演化极端结合分支分类方法

从生物演化的逆方向考虑,提出一种聚合的分支分类运算方法,称为演化极端结合分支分类法。文章阐明其设计思路、演算步骤,并以实例具体说明其演算过程。最后以演化长度系数、合理解与合理方法等概念,对演化极端结合法进行评价。     

改进的SDS-CTAB法提取濒危植物连香树总DNA

对珍稀濒危植物连香树(Cercidiphyllum japonicum)的6种总DNA提取方法进行了对比试验,结果表明改进的SDS-CTAB法更适合于连香树总DNA提取。该方法提取的DNA经紫外消光值检测,其A260/A280为1.8532,优于CTAB法(1.4872)、SDS法(1.3552)、PVP法(1.5079)、尿素法(1.1858)和高盐低pH法(1.4534)。琼脂糖凝胶电泳和PCR扩增结果也得出同样的结论。     

用气相色谱-质谱联用比较牛耳草代谢物的提取方法

通过比较不同的提取方法对牛耳草新鲜和脱水叶片中代谢物的提取效率,旨在建立一种可以有效鉴定并分析牛耳草脱水过程中关键小分子代谢物的种类和含量变化的方法,为研究植物耐脱水分子机制提供技术方法。本研究以气相色谱-质谱联用(GC-MS)为分析方法,对复苏植物牛耳草代谢物提取方法进行比较。从提取总色谱峰数目、提取效率、代谢物保留时间和提取效率稳定性等方面比较甲醇溶液(A法)和甲醇-氯仿-水溶液(B法)两种提取方法的提取效果。对牛耳草新鲜样品提取结果表明,B法提取的总色谱峰数目多于A法;对9种共有代谢物的提取效率比较结果表明,B法的提取效率高于A法;对10种色谱峰的保留时间和提取效率的方法学考察结果表明,两者保留时间RSD(相对标准偏差)值均小于1%,A法提取效率的RSD值≤10%的比例为50%,B法的为100%。A法对干样的提取色谱峰数目远少于鲜样,而B法对干样的提取色谱峰数目和鲜样没有显著差异,保留时间RSD值均小于1%,提取效率的RSD值与鲜样没有差异,稳定性良好。     

Approximating identity-by-descent matrices using multiple haplotype configurations on pedigrees

Identity-by-descent (IBD) matrix calculation is an important step in quantitative trait loci (QTL) analysis using variance component models. To calculate IBD matrices efficiently for large pedigrees with large numbers of loci, an approximation method based on the reconstruction of haplotype configurations for the pedigrees is proposed. The method uses a subset of haplotype configurations with high likelihoods identified by a haplotyping method. The new method is compared with a Markov chain Monte Carlo (MCMC) method (Loki) in terms of QTL mapping performance on simulated pedigrees. Both methods yield almost identical results for the estimation of QTL positions and variance parameters, while the new method is much more computationally efficient than the MCMC approach for large pedigrees and large numbers of loci. The proposed method is also compared with an exact method (Merlin) in small simulated pedigrees, where both methods produce nearly identical estimates of position-specific kinship coefficients. The new method can be used for fine mapping with joint linkage disequilibrium and linkage analysis, which improves the power and accuracy of QTL mapping.     

Method for rapid screening of pesticide mineralization in soil

A method has been developed for the analysis of (14)CO(2) evolution from the mineralization of (14)C-labelled organic compounds in soil samples. The new method is less space demanding and substantially cuts down laborious manual work compared to the traditional incubation bottle method used. Furthermore, the use of scintillation cocktail is largely reduced with the new method. In the new method, (14)CO(2) is trapped in filter paper held in the lid of a 20 ml glass vial by surface tension. The trapping solution used is Ca(OH)(2), which fixates CO(2) in the filter paper and the analysis of trapped (14)CO(2) is done using the Cyclone trade mark Storage Phosphor system. The lids are placed in a 32 well holder and exposed to a phosphor screen prior to scanning in a Cyclone trade mark scanner. The new filter method has been tested and compared to results obtained using the traditional method. The results show good agreement but due to a smaller capacity for CO(2) with the filter method compared to the traditional method, the interval between sampling has to be shorter using the filter method when the CO(2) development is high. The detection limits for the filter method is higher compared to the traditional method. With the filter method, the level of radioactivity has to exceed 300 dpm before detection is possible, while the same limit for the traditional method is around 30 dpm. On the other hand, the gas trapping faster and the efficiency is higher with the filter method.     

Development of a Fast, Reproducible and Effective Method for the Extraction and Quantification of Proteins of Micro-algae

The best method that was developed to extract protein from Chlorella was by sonic disruption of the cells for 3 cycles of 1 min. at 70W on ice in the presence of 1% (w/v) SDS. The best method to quantify the amount of protein in algal extracts is the staining method with the dye bicinchoninic acid. The developed method is reliable for the tested fresh-water micro-alga Chlorella, is also acceptable for the fresh-water micro-alga Chlamydomonas, but is not reliable for the marine micro-algae Dunaliella, Rhodomonas and Synechococcus. The extraction method was the most critical factor factor for determination of proteins in micro-algae and needs to be optimized for each algal species.     

Curtis' Substitute for Van Gieson Stain

A triple staining method is described in which nuclear staining is by Weigert's hematoxylin. The cytoplasmic and collagen staining is effected by the Curtis substitute for Van Gieson, in which ponceau S is substituted for acid fuchsin. Nuclear staining is sharper than with Delafield's hematoxylin. The red of the collagen fibers is probably not subject to fading. Unlike Van Gieson, this method gives staining of reticular as well as collagen fibers. The advantages of the method are its simplicity and reliability. The use of this method is made possible by a new source of reliable samples of the ponceau S called for in this method.     

Archaeological Inference and Inductive Confirmation

The limitations of the hypothetico-deductive (H-D) method of inductive confirmation are described, and an alternate method, the hypothetico-analog (H-A) method is described in detail. The H-A method can be characterized as a modified and supplemented form of the simple H-D method, and is proposed as being more appropriate for archaeological inference. Aspects of the H-A method that are given particular attention include the establishment of boundary conditions for reference classes, plausibility considerations, multiple working hypotheses, bridging arguments, and criteria for selecting alternative hypotheses . [scientific method, archaeological inference, hypothetico-analog method, inductive confirmation]     

Quantitative analysis of tricyclic antidepressants in serum from psychiatric patients

A method for the quantitative analysis of tricyclic antidepressants in the serum of psychiatric patients is described. The method can be used for determining arnitriptyline, nortriptyline, imipramine, demethyllimipramine, clomipramine, demethylclomipramine, trimipramine and protriptyline. The method consists in a series of extraction steps followed by gas chromatography with a flame-ionization detector. The drugs are determined in their native state. The internal standard method is used for the quantitation.     

Mapping quantitative trait loci by an extension of the Haley-Knott regression method using estimating equations

The Haley-Knott (HK) regression method continues to be a popular approximation to standard interval mapping (IM) of quantitative trait loci (QTL) in experimental crosses. The HK method is favored for its dramatic reduction in computation time compared to the IM method, something that is particularly important in simultaneous searches for multiple interacting QTL. While the HK method often approximates the IM method well in estimating QTL effects and in power to detect QTL, it may perform poorly if, for example, there is strong epistasis between QTL or if QTL are linked. Also, it is well known that the estimation of the residual variance by the HK method is biased. Here, we present an extension of the HK method that uses estimating equations based on both means and variances. For normally distributed phenotypes this estimating equation (EE) method is more efficient than the HK method. Furthermore, computer simulations show that the EE method performs well for very different genetic models and data set structures, including nonnormal phenotype distributions, nonrandom missing data patterns, varying degrees of epistasis, and varying degrees of linkage between QTL. The EE method retains key qualities of the HK method such as computational speed and robustness against nonnormal phenotype distributions, while approximating the IM method better in terms of accuracy and precision of parameter estimates and power to detect QTL.     

A simple method for classifying genes and a bootstrap test for classifications

A new simple method for classifying genes is proposed based on Klastorin's method. This method classifies genes into monophyletic groups which are made distinct from each other by evolutionary changes. The method is applicable as long as the phylogenetic tree of genes is obtained. There is a fast algorithm for obtaining the classification. A bootstrap test of a classification is also presented. As an example, we classified opsin genes. The classification obtained by this method is the same as the previous classification based on the function of opsins.     

The office treatment of tattoos: a simple and effective method

A simplified method for the treatment of tattoos is described. The method is based on an older method called the "French method" known to tattoo artists. The treatment consists of superficial dermabrasion of the skin followed by application of a tannic acid solution which is then "rubbed" into the skin by the dermabrasion wheel. The treatment site is then "painted" with a silver nitrate stick. A heavy eschar forms which separates in approximately 2 to 3 weeks. The method incorporates the use of equipment that is present in the usual plastic surgical office. The method has produced excellent improvement in tattoos, with obliteration of the tattoo in the majority of cases. This report covers 85 patients with 207 tattoos treated over an 11-year period. The method is presented as a treatment of tattoos that are too large for simple excision. Details of the treatment are presented.     

不同样本中甲螨的分离方法

采用电热分离法、清水漂浮法和振动分离法对不同样本中甲螨的分离时间、数量,样本的放置时间及电热分离所用热光源作了比较,结果证明,分离土壤甲螨时,土壤放置7d与立即分离所获甲螨数无差别,少量土样宜用清水漂浮法,大量土样宜用电热分离法,而植被样本宜用振动分离法。     

Demonstration of Monophenoloxidase Activity of Tyrosinase after Electrophoresis

The improved method presented here for localizing monophenoloxidase activity of tyrosinase (E.C. 1.14.18.1.) after electrophoresis is based on the transfer of electrons from the monophenolic substrate, tyrosine methyl ester, to an artificial acceptor, phenazine methosulfate, and subsequent reduction of nitro blue tetrazo-lium into a violet formazan. This method is rapid, sensitive and versatile compared to the standard method. The electron transferred from mono-phenol can be accepted directly by nitro blue tetrazolium; although the background of the gel is clear, the sensitivity is decreased. The mono-phenol-PMS-NBT method is suitable for both plant and animal samples. This method can also be used for histochemical demonstration of monophenoloxidase activity.     

