Explanation and Elaboration Document for the STROBE‐Vet Statement: Strengthening the Reporting of Observational Studies in Epidemiology – Veterinary Extension

The STROBE (Strengthening the Reporting of Observational Studies in Epidemiology) statement was first published in 2007 and again in 2014. The purpose of the original STROBE was to provide guidance for authors, reviewers and editors to improve the comprehensiveness of reporting; however, STROBE has a unique focus on observational studies. Although much of the guidance provided by the original STROBE document is directly applicable, it was deemed useful to map those statements to veterinary concepts, provide veterinary examples and highlight unique aspects of reporting in veterinary observational studies. Here, we present the examples and explanations for the checklist items included in the STROBE‐Vet Statement. Thus, this is a companion document to the STROBE‐Vet Statement Methods and process document, which describes the checklist and how it was developed.     

INTER‐ AND INTRAFRACTION MOTION FOR STEREOTACTIC RADIOSURGERY IN DOGS AND CATS USING A MODIFIED BRAINLAB FRAMELESS STEREOTACTIC MASK SYSTEM

Precise and accurate patient positioning is necessary when doing stereotactic radiosurgery (SRS) to ensure adequate dosing to the tumor and sparing of normal tissues. This prospective cross‐sectional study aimed to assess feasibility of a commercially available modified frameless SRS positioning system for use in veterinary radiotherapy patients with brain tumors. Fifty‐one dogs and 12 cats were enrolled. Baseline and verification CT images were acquired. The verification CT images from 32 dogs and five cats had sufficient images for fusion to baseline CT images. A rigid box‐based fusion was performed to determine interfraction motion. Forty‐eight dogs and 11 cats were assessed for intrafraction motion by cine CT. Seventy percent of dogs and 60% of cats had interfraction 3D vector translational shifts >1 mm, with mean values of 1.9 mm in dogs, and 1.8 mm in cats. In dogs muscle wasting was weakly correlated with translational shifts. The maximum angular interfraction motion observed was 6.3° (roll), 3.5° (pitch), and 3.3° (yaw). There was no correlation between angular interfraction motion and weight, brachycephaly, or muscle wasting. Fifty‐seven percent of dogs and 50% of cats had respiration‐related intrafraction motion. Of these, 4.5% of dogs and 10% of cats had intrafraction motion >1 mm. This study demonstrates the modified Brainlab system is feasible for SRS in dogs and cats. The smaller cranial size and difference in anatomy increases setup uncertainty in some animals beyond limits usually accepted in SRS. Image‐guided positioning is recommended to achieve clinically acceptable setup accuracy (<1 mm) for SRS.     

Carbon in tundra soils in the Lake Labaz region of arctic Siberia

Large amounts of carbon are stored in permafrost‐affected soils of the Arctic tundra. The quantity, distribution and composition of this carbon are important, because much of the carbon is likely to be released as a result of global warming. We have studied soils of the central Siberian Arctic to determine the carbon content and the nature of the organic matter by density fractionation, and ¹³C‐NMR‐ and ¹³C‐stable‐isotope analyses. There are pronounced differences in the profile and variations from place to place in the quantity and nature of soil organic matter. We estimated that the mean stock of carbon was 14.5 kg m^–2 within the active layer. We found a total of about 30.7 kg C m^–3 in the entire upper metre of the soils. Carbon of the tussock tundra showed strong vertical differentiation, with a large proportion comprising decomposed, recalcitrant compounds. We identified within the soil several zones of aerobe and anaerobe decomposition. Mobile carbon fractions have precipitated under the influence of low temperatures.     

