Comparison of methods for assessing integrity of equine sperm membranes

Sperm membrane integrity (SMI) is thought to be an important measure of stallion sperm quality. The objective was to compare three methods for evaluating SMI: flow cytometry using SYBR-14/propidium iodide (PI) stain; an automated cell counting device using PI stain; and eosin-nigrosin stain. Raw equine semen was subjected to various treatments containing 20 to 80% seminal plasma in extender, with differing sperm concentrations, to simulate spontaneous loss of SMI. The SMI was assessed immediately, and after 1 and 2 d of cooled storage. Agreement between methods was determined according to Bland-Altman methodology. Eosin-nigrosin staining yielded higher (2%) overall mean values for SMI than did flow cytometry. Flow cytometry yielded higher (6%) overall mean values for SMI than did the automated cell counter. As percentage of membrane-damaged sperm increased, agreement of SMI measurement between methods decreased. When semen contained 50-79% membrane-intact sperm, the 95% limits of agreement between SMI determined by flow cytometry and eosin-nigrosin staining were greater (range = −26.9 to 24.3%; i.e., a 51.2% span) than for SMI determined by flow cytometry and the automated cell counter (range = −3.1 to 17.0%; 20.1% span). When sperm populations contained <50% membrane-intact sperm, the 95% limits of agreement between SMI determined by flow cytometry and eosin-nigrosin staining were greater (range = −35.9 to 19.0%; 54.9% span) than for SMI determined by flow cytometry and the automated cell counter (range = −11.6 to 28.7%; 40.3% span). We concluded that eosin-nigrosin staining assessments of percent membrane-intact sperm agreed less with flow cytometry when <80% of sperm had intact membranes, whereas automated cell counter assessments of percent membrane-intact sperm agreed less with flow cytometry when <30% of sperm had intact membranes.     

Comparison of methods for assessing abdominal adipose tissue from magnetic resonance images

Objective: To compare the inter‐rater and intra‐rater reliability and analysis time of two methods for quantifying visceral adipose tissue (VAT) and subcutaneous adipose tissue (SAT) volumes from magnetic resonance (MR) images. Research Methods and Procedures: Ten subjects (BMI, 27.0 ± 2.1 kg/m²; 56 years of age ± 4 years) underwent MR imaging of the abdomen. Ten transverse T1‐weighted images were selected from each scan and analyzed using two software packages that differ in principle. The first method, ANALYZE version 5.0, represents the manual threshold method, and the second, HIPPO version 1.3, is based on the fuzzy clustering approach. Inter‐rater reliability for each method was assessed by comparing the intra‐class correlation coefficients (ICCs) for VAT and SAT results from two evaluators, and intra‐rater reliability for each method was assessed by comparing ICCs for VAT and SAT analyses performed 1 week apart by the same evaluator. The total time for analysis also was compared between methods. Results: The inter‐rater reliability for VAT was greater with HIPPO than with ANALYZE (ICC = 0.996 vs. 0.828), whereas inter‐rater reliability for SAT did not differ between methods (ICC = 0.975 and 0.987). The intra‐rater reliability was equally high with HIPPO and ANALYZE for both VAT (ICC = 0.998 vs. 0.992) and SAT (ICC = 0.996 vs. 0.992). HIPPO required less than one‐half as much analysis time as ANALYZE (15.9 ± 4.4 vs. 36.5 ± 8.2 minutes, p < 0.0001). Discussion: HIPPO software appears advantageous for the quantification of VAT from multislice MR images because inter‐rater results are more reliable, and it is more time‐efficient than less automated methods.     

Comparison of two 15N labelling methods for assessing nitrogen rhizodeposition of pea

