On Bayesian methods for bioequivalence

Bayesian methods are presented for assessing bioequivalence for studies in which a new formulation and a standard are administered simultaneously, and for Latin square designs which compare two or more new formulations to a standard. Two examples illustrate the application of the methods.     

Comparison of different methods for diversity ordering

Abstract. The measurement of diversity, one of the most important concepts in present-day ecology, can be improved by methods of diversity ordering which have recently been developed. This ordering is achieved by a D(α) diversity index family. Indices of this family show varying sensitivities to the rare and abundant species as the scale parameter, α, changes. The aim of this paper is to review and assess 12 methods of diversity ordering and discuss their relationships in detail. Two of the methods are new to the ecological literature. The diversity ordering methods are compared as to their effectiveness in graphically displaying the differences of community structure and demonstrating the (non-)comparability of communities. Small, medium and large data sets were used to evaluate the methods. A small artificial data set (five to seven species) and a large semi-artificial data set (31 — 141 species) are used in this paper. The results suggest that Rényi's diversity index family and Logarithmic dominance ordering are the most useful methods for diversity ordering of communities of all sizes. Right-tailsum diversity ordering performs well for small communities.     

Comparison of two methods for quality assessment of macroalgae assemblages,under different pollution types

The selection of adequate methodologies for the assessment of different biological quality elements is urgently needed for the application of the water framework directive (WFD 2000/60/EEC). In the case of macroalgae in coastal waters of the North East Atlantic, two methodologies have been proposed: the reduced species list (RSL) index and the quality of rocky bottoms (CFR) index. Both methods use multimetric approaches to evaluate the quality of macroalgae assemblages, which are based on community characteristics (species/populations richness, cover, percentage of opportunistic species, ecological state groups ratio, etc.). In this paper the results of applying both indices on three different types of pollution gradients in the North coast of Spain (bay of Biscay) are presented, in order to test their usefulness and intercalibration possibilities. In general terms, the CFR index responded more accurately than the RSL index to the pollution gradients under study. With respect to the indicators used in the current evaluation, richness, opportunistic species and cover seemed to be the most accurate for quality assessment of macroalgal communities. While the first two indicators are taken into account in both indices, the latter (cover) is only considered in the CFR index, even though the abundance of macroalgae is one of the aspects to be included in the evaluation of this biological element, according to the WFD.     

Comparison between three different LCIA methods for aquatic ecotoxicity and a product environmental risk assessment

Background and Objective  In the OMNIITOX project 11 partners have the common objective to improve environmental management tools for the assessment of (eco)toxicological impacts. The detergent case study aims at: i) comparing three Procter &c Gamble laundry detergent forms (Regular Powder-RP, Compact Powder-CP and Compact Liquid-CL) regarding their potential impacts on aquatic ecotoxicity, ii) providing insights into the differences between various Life Cycle Impact Assessment (LCIA) methods with respect to data needs and results and iii) comparing the results from Life Cycle Assessment (LCA) with results from an Environmental Risk Assessment (ERA). Material and Methods  The LCIA has been conducted with EDIP97 (chronic aquatic ecotoxicity) [1], USES-LCA (freshwater and marine water aquatic ecotoxicity, sometimes referred to as CML2001) [2, 3] and IMPACT 2002 (covering freshwater aquatic ecotoxicity) [4]. The comparative product ERA is based on the EU Ecolabel approach for detergents [5] and EUSES [6], which is based on the Technical Guidance Document (TGD) of the EU on Environmental Risk Assessment (ERA) of chemicals [7]. Apart from the Eco-label approach, all calculations are based on the same set of physico-chemical and toxicological effect data to enable a better comparison of the methodological differences. For the same reason, the system boundaries were kept the same in all cases, focusing on emissions into water at the disposal stage. Results and Discussion  Significant differences between the LCIA methods with respect to data needs and results were identified. Most LCIA methods for freshwater ecotoxicity and the ERA see the compact and regular powders as similar, followed by compact liquid. IMPACT 2002 (for freshwater) suggests the liquid is equally as good as the compact powder, while the regular powder comes out worse by a factor of 2. USES-LCA for marine water shows a very different picture seeing the compact liquid as the clear winner over the powders, with the regular powder the least favourable option. Even the LCIA methods which result in die same product ranking, e.g. EDIP97 chronic aquatic ecotoxicity and USES-LCA freshwater ecotoxicity, significantly differ in terms of most contributing substances. Whereas, according to IMPACT 2002 and USES-LCA marine water, results are entirely dominated by inorganic substances, the other LCIA methods and the ERA assign a key role to surfactants. Deviating results are mainly due to differences in the fate and exposure modelling and, to a lesser extent, to differences in the toxicological effect calculations. Only IMPACT 2002 calculates the effects based on a mean value approach, whereas all other LCIA methods and the ERA tend to prefer a PNEC-based approach. In a comparative context like LCA the OMNIITOX project has taken the decision for a combined mean and PNEC-based approach, as it better represents the ‘average’ toxicity while still taking into account more sensitive species. However, the main reason for deviating results remains in the calculation of the residence time of emissions in the water compartments. Conclusion and Outlook  The situation that different LCIA methods result in different answers to the question concerning which detergent type is to be preferred regarding the impact category aquatic ecotoxicity is not satisfactory, unless explicit reasons for the differences are identifiable. This can hamper practical decision support, as LCA practitioners usually will not be in a position to choose the ’right’ LCIA method for their specific case. This puts a challenge to the entire OMNIITOX project to develop a method, which finds common ground regarding fate, exposure and effect modelling to overcome the current situa-tion of diverging results and to reflect most realistic conditions.     

