To pool or not to pool? Guidelines for pooling samples for use in surveillance testing of infectious diseases in aquatic animals     

Emilie Laurin  Krishna Thakur  Peter G. Mohr  Paul Hick  Mark St. J. Crane  Ian A. Gardner  Nicholas J. G. Moody  Axel Colling  Ingo Ernst 《Journal of fish diseases》2019,42(11):1471-1491

Samples from multiple animals may be pooled and tested to reduce costs of surveillance for infectious agents in aquatic animal populations. The primary advantage of pooling is increased population‐level coverage when prevalence is low (<10%) and the number of tests is fixed, because of increased likelihood of including target analyte from at least one infected animal in a tested pool. Important questions and a priori design considerations need to be addressed. Unfortunately, pooling recommendations in disease‐specific chapters of the 2018 OIE Aquatic Manual are incomplete and, except for amphibian chytrid fungus, are not supported by peer‐reviewed research. A systematic review identified only 12 peer‐reviewed aquatic diagnostic accuracy and surveillance studies using pooled samples. No clear patterns for pooling methods and characteristics were evident across reviewed studies, although most authors agreed there is a negative effect on detection. Therefore, our purpose was to review pooling procedures used in published aquatic infectious disease research, present evidence‐based guidelines, and provide simulated data examples for white spot syndrome virus in shrimp. A decision tree of pooling guidelines was developed for use by peer‐reviewed journals and research institutions for the design, statistical analysis and reporting of comparative accuracy studies of individual and pooled tests for surveillance purposes.  相似文献   

Trace elements bioavailability to <Emphasis Type="Italic">Triticum aestivum</Emphasis> and <Emphasis Type="Italic">Dendrobaena veneta</Emphasis> in a multielement-contaminated agricultural soil amended with drinking water treatment residues     

Silke Neu  Ingo Müller  Carsten Brackhage  Rafał Gałązka  Grzegorz Siebielec  Markus Puschenreiter  E. Gert Dudel 《Journal of Soils and Sediments》2018,18(6):2259-2270

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Design standards for experimental and field studies to evaluate diagnostic accuracy of tests for infectious diseases in aquatic animals          下载免费PDF全文

E Laurin  K K Thakur  I A Gardner  P Hick  N J G Moody  M S J Crane  I Ernst 《Journal of fish diseases》2018,41(5):729-749

Design and reporting quality of diagnostic accuracy studies (DAS) are important metrics for assessing utility of tests used in animal and human health. Following standards for designing DAS will assist in appropriate test selection for specific testing purposes and minimize the risk of reporting biased sensitivity and specificity estimates. To examine the benefits of recommending standards, design information from published DAS literature was assessed for 10 finfish, seven mollusc, nine crustacean and two amphibian diseases listed in the 2017 OIE Manual of Diagnostic Tests for Aquatic Animals. Of the 56 DAS identified, 41 were based on field testing, eight on experimental challenge studies and seven on both. Also, we adapted human and terrestrial‐animal standards and guidelines for DAS structure for use in aquatic animal diagnostic research. Through this process, we identified and addressed important metrics for consideration at the design phase: study purpose, targeted disease state, selection of appropriate samples and specimens, laboratory analytical methods, statistical methods and data interpretation. These recommended design standards for DAS are presented as a checklist including risk‐of‐failure points and actions to mitigate bias at each critical step. Adherence to standards when designing DAS will also facilitate future systematic review and meta‐analyses of DAS research literature.  相似文献   

Interactions between mycorrhizal fungi and mycorrhizosphere bacteria during mineral weathering: Budget analysis and bacterial quantification     

Nina Koele  Marie-Pierre Turpault  Ernst E. Hildebrand  Stphane Uroz  Pascale Frey-Klett 《Soil biology & biochemistry》2009,41(9):1935-1942

