter with Escherichia coli O157

In the slaughter processing of cattle, contaminated hides have been identified as one of the major sources of Escherichia coli O157 carcase contamination. Logistic regression analysis was applied to data collected in a large scale study in Scotland involving 222 cattle forming 34 groups sent for slaughter from 30 farms to 10 slaughterhouses. Aspects of individual animal characteristics, farm management practices and slaughterhouse features were examined to identify potential risk factors for hide contamination at harvest. Two models were developed, the first in which slaughterhouse was modelled as a fixed effect, and a second model where slaughterhouse and farm groups were modelled as random effects. In the first model, there was a significantly increased risk of a carcase testing positive for E. coli O157 on the hide if either the hide of the carcase immediately before or after it on the line was contaminated (OR 3.6; 95% CI: 1.4–9.9). If both adjacent carcases had contaminated hides, the odds ratio for the study carcase having a contaminated hide rose to 11.5 (95% CI: 4.4–32.5). If animals were held in lairage, receiving hay as feed appeared to have a protective effect on hide contamination. Transportation to the slaughterhouse by haulier, as opposed to transport by the farmer, was associated with a 5.4 increase in the odds of E. coli O157 contamination. The use of a crush in the lairage, often employed when reading ear tags, was also found to significantly increase the odds of hide contamination with E. coli O157. In the second model, the inclusion of slaughterhouse and farm group as random effects resulted in two of the previously identified factors being associated with hide contamination. If at least one of the adjacent carcases on the line had a contaminated hide, the associated odds ratio was 6.6 (95% CI: 2.8–15.9), which rose to 22.7 (95% CI: 9.3–55.5) if both adjacent hides were contaminated. Receiving hay in lairage was found to be important to the model, although not significant in itself (OR 0.005; 95% CI: 1.2e⁻⁶–20.7). These results suggest that modifiable risk factors for hide contamination exist. However, in order best to reduce the prevalence of hide contamination at slaughter, individual slaughterhouse risk assessment and intervention strategies are appropriate.     

A decade of non-sorted solid urban wastes inputs safely increases sorghum yield in periurban areas of Burkina Faso

Abstract

Non-sorted solid urban wastes (SUW) are used by periurban cereal farmers in Africa. There is however limited information on how these SUW affect soil quality and cereal production and quality. In order to answer this question we identified around Ouagadougou (Burkina Faso) sites cultivated with sorghum (Sorghum bicolor (L.) Moench) that had received SUW for less than 5 years, for more than 5 years and less than 10 years and for more than 10 years. We sampled soils at 0–15 and 15–30 cm depth and we analysed pH, total carbon (C), nitrogen (N) and inorganic phosphate (P) content and P and heavy metals availability. We also measured at some of these sites sorghum production and nutrient and metal contents in sorghum grain and straw. Our results show that the 0–15 cm horizon of the soils that had received SUW for less than 5 years had lower pH, available P and heavy metals contents and produced lower yields than those that had been amended with SUW for more than 10 years. Maximum grain yield was observed in the sites that had been amended for more than 5 years but less than 10 years. There were no clear effects of SUW application time on the heavy metal contents of sorghum grain and straw. The increases in nutrient and heavy metals content observed in the 15–30 cm horizon of soils that had been amended for more than 10 years point out to the risks of element transfer to deeper horizons. Our results suggest that a complete sorting of organic matter from SUW and its further composting as presently recommended, is not necessary. Simply removing dangerous items from the SUW such as plastics, glass and batteries, would be sufficient. Adding this sorted substrate for 5 to 10 years to cereal fields would be sufficient to reach optimal yields, thereafter this substrate should be added to other surfaces.     

二氧化碳对三种蛴螬的引诱作用

本研究通过测定二氧化碳对蛴螬的吸引力为地下害虫的防治提供参考。试验采用"Y"形嗅觉仪测定3种常见蛴螬对不同浓度二氧化碳的趋向行为,并以最趋二氧化碳浓度测试蛴螬在寄主存在环境下的选择行为。结果表明,蛴螬对二氧化碳有明显的趋向性,取食习性影响蛴螬对二氧化碳的趋性行为,植食性的暗黑鳃金龟幼虫对3%~15%低浓度范围的二氧化碳具有较好趋向性,同样为植食性的铜绿丽金龟幼虫也趋向浓度较低的二氧化碳,腐食性的白星花金龟幼虫不仅对70%高浓度的二氧化碳具有显著趋向性,而且对较低浓度的二氧化碳有趋向性。有花生根存在的背景环境下,二氧化碳的引诱力减弱,对寄主植物的选择更为显著。     

Equine cestodosis: a sero-epidemiological study of Anoplocephala perfoliata infection in Ethiopia

A 12/13 kDa antigen, tapeworm ELISA test, developed for use in horses, was used to detect parasite-specific serum antibody, IgG(T), in the serum of donkeys. In a pilot study the 12/13 kDa antigen was tested and proved to detect the antibody, IgG(T), in donkey sera. Blood samples from 797 donkeys, naturally exposed to cestode infection, from four geographical localities were collected and sera were prepared and analysed. There was substantial serological evidence that donkeys were potentially infected with A. perfoliata. A range of ELISA OD values were obtained from the serological assay. Over 26% and 7.5% of the donkeys were moderately and highly infected, respectively, showing at least a 34% sero-prevalence. The rest, 66.1%, were either with low infection intensity or negative for A. perfoliata infection. The risk of infections, both in sero-prevalence and intensity, as determined by ELISA optical density (OD), were highest in the highland areas of Ethiopia where pastures are low-lying and wet, and permanent pasture management is regularly practised. Sex, age and body condition of the donkeys had no significant effect either on prevalence of the infection or on the serum antibody level. These results indicate a risk of intestinal disorders, particularly, colic, associated with A. perfoliata infection in donkeys.     

Mulching effects on soil nutrient levels and yield in coffee farming systems in Rwanda

Different combinations of organic mulch were applied in smallholder coffee farming systems to assess their effects on soil nutrient contents and coffee yield at three sites in different agro-ecological zones in Rwanda. Mulching systems consisted of Cymbopogon spp. (T1), Panicum spp. (T2), Cymbopogon spp. and Panicum spp. (T3), Eucalyptus spp. and Cymbopogon spp. (T4), mixed residues (T5) and un-mulched coffee used as control (T6). Mulch had significant and specific effects at each site (p < 0.001). T3 reduced soil pH value and exchangeable acidity at Kibirizi, while at Karongi and Ruli, these effects were observed with T4 and T5. T4 and T5 significantly increased the content of soil carbon (C), nitrogen (N), phosphorus (P), potassium (K), calcium (Ca) and magnesium (Mg). The amount of nutrients released was regulated by the amount and type of mulch applied, the agro-ecological conditions and the soil properties at each site. The increased soil nutrient levels led to improved soil fertility conditions and increased coffee yields. The coffee yields were significantly increased with T1 at Karongi (p < 0.05) by up to 1.9 t ha⁻¹. T2 and T3 had significantly higher yields at Kibirizi. Yields at Kibirizi were 48% lower compared to yields at Karongi; at this site, T1, T2, T3, T4 and T5 increased yields by 57%, 26%, 31%, 20% and 28%, respectively, when compared to the no mulching treatment (T6). However, coffee yields over 1.9 t ha⁻¹ can only be obtained with additional applications of inorganic fertilizer at different rates depending on the agro-ecological zone and soil type.