Comparison of different methods for an accurate assessment of cytotoxicity in the in vitro micronucleus test. I. Theoretical aspects

A decrease in the cytokinesis-block proliferation index (CBPI) or replication index (RI) is routinely used to determine cytotoxicity of a test compound and therefore the choice of its appropriate test concentration for the in vitro micronucleus (MN) test conducted in the presence of cytochalasin B. As a number of laboratories prefer to conduct the in vitro MN test in the absence of cytochalasin B, it is important that selected test concentrations, based on cytotoxicity, should be similar to what they would have been if cytochalasin B had been used, and should be relevant of a true cytotoxicity. By using models to analyse the dynamics of the cell cultures with and without cytochalasin B we have compared different methods for evaluation of cytotoxicity, and demonstrate that relative decrease in population doubling or relative increase in cell counts are the most appropriate measures of cytotoxicity to compare with reduction in CBPI or RI.     

Comparison of different methods for protein determination inAspergillus niger mycelium

Summary Protein contents were determined in submerged as well as in surface-grown citric acid producingAspergillus niger mycelia. Various methods (Kjeldahl, Biuret, Lowry and Coomassie Blue) for protein determination were compared. The Biuret method seemed to be more suitable than the others for true protein determination in mycelia. The Lowry method gave lower results in all cases. The Coomassie Blue method did not prove suitable for the material used.     

不同测压方法测试大鼠结肠破裂压

目的比较不同测压方法测试大鼠结肠破裂压的优缺点。方法45只雄性SD大鼠随机等分为手动皮球测压组（H组）、机器测压压力表头描记测试组（MP组）、“实验动物空腔脏器耐压力测试系统”测试组（ME组）。各组大鼠经尾静脉注射麻醉后,切取结肠测试结肠破裂压;大鼠结肠端-端吻合一周后切取各组大鼠结肠吻合口,同法测试吻合口破裂压。结果三种测压方法所测得正常结肠及结肠吻合口破裂压差异无统计学意义（P〉0．05）,但ME组的标准差最小,MP组次之,H组的标准差最大。结论不同测压方法均可应用于大鼠正常结肠和结肠吻合口破裂压测试,但“实验动物空腔脏器耐压力测试系统”使实验更简便、直观,实验结果更客观、精确。     

Comparison of different methods for the identification of groups of streptococci

The Streptococci, isolated from 500 mucus-pharyngeal tampons, have been tested, for a group identification, by means of four different techniques in order to value the specificity and reliability in comparison with more traditional and, sometimes, more complex tests; such as Maxted and Lancefield. The most suitable method for routine researchers of microbiology laboratories is the one based on the extraction, by means of enzyme obtained from Streptomyces Griseus, of streptococci antigens before starting their serum identification, possible for A-B-C-D-F-G groups (Streptex). On the contrary, the method based on the links of group-specific antibodies with the A protein of the surface of Staphylococci Cowan I, has resulted more defective because Streptococci D and F cannot be grouped, and less specific because of frequent co-agglutinations.     