The impact of ectomycorrhizal fungi or rhizosphere bacteria on tree seedling growth and nutrient uptake is well known. However, few studies have combined those microorganisms in one experiment to clarify their relative contribution and interactions in nutrient acquisition. Here, we monitored the respective contributions of pine roots, two ubiquitous forest ectomycorrhizal fungi Scleroderma citrinum and Laccaria bicolor, and two S. citrinum-mycorrhizosphere bacterial strains of Burkholderia glathei and Collimonas sp., on mineral weathering, nutrient uptake, and plant growth. Pinus sylvestris plants were grown on quartz–biotite substrate and inoculated or not with combinations of mycorrhizal fungi and/or bacterial strains. Magnesium and potassium fluxes were measured and nutrient budgets were calculated. Both ectomycorrhizal fungi significantly increased Mg plant uptake. No significant effects of the two bacterial strains were detected on the K and Mg budgets, but co-inoculating the mycorrhizal fungus S. citrinum and the efficient mineral-weathering B. glathei bacterial strain significantly improved the Mg budget. Similarly, co-inoculating S. citrinum with the Collimonas sp. bacterial strain significantly improved the pine biomass compared to non-inoculated pine plants. In order to better understand this process, we monitored the survival of the inoculated bacterial strains in the quartz–biotite substrate, the pine rhizosphere, and the mycorrhizal niche. The results showed that the two bacterial strains harboured different colonization behaviours both of which depended on the presence of the ectomycorrhizal partner. The populations of the Burkholderia strain were maintained in all these environments with a significantly higher density in the mycorrhizal niche, especially of S. citrinum. In contrast the population of the Collimonas strain reached the detection level except in the treatment inoculated with S. citrinum. These results highlight the need for taking into account the ecology of the microorganisms, and more specifically the fungal–bacterial interactions, when studying mineral weathering and plant nutrition.  相似文献   

Decomposition and mineralization of energy crop residues governed by earthworms     

Gregor Ernst 《Soil biology & biochemistry》2009,41(7):1548-1554

Energy crops are increasingly cultivated in agricultural management systems world-wide. A substitution of food crops (e.g. cereals) by energy crops may generally alter the biological activity and litter decomposition in soil due to their varying structural and chemical composition and subsequently modify soil functioning. A soil microcosm experiment was performed to assess the decomposition and microbial mineralization of different energy crop residues in soil compared to a food crop, with or without earthworms. Residues of the energy crops winter rape (Brassica napus), maize (Zea mays), miscanthus (Miscanthus giganteus) and the food crop oat (Avena sativa) were each provided as food source for a mixed earthworm population, each consisting of one individual of Lumbricus terrestris, Aporrectodea caliginosa, and Octolasion tyrtaeum. After 6 weeks, the rate of litter loss from the soil surface, earthworm biomass, microbial biomass-C and -N, microbial activity, and enzyme activities were determined. The results emphasized, that litter loss and microbial parameters were predominantly promoted by earthworms and were additionally influenced by the varying structural and chemical composition of the different litter. Litter decay by earthworms was highest in N-rich maize litter treatment (C-N ratio 34.8) and lowest in the case of miscanthus litter (C-N ratio 134.4). As a consequence, the microbial biomass and basal respiration in soils with maize litter were higher, relative to other litter types. MBC-MBN ratio in soil increased when earthworms were present, indicating N competition between earthworms and microorganisms. Furthermore, enzyme activities responded in different ways on the varying types of litter and earthworm activity. Enzymes involved in the N-cycle decreased and those involved in the C-cycle tended to increase in the presence of earthworms, when litter with high C-N ratio was provided as a food source. Especially in the miscanthus treatments, less N might remain for enzymatic degradation, indicating that N competition between earthworms and microorganisms may vary between different litter types. Especially, an expansion of miscanthus in agricultural management systems might result in a reduced microbial activity and a higher N deficit for microorganisms in soil.  相似文献   

Cytologic examination of fine‐needle aspirates from mammary gland tumors in the dog: diagnostic accuracy with comparison to histopathology and association with postoperative outcome     

Daniela Simon  Dorina Schoenrock  Ingo Nolte  Wolfgang Baumgrtner  Ronnie Barron  Reinhard Mischke 《Veterinary clinical pathology / American Society for Veterinary Clinical Pathology》2009,38(4):521-528

Background: Mammary tumors are the most common neoplasms in female dogs. Malignant tumors may carry a poor prognosis and necessitate surgery. Few data are available on the value of cytologic examination as a diagnostic or prognostic tool for mammary tumors in dogs. Objectives: The objectives of this study were to determine whether cytologic findings in fine‐needle aspirate specimens of canine mammary tumors correlate with histopathologic results and whether the cytologic diagnosis is associated with postoperative outcome. Methods: In this prospective study, fine‐needle aspirate samples were obtained from 50 mammary tumors in 50 dogs. Results of cytologic and histopathologic examination were compared, using the histologic diagnosis as the reference method. Kaplan–Meier log rank analysis was used to evaluate univariate association of the cytologic diagnosis with duration of survival, local control, and metastasis‐free interval. Results: Adequate cytologic samples were obtained in 43/50 (86%) cases. The cytologic diagnosis correlated with the histologic diagnosis for benign and malignant tumors in 40/43 (93%) and 35/43 (81%) cases, respectively. Cytologic examination had a sensitivity of 88% and a specificity of 96% for the diagnosis of malignancy. The cytologic diagnosis had significant univariate association with duration of survival (P=.016), recurrence‐free interval (P=.003), and metastasis‐free interval (P=.014). Conclusions: Cytologic examination of mammary tumors in the dog has satisfactory accuracy, sensitivity, and specificity for the diagnosis of malignancy and is associated with postoperative outcome. Further studies on the diagnostic accuracy of cytology as well as multivariate analysis of its preoperative prognostic value in mammary tumors in the dog are warranted.  相似文献   