The 1997-1998 classical swine fever epidemic in The Netherlands--a survival analysis

The aim of this analysis was to characterise the temporal pattern of infection during the 1997/98 classical swine fever (CSF) epidemic in The Netherlands and hence identify and quantify risk factors for infection in different enterprise types and areas. Survival analysis and Cox proportional hazards regression were used to describe the epidemic. Substantial differences in temporal survival patterns (herd breakdown rate) were found between areas where different control policies operated. Factors with a significant influence on the infection hazard of individual herds included: sow numbers as a percentage of total sows and fatteners (HR = 3.38 for mixed herds (0.1–60% sows) vs. fattening herds (0% sows) and HR = 2.74 for breeding herds (60–100% sows) vs. fattening herds), the number of ‘transport contacts per month’ (>0.3 vs. <0.3; HR = 4.11), pig density (pigs/km²) in the area (HR_{1000 pigs} 1.48) and herd size (HR_{100 pigs} = 1.01).

Pre-emptive slaughter in an area appeared to be associated with lower subsequent disease levels. Higher frequency of transport contacts for welfare slaughter during the epidemic, however, well regulated and controlled, was associated with a substantially higher risk of becoming infected. The positive association of a higher pig density with CSF indicates the potential importance of local spread as a factor in disease transmission and emphasizes that dilution of the pig population can contribute to reduction in CSF occurrence. This analysis suggests however, that if pre-emptive slaughter can promptly be applied effectively in an area after initial diagnosis, pig density is then not a significant factor. Mixed and breeding herds had a higher probability of becoming infected than fattening herds, possibly due to different types and frequencies of inter-herd contacts. These contacts continue to some extent during the epidemic, despite the standstill of animal movements.     

A longitudinal study to identify constraints to dairy cattle health and production in rural smallholder communities in Northern Vietnam

The objective of the study was to investigate constraints to dairy cattle health and production in rural smallholder communities in northern Vietnam, one of the target areas of the Vietnam government's dairy development programme. A total of 99 dairy farms (11 per commune) were recruited from 9 of 32 communes in Ba Vi District, using random two-stage cluster sampling. After the initial questionnaire interviews were conducted, farms were visited at three monthly intervals over a period of 1 year. Information on several health and production parameters relating to the study cattle was collected. Using multiple indicator modelling, it was found that Fasciola infestation, farmers who had been involved in dairying for longer (not indicative of better management skills), larger herd size, and cattle being kept in a shed were linked to reduced reproductive performances.     

Genomic typing of Streptococcus uberis isolates from cases of mastitis, in New Zealand dairy cows, using pulsed-field gel electrophoresis

Three hundred and forty-two Streptococcus uberis isolates were cultured from milk samples from subclinical and clinical cases of dairy cattle mastitis. The samples were collected from 15 different New Zealand farming regions, including eight specific farms, during field research trials and veterinary diagnostic investigations. Pulsed-field gel electrophoresis was used to determine and compare the degree of genetic dissimilarity between the restriction endonuclease fragment pattern of the 342 New Zealand and a single United States S. uberis isolate. The 343 isolates exhibited 330 different restriction endonuclease fragment patterns. The United States isolate had a pattern unlike any of the New Zealand isolates. Most of the isolates were genetically different strains (pattern deferred by at least 33%), but identical patterns were noted within the same or different quarters of an individual cow, different cows within the same farm, and from different cows from the same or different districts, farming regions or islands. Seven of the eight selected farms had at most only one pair of isolates with banding patterns, which differed by less than 33%. A high degree of dissimilarity was noted in individual herds in which all the samples were collected on the same day or over a 2-year period. The high degree of dissimilar isolates is an indication that S. uberis infections in New Zealand dairy cattle are largely due to the opportunistic nature of the organism in the cows' environment. Prevention and treatment of S. uberis mastitis will therefore need to be directed at a multitude of different strains present throughout the country as well as in individual herds.     