Comparison of the methods applicable for the pathogenicity assessment of entomopathogenic nematodes

Single infective juveniles of Heterorhabditis bacteriophora, H. megidis (Nematoda: Heterorhabditidae), Steinernema arenarium, S. carpocapsae and S. feltiae (Nematoda: Steinernematidae) were used to infect single Galleria mellonella (Lepidoptera: Pyralidae) larvae. Four parameters of entomopathogenic nematodes pathogenicity were assessed: the mortality of insects, infectivity of nematodes, number of nematodes established per single G. mellonella, and degree of infective juveniles colonization (percent of infective juveniles which intestine was colonized by symbiotic bacteria). The accuracy, repeatability, and versatility for different species of EPNs in bioassay arenas were compared. Our modifications of the original methods yielded ~ 50% higher efficiency of infective juveniles in cell culture plates and > 20% higher efficiency in centrifuge test tubes. The efficiency of nematodes in cell culture plates (39–77%) was relatively low, especially in the case of Heterorhabditis spp. In the bioassay arena, infective juveniles migrated between cells. The results of our studies indicate that the pathogenicity of EPNs should be assessed in centrifuge test tubes. In these arenas, the infectivity of single IJs was ~ 90% for Heterorhabditis spp. and ~ 95% for Steinernema spp. The degree of colonization of the EPN isolates by symbiotic bacteria was in the range of 96–98%.     

生态系统服务的物质量与价值量评价方法的比较分析

对生态系统服务的物质量评价和价值量评价这两类评价方法进行比较,分析了这两类评价方法的优点和缺点,结果表明,采用物质量和价值量两种不同的方法对同一生态系统进行服务评价,往往会得出不同甚至相反的结论：对于不同的评价目的和不同的评价空间尺度,这两类评价方法的作用是有较大区别的,同时这两类评价方法在一定意义上又是相互促进和互为补充的。     

Comparison of three different methods for measurement of tissue platinum level

We attempted to make a comparison of three methods for tissue platinum; atomic absorption spectrometry (AAS), inductively coupled plasma atomic emission spectrometry (ICP-AES), and inductively coupled plasma mass spectrometry (ICP-MS). The determination lim its were 0.05 ng/mL on ICP-MS, 50 ng/mL on ICP-AES, and 200 ngJmL on AAS, and the recovery rates were 97.7 ± 6.9% on ICP-MS, 69.0 ± 3.0% on ICP-AES, and 102.4 ± 4.0% on AAS, respectively. Plat inum was detected by ICP-AES and ICP-MS in human vertebrae, but the level was higher by ICP-AES than by ICP-MS. In the mouse kid ney treated with cisplatin, platinum was detected by ICP-MS, but not by ICP-AES. As cadmium gives the absorption peak close to plat inum, cadmium was measured together with platinum by ICP-AES in the vertebrae. From these, ICP-MS is the most sensitive for measure ment at tissue platinum. The sensitivity of ICP-AES looks worse for measuring the tissue platinum, and it is necessary to take care of the contaminant of metals, especially cadmium. AAS is not suitable for measurement of tissue platinum as in the vertebrae and kidneys, because platinum was not detectable by AAS.     

Comparison of three different staining methods for the assessment of epididymal red deer sperm morphometry by computerized analysis with ISAS

When collection of ejaculated sperm samples is not possible, as is the case with wild species, the epididymides of sacrificed wild males become the only possible source of spermatozoa. Mature cauda epididymal spermatozoa display characteristics similar to those of ejaculated sperm cells. The present work proposes a sperm staining technique suitable for the morphometric evaluation of red deer epididymal sperm using a new computerized system. Epididymides from wild animals were extracted no later than 2h post mortem. After epididymal sectioning, sperm samples were collected, cooled to and equilibrated at 5 degrees C, and frozen in liquid nitrogen. Before staining, sperm samples were thawed for 20s at 37 degrees C, and used for the preparation of slides. Three different sperm stains were tested: Hemacolor, Diff-Quik, and Harris' Hematoxylin. Morphometric analyses of sperm samples were performed using the morphologic module of the ISAS. Two hundred spermatozoa per sample and stain were captured at random and analyzed. Sperm morphometric values were significantly affected by the staining technique used. Moreover, significant differences were observed between animals. In our study, Diff-Quik could be considered to be the best sperm staining method, as it provided the highest percentage of well automatically analyzed cells by the ISAS, and discriminates better between animals. This sperm staining technique also proved to be a useful method for characterizing and discriminating between sperm samples of different animals.     

不同牛分枝杆菌特异性基因PCR方法的比较

【背景】牛结核病是我国二类动物疫病,世界动物卫生组织将其列为法定报告的动物疫病。牛主要通过患病牛呼吸道分泌物和咳嗽所产生的气溶胶感染;人则主要通过食用未经高温处理的病牛的肉或奶感染。因此,经过病原学PCR检测对疑似患病牛牛奶或屠宰组织样品进行快速检验确诊,能够最大限度地减少奶牛养殖中乳品生产业的经济损失。【目的】研究并确定适宜的牛分枝杆菌PCR扩增引物及参数,为临床快速准确诊断牛结核病提供参考。【方法】对已报道的5对PCR引物,运用降落(touch down) PCR法确定适宜退火温度(Tm);运用梯度稀释的牛分枝杆菌C68001株(国内牛结核菌素生产用菌株)基因组DNA以及不同菌液含量的人工模拟临床样本(淋巴结、肺脏和牛奶),确定不同引物PCR方法的敏感性;同时以6种常见牛感染菌(牛种布鲁氏菌2308、羊种布鲁氏菌Rev.1、牛分枝杆菌C68001和AN5、禽分枝杆菌C68202、副结核分枝杆菌C68681和胞内分枝杆菌C68226)核酸样本,确定不同引物PCR方法的特异性。【结果】所有引物在53-63℃均含有目的条带,确定引物的最佳退火温度是60℃。在细菌核酸敏感性检验中,1号和3...     

Comparison of different methods of glucose oxidase immobilization

Glucose oxidase was immobilized by covalent bond to two basic types of sorbents—glycidylmethacrylate copolymers and bead cellulose. These two types of carries were chemically modified, if needed, by the employing various procedures and subsequently used in the immobilization of native and oxidized glucose oxidase. The samples thus obtained were compared with those of immobilized glucose oxidase bound onto some common carriers. Samples which possessed not only a high absolute activity but also adequate mechanical and flow properties were characterized in greater detail with respect to the immobilization efficiency and kinetic properties of bound glucose oxidase.     

Comparison of different melting temperature calculation methods for short DNA sequences

MOTIVATION: The overall performance of several molecular biology techniques involving DNA/DNA hybridization depends on the accurate prediction of the experimental value of a critical parameter: the melting temperature Tm. Till date, many computer software programs based on different methods and/or parameterizations are available for the theoretical estimation of the experimental Tm value of any given short oligonucleotide sequence. However, in most cases, large and significant differences in the estimations of Tm were obtained while using different methods. Thus, it is difficult to decide which Tm value is the accurate one. In addition, it seems that most people who use these methods are unaware about the limitations, which are well described in the literature but not stated properly or restricted the inputs of most of the web servers and standalone software programs that implement them. RESULTS: A quantitative comparison on the similarities and differences among some of the published DNA/DNA Tm calculation methods is reported. The comparison was carried out for a large set of short oligonucleotide sequences ranging from 16 to 30 nt long, which span the whole range of CG-content. The results showed that significant differences were observed in all the methods, which in some cases depend on the oligonucleotide length and CG-content in a non-trivial manner. Based on these results, the regions of consensus and disagreement for the methods in the oligonucleotide feature space were reported. Owing to the lack of sufficient experimental data, a fair and complete assessment of accuracy for the different methods is not yet possible. Inspite of this limitation, a consensus Tm with minimal error probability was calculated by averaging the values obtained from two or more methods that exhibit similar behavior to each particular combination of oligonucleotide length and CG-content class. Using a total of 348 DNA sequences in the size range between 16mer and 30mer, for which the experimental Tm data are available, we demonstrated that the consensus Tm is a robust and accurate measure. It is expected that the results of this work would be constituted as a useful set of guidelines to be followed for the successful experimental implementation of various molecular biology techniques, such as quantitative PCR, multiplex PCR and the design of optimal DNA microarrays.