Two ¹⁵N labelling methods for assessing net rhizodeposition of nitrogen (N) in pea crop (Pisum sativum L.) were compared in the greenhouse and in the field: the cotton-wick (CW) and the split-root (SR) methods. Rhizodeposition is defined as the organic material lost from roots during their growth through the soil. CW is a method in which ¹⁵N urea was supplied to the plant in pulses via a wick threaded through the stem. In SR, the root system was divided between a hydroponic labelling compartment (LC) containing the labelling nutrient solution (1 or 5 mM ¹⁵NO₃–¹⁵NH₄) and a compartment filled with soil in which the amount of ¹⁵N rhizodeposition was assessed. The percentage of N derived from rhizodeposition (%Ndfr), was used to calculate the amount of N rhizodeposition which was obtained from the ratio of atom % ¹⁵N excess of the soil : atom % ¹⁵N excess of the roots. Above ground parts in the field accumulated markedly more dry matter and N than in the greenhouse, regardless of the labelling method. ¹⁵N enrichments of above ground parts were higher than those of roots recovered from the soil. Results indicated that amount of ¹⁵N applied to plants were lower in SR than in CW. Additionally, LC roots of SR tended to retain large amounts of ¹⁵N. As a consequence, atom % ¹⁵N excess of roots was less than 1% in SR, whereas most values varied from 1% to 4% in CW. However, relationships between enrichments of the soil and of the roots were different in SR and CW. It was not possible to compare the Ndfr:root-N ratio between the two methods, but the ratio of Ndfr:plant-N was found to be 10% higher in SR than in CW. Finally, relative to total plant-N, the total contribution of below ground parts to the N pool of the soil reached 22–25% at maturity for the two methods. From our experiments, we could not conclude that one method is better than the other for estimating either net rhizodeposition of N or the contribution of a pea plant to the soil N pool. However, CW is easier to adapt and monitor under field conditions than SR.     

Comparison of five methods for assessing impacts of nutrient enrichment using estuarine case studies

There are several approaches for assessing nutrient enrichment impacts in marine waters including the OSPAR* Comprehensive Procedure, the TRIX* ranking process, the WFD, ASSETS* and EPA NCA*. They differ in definitions and application, but all use key indicators for evaluating eutrophication status. Data from two estuaries in the United Kingdom (UK) were used to test the hypothesis that these five methods would result in the same outcome. The intent is to provide managers with information for selecting an appropriate method, insight about how each method works, how results from different methods compare and a basis for improvement of methods. Results from all approaches indicate that both estuaries required management intervention, but detailed results differed. Methods using more than one biological indicator show that secondary biological impacts were minimal, with the exception of moderate macroalgal problems in the Medway. Comparison of final results was difficult due to differences in: timeframes of data analysis (seasonal versus annual), characteristics included in indicator metrics (concentration, spatial coverage, frequency of occurrence), and methods for combining indicators to determine eutrophication status. This comparison suggests that use of annual data, inclusion frequency of occurrence, spatial coverage and, secondary biological indicators in the index, and a multi-category rating scale results in a more representative assessment.     

The problem of assessing landmark error in geometric morphometrics: theory, methods, and modifications

Geometric morphometric methods rely on the accurate identification and quantification of landmarks on biological specimens. As in any empirical analysis, the assessment of inter- and intra-observer error is desirable. A review of methods currently being employed to assess measurement error in geometric morphometrics was conducted and three general approaches to the problem were identified. One such approach employs Generalized Procrustes Analysis to superimpose repeatedly digitized landmark configurations, thereby establishing whether repeat measures fall within an acceptable range of variation. The potential problem of this error assessment method (the "Pinocchio effect") is demonstrated and its effect on error studies discussed. An alternative approach involves employing Euclidean distances between the configuration centroid and repeat measures of a landmark to assess the relative repeatability of individual landmarks. This method is also potentially problematic as the inherent geometric properties of the specimen can result in misleading estimates of measurement error. A third approach involved the repeated digitization of landmarks with the specimen held in a constant orientation to assess individual landmark precision. This latter approach is an ideal method for assessing individual landmark precision, but is restrictive in that it does not allow for the incorporation of instrumentally defined or Type III landmarks. Hence, a revised method for assessing landmark error is proposed and described with the aid of worked empirical examples.     

Molecular methods for assessing insect parasitism

Determining insect parasitism rates is problematic due to the small size and lack of useful distinguishing morphological characters of many parasitoid taxa. To solve this problem, entomologists have employed one of four general methods to detect parasitoid protein or nucleic acid markers: serological assay; random amplified polymorphic DNA-polymerase chain reaction (RAPD-PCR); allozyme electrophoresis; or specific PCR. Serological methods, especially with monoclonal antibodies, are unrivalled for specificity, enabling discrimination at the stage as well as species level. However, they have not found favour with many workers, possibly due to complexity and expense. RAPD-PCR has been widely used, but can only be recommended for restricted applications because of its poor reproducibility. Allozyme electrophoresis provides reproducible detection and discrimination of closely related species. Specific-PCR is highly specific and reproducible, and also has the shortest latency for detection, usually 24 h or less after parasitization. The substantial existing literature on allozyme electrophoresis and specific PCR is used to support recommendations on what are apt to be fruitful enzyme systems or genomic regions for detecting and discriminating parasitoids in untried parasitoid-host assemblages.     