Environmental and behavioural factors affecting the prevalence of foot lameness in New Zealand dairy herds - a case-control study

A case-control study of environmental and behavioural factors influencing foot lameness was undertaken on 62 dairy herds comprising an average of 185 milking cows in Taranaki, New Zealand. Thirty two case herds were identified as having had at least 10 per cent of the cows lame during the milking season in which the herd was studied, and thirty control herds were selected on the basis that no more than 3 per cent of cows in these herds had been lame per year for at least two years immediately prior to investigation. Each herd was visited at both a morning and an afternoon milking, and 58 risk factors were measured between the time the farmer began to assemble the cows for milking and the completion of milking. Comparison of single variables between case and control herds identified 24 which showed differences (p<0.10). These variables were then subjected to stepwise multivariate logistic regression, and statistically significant variables in this analysis were used to create a tentative path diagram of possible causal web relationships between the various risk factors and the outcome variable, the lameness prevalence level. Information from a review of the published literature was used to include further variables to the 24 into the initial (or null hypothesis) path model. Logistic path analysis was then used to eliminate non-significant paths from the diagram, leaving 19 arrows joining 13 variables in the final path diagram, compared with 33 joining 20 variables in the initial version. The most influential variables in explaining variation between case and control herds were the average level of maintenance of the track and the degree of patience shown by the farmer in bringing the cows in for milking. Overall, factors associated with the movement of animals to the milking shed explained 40 per cent of the variation (deviance) with regard to the lameness prevalence level. Risk factors associated with characteristics of the milking process explain 24 per cent, and risk factors associated with characteristics of the cows in the herd explain 9.5 per cent. Recommendations are made on management changes which deserve further investigation as ways of reducing lameness problems in dairy herds.     

Large granular lymphocytosis in a cynomolgus macaque (Macaca fascicularis) with a subclinical Trypanosoma cruzi infection

A 5.25-year-old cynomolgus macaque (Macaca fascicularis) was found to have a marked leukocytosis due to a lymphocytosis on routine quarantine laboratory data prior to inclusion in a preclinical research study. The majority of lymphocytes were characterized as intermediate to large with round to convoluted nuclei, coarse to clumped chromatin, rare prominent nucleoli, and moderate amounts of lightly basophilic cytoplasm that frequently contained small magenta granules and/or clear vacuoles. The animal had tested negative for several viruses and other etiologic agents found in nonhuman primates 1 week prior to shipment to the research facility. However, further evaluation of the blood smear revealed rare hemoflagellates, and later testing using real-time PCR and ELISA was confirmatory for Trypanosoma cruzi (T cruzi). Trypanosoma cruzi is a zoonotic pathogen responsible for Chagas disease in people and can have negative consequences on study results when positive animals are inadvertently used for preclinical research. This case report describes a marked large granular lymphocytosis in an otherwise healthy macaque as the only indication of infection with T cruzi in an animal believed to be negative for the infection. Additionally, it highlights the diagnostic limitations of screening tests to rule out diseases in animals intended to be used in preclinical studies.     

An economic evaluation of the differences between intensive and extensive beef production systems

A model to evaluate economic criteria involved when cattle are raised on high-forage diets prior to finishing or finished directly after weaning was developed using data from two experiments. In Exp. 1, each year for 3 yr, 136 Charolais-cross calves were weaned and allotted to either an intensive system, in which they were immediately finished on a high-grain diet, or an extensive system, in which they were wintered on crop residues, grazed on summer pasture and finished on a high-grain diet. In Exp. 2, 160 British breed steers were wintered, in one of eight different wintering systems utilizing crop residues, using supplemental protein and(or) alfalfa hay. After wintering, the steers grazed summer pasture and then were finished on a high-grain diet. Overall cost of gain and final "break-even" price were lower for cattle finished through the extensive system except when the price of corn was very low in relationship to other inputs. Interest costs were higher for cattle in the extensive system. Increasing the feeder calf purchase price had almost no effect on differences between the systems. Corn price and purchase price affected both systems similarly, whereas interest rate, wintering yardage and finishing yardage affected each system differently. Because of the additional weight produced through the extensive system, it yielded lower final "break-even" prices in most situations.