RAPID DETECTION OF BRUCELLA ABORTUS BY A NOVEL PROXIMITY LIGATION-BASED LOOP-MEDIATED ISOTHERMAL AMPLIFICATION METHOD

Brucellosis is one of the most common zoonotic diseases, and current methods of detecting this pathogen are quite difficult. This work combines the benefits of a proximity ligation assay with those of a loop-mediated isothermal amplification method to develop a novel proximity ligation-based loop-mediated isothermal amplification method useful for Brucella detection. The genomic DNA extraction procedure is not needed. Sensitivity of this assay for detecting Brucella abortus is 1  ×  10⁴ cells/mL in buffer and 1  ×  10⁵ cells/mL in milk. The time to detection is within 2 h of initiating the procedure, and no special equipment is needed. This new method is also suitable for the detection of other pathogens, and as such will be useful in the food safety industry.

PRACTICAL APPLICATIONS

Polymerase chain reaction (PCR) is a sensitivity method for microbe detection, but the complicated genomic DNA extraction procedure and costly equipment needed for this method makes the PCR method unpopular in developing countries. In this study, we present the novel proximity ligation-based loop-mediated isothermal amplification (P-LAMP) method for Brucella detection; this is the first time to combine the monoclonal antibody for identify microbe and LAMP method for high performance amplification DNA. The genomic DNA extraction procedure is not needed and a water-bath boiler is the only equipment required to complete the detection process. The P-LAMP method is useful for food safety pathogen detection in developing countries.     

In-vivo estimations of the nonlinear pressure-volume relationship of the aorta and instantaneous left ventricular volume

A method is presented in this paper for the in-vivo estimation of the nonlinear pressure-volume relationship of the human aorta. The method is based on nonlinear elastic reservoir theory and utilizes clinical data that can be obtained with a high degree of accuracy, namely stroke volume, end diastolic ventricular volume and aortic pressure trace data. The computational procedure is described and then carried out for six cardiac patients. A method for the estimation of instantaneous left ventricular volume during the ejection period based on the considered nonlinear elastic reservoir theory is also presented. The method is applied for the six cardiac patients cited and the results compared with those obtained for the same subjects by a method of estimation based on linear elastic reservoir theory described in a previous paper by the author (1969).     

不同取样方式在稻田节肢动物采集中的效率评估

水稻是我国主要粮食作物,每年都会因虫害造成大量的经济损失,为了挽回害虫造成的损失,必须对害虫进行防治。田间节肢动物群落调查是评价害虫防治效果的重要依据,取样方式对节肢动物群落调查的准确性具有重要的影响。另外,对转基因作物对稻田生物多样性安全性进行评价时,取样方式对多样性评价的准确性也具有重要的影响。本文采用吸虫器法、盆拍法和马氏网诱集法3种取样方式进行稻田节肢动物调查,并评估不同取样方式的采集效率。得到的结果有:1.采集到的节肢动物物种数:马氏网诱集法吸虫器法盆拍法;2.采集的节肢动物数量:盆拍法吸虫器法马氏网诱集法;3.吸虫器取样法在调查叶蝉科、秆蝇科、茧蜂科、姬蜂科、金小蜂科、缘腹细蜂科、蕈蚋科时,取样效率较高;4.盆拍取样法在调查叶蝉科、瘿蚊科、微蛛亚科、跳蛛科、狼蛛科、猫蛛科、弹尾虫目、飞虱科时,取样效率较高;5.马氏网诱集法在调查缟蝇科和毛蠓科时取样效率较高。马氏网诱集法善于采集具有飞行能力的节肢动物;吸虫器法对不同习性的节肢动物采集效果均较高;盆拍法适合采集活动于水稻基部的节肢动物。     

一种SDS-PAGE与MALDI-TOF质谱联用的方法

以尿激酶原为材料,探索一种从SDS-PAGE胶上回收蛋白质做MALDI-TOF质谱的方法.所用的回收方法包括电洗脱、脱盐、除SDS等过程.电洗脱用的是高盐阻断法,脱盐用的是超滤技术,去除SDS用的是冷丙酮沉淀法.结果证明,此方法至少对一些蛋白质（如尿激酶原和牛血清白蛋白）是可行的.     

一种SDS-PAGE与MALDI-TOF质谱联用的方法

以尿激酶的为材料,探索一种从ＳＤＳ－ＰＡＧＥ胶上回收蛋白 做ＭＡＬＤＩ－ＴＯＦ质谱的方法,所用的回收方法包括电洗脱、脱盐、除ＳＤＳ等过程,电洗脱用的是高盐阻断法,脱盐用的超滤技术,去除ＳＤＳ用的是冷丙沉淀法,结果证明,此方法至少对一些蛋白质是可行的。     

Highly sensitive reaction of tryptophan with p-phenylenediamine