Comparison of two methods of altering blood pressures for assessing neonatal cerebral blood flow autoregulation

The cerebral blood flow of newborn lambs at reduced and elevated arterial blood pressures, induced by intravenous infusion of sodium nitroprusside and phenylephrine hydrochloride as well as blood withdrawal and reinfusion, were compared. Both blood withdrawal and sodium nitroprusside infusion reduced mean arterial pressure from 83 to 60 mmHg (1 mmHg = 133 Pa). Reinfusion of blood increased arterial pressure to 94 mmHg. Phenylephrine hydrochloride infusion increased arterial pressure to 102 mmHg. The cerebral blood flows at corresponding arterial pressures were similar (coefficient of correlation = 0.88, P less than 0.01). Cerebral blood flow before and after infusion of phenylephrine hydrochloride and sodium nitroprusside into the brain via the carotid artery did not change. The results indicate that blood-borne phenylephrine hydrochloride and sodium nitroprusside, in concentrations that would alter arterial blood pressure significantly from its resting level, do not change cerebral blood flow directly.     

In situ methods for assessing alveolar mechanics

Lung mechanics are an important determinant of physiological and pathophysiological lung function. Recent light microscopy studies of the intact lung have furthered the understanding of lung mechanics but used methodologies that may have introduced artifacts. To address this concern, we employed a short working distance water immersion objective to capture confocal images of a fluorescently labeled alveolar field on the costal surface of the isolated, perfused rat lung. Surface tension held a saline drop between the objective tip and the lung surface, such that the lung surface was unconstrained. For comparison, we also imaged with O-ring and coverslip; with O-ring, coverslip, and vacuum pressure; and without perfusion. Under each condition, we ventilated the lung and imaged the same region at the endpoints of ventilation. We found use of a coverslip caused a minimal enlargement of the alveolar field; additional use of vacuum pressure caused no further dimensional change; and absence of perfusion did not affect alveolar field dimension. Inflation-induced expansion was unaltered by methodology. In response to inflation, percent expansion was the same as recorded by all four alternative methods.     

A comparison of methods for assessing yeast viability

Summary Eight different methods were used to assess the cell viability of four strains of Saccharomyces. Staining with Mg-ANS, primuline yellow, FITC and methylene blue gave a good index of yeast cell viability. The standard plate count technique and microcolony formation also gave a good measure of cell viability. Fluorescent staining with acridine orange was the least useful of the methods tested. INT dye reduction gave a good index of respiring cells depending upon the yeast strain tested.     

农业生态系统可持续发展趋势度的评价方法研究

在对农业生态系统时间演替过程分析的基础上,以评价指标年际变异性、评价指标的时间发展斜率变化率和评价指标的初如阈值水平为评价领域,提出了可持续发展趋势度的概念。并以德清县为例进行了案例分析,结果表明该县的可持续度为0.657,属中上水平。     

A comparison of methods for assessing toxicant effects on algal growth

Summary Ankistrodesmus braunii was used as the test organism to assess the effects of mercuric chloride on the growth of this species. Optical density measurements correlated highly with dry weight determinations, chlorophyll content, total cell counts, and respiring cell counts. Any one of the above methods may be used alone or in combination with other methods to assess the effects of toxicants on algal growth and survival.     

Principles and methods of geometric morphometrics

The basic concepts, notions and methods of geometric morphometrics (GM) are considered. This approach implies multivariate analysis of landmark coordinates located following certain rules on the surface of a morphological object. The aim of GM is to reveal differences between morphological objects by their shapes as such, the "size factor" being excluded. The GM is based on the concept of Kendall's space (KS) defined as a hypersphere with points distributed on its surface. These points are the shapes defined as aligned landmark configurations. KS is a non-Euclidian space, its metrics called Procrustes is defined by landmark configuration of a reference shape relative to which other shapes are aligned and compared. The differences among shapes are measured as Procrustes distances between respective points. For the linear methods of multivariate statistics to be applied to comparison of shapes, the respective points are projected onto the tangent plane (tangent space), the tangent point being defined by the reference. There are two principal methods of shape comparisons in GM: the Procrustes superimposition (a version of the least squares analysis) and thin-plate spline analysis. In the first case, Procrustes residuals are the outcome shape variables which remain after isometric alignment of the shapes being compared. Their summation over all landmarks yields Procrustes distances among these shapes. The Procrustes distances can be used in multivariate analyses just as the Euclidian distances. In the second case, the shapes are fitted to the references by stretching/compressing and shearing until complete identity of their landmark configurations. Eigenvectors of resulting bending energy matrix are defined as new shape variables, principal warps which yield another shape space with the origin defined by the reference. Projections of the shapes being compared onto principal warps yield partial warps, and their covariance matrix decomposition into eigenvectors yields relative warps which are similar to principal components (in particular, they are mutually orthogonal). Both partial and relative warps can be used in many multivariate statistic analyses as quantitative shape variables. Results of thin-plate spline analysis can be represented graphically by transformation grid which displays type, amount and localization of the shape differences. Basis rules of sample composition and landmark positioning to be used in GM are considered. At present, rigid (with minimal degrees of freedom) 2D morphological objects are most suitable for GM applications. It is important to recognize three type of real landmarks, and additionally semi-landmarks and "virtual" landmarks. Some procedures of thin-plate spline analysis are considered exemplified by some study cases, as well as applications of some standard multivariate methods to GM results. They make it possible to evaluate correlation between different shapes, as well as between a shape and some non-shape variables (linear measurements etc); to evaluate the differences among organisms by shape of a morphological structure; to identify landmarks which most accounted for both correlation and differences between the shapes. An annotated list of most popular softwares for GM is provided.     

Novel methods for assessing fish blood biochemical data

The purpose of this study was the identification and quantification of biochemical parameters over a 1‐year cycle and to provide a detailed picture of seasonal changes in plasma metabolites and enzymes. Using the novel methods of machine learning techniques, the authors created and generated for the first time comprehensible classification models for exploring the importance of blood chemistry parameters, strength, mutual interactions or dependencies, and reliability of particular parameters within the seasonal groups.     

MR imaging methods for assessing fetal brain development

Fetal magnetic resonance imaging provides an ideal tool for investigating growth and development of the brain in vivo. Current imaging methods have been hampered by fetal motion but recent advances in image acquisition can produce high signal to noise, high resolution 3-dimensional datasets suitable for objective quantification by state of the art post acquisition computer programs. Continuing development of imaging techniques will allow a unique insight into the developing brain, more specifically process of cell migration, axonal pathway formation, and cortical maturation. Accurate quantification of these developmental processes in the normal fetus will allow us to identify subtle deviations from normal during the second and third trimester of pregnancy either in the compromised fetus or in infants born prematurely.     

Comparison of two techniques for assessing possum (

Two techniques for assessing possum (Trichosurus vulpecula Kerr) diet from stomach contents ("point-sampling" and "layer- separation") are described and compared. Point-sampling involves sieving stomach contents, systematically selecting fragments from the retained material then, identifying and weighing these. Layer-separation involves separation, identification, and weighing of the discrete layers apparent in most possum stomach contents. In 41 of 43 stomachs examined, we were able to separate discrete layers that nearly always comprised a single food item. To compare the two techniques both were applied to these 41 stomachs, with the point-sampling technique applied as two separate treatments using 1.4-mm and 2.0-mm sieves. There were major differences in diet composition estimates between layer-separation and point-sampling but with few differences between the two point-sampling treatments. Relative to layer-separation, point-sampling underestimated the proportions of food groups with small average fragment size and overestimated those with large fragment size. However, both techniques gave similar frequencies of occurrence for 8 of 10 food groups tested, although the apparent importance of foods based on ranking by frequency of occurrence did not accurately match the ranking based on percent composition data. Identification of material was usually easier and more complete with layer-separation than with point-sampling (i.e., there were virtually no unidentifiable stems and fibre after layer- separation). Layer-separation therefore appears likely to provide a simple technique for diet assessment in possums. Although the technique requires formal validation the existence of layers shows that there can have been little mixing (or digestion) of stomach contents, and therefore, that the layer- separation estimates cannot differ greatly from what was eaten. Techniques that involve sieving possum stomach contents appear to have serious limitations, but may be useful as a last resort when layers contain a mixture of foods, or for stomachs in which the layers are not distinguishable.