Effects of weathering state of coarse‐soil fragments on tree‐seedling nutrient uptake     

Nina Koele  Ernst E. Hildebrand  Helmer Schack‐Kirchner 《植物养料与土壤学杂志》2010,173(2):245-251

Fine earth accumulated within the weathering fissures of the coarse‐soil fraction (particles > 2 mm), so called “stone‐protected fine earth”, can provide a high short‐term nutrient release by cation exchange. It is thus hypothesized that unweathered gneiss particles cannot provide plants with exchangeable‐cation nutrients and that biological weathering is needed to include silicate‐bound nutrients into biochemical cycles. In a microcosm experiment, ectomycorrhizal Norway spruce (Picea abies) seedlings were grown on either weathered or unweathered paragneiss coarse‐soil fragments under natural hydraulic and climatic boundary conditions. A nutrient solution containing N, P, and K was added, however Mg and Ca could only be taken up from the coarse‐soil substrate. Solutes in drainage were analyzed during the experiment; plant nutrient uptake was determined after the experiment ended. Solute dynamics depended on the weathering state of the substrates: unweathered gneiss showed high initial Mg and Ca fluxes that diminished strongly afterwards, whereas weathered gneiss showed a much more gradual and sustainable release of these cations. Patterns in dissolved organic C and sulfate drainage indicated that the internal pores of weathered gneiss fragments contained organic material most likely as a result of living spaces from microorganisms. Plant biomass did not differ between treatments, however Mg content was higher in seedlings grown on weathered gneiss. Nutrient budgets demonstrated that the “stonesphere” of weathered gneiss can act as a quasi‐constant nutrient source whereas unweathered gneiss only provided high initial nutrients fluxes. In nutrient‐depleted, acidified fine‐earth environments, the coarse‐soil fraction may therefore act as a retreat for nutrient‐adsorbing tissues and as a buffer for nutrient shortages.  相似文献   

Ozone affects shikimate pathway transcripts and monomeric lignin composition in European beech (<Emphasis Type="Italic">Fagus sylvatica</Emphasis> L.)     

Gunter A. Betz  Claudia Knappe  Catherine Lapierre  Maren Olbrich  Gerhard Welzl  Christian Langebartels  Werner Heller  Heinrich Sandermann  Dieter Ernst 《European Journal of Forest Research》2009,128(2):109-116

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Statistical methods for detecting and comparing periodic data and their application to the nycthemeral rhythm of bodily harm: A population based study     

Armin M Stroebel  Matthias Bergner  Udo Reulbach  Teresa Biermann  Teja W Groemer  Ingo Klein  Johannes Kornhuber 《Journal of circadian rhythms》2010,8(1):10

Background  

Animals, including humans, exhibit a variety of biological rhythms. This article describes a method for the detection and simultaneous comparison of multiple nycthemeral rhythms.  相似文献   

Clinical assessment and outcome of a single-layer technique for anastomosis of the small intestine in horses     

Mendez-Angulo JL  Ernst NS  Mudge MC 《The Veterinary record》2010,167(17):652-655

In order to assess postoperative outcome in horses undergoing end-to-end anastomosis of the small intestine, performed using a one-layer technique, 15 horses that underwent exploratory coeliotomy, resection of the small intestine and end-to-end anastomosis using a continuous Lembert pattern were studied. Information on the age, breed, sex, diagnosis, treatment, complications and outcome of each case were obtained from medical records. Follow-up information was obtained via telephone conversations with clients and trainers. Five of the horses had short-term postoperative complications: one had postoperative ileus (POI), colic and peritonitis, one had POI and colic, two had POI only and one had diarrhoea only. A second exploratory coeliotomy was recommended in two of the 15 horses (13 per cent). The short-term survival rate, defined as survival up to the time of discharge from the hospital, was 93.3 per cent (14 of 15 horses). The long-term survival rate, defined as survival for at least 12 months after the surgery, was 84.6 per cent (11 of 13 horses followed up).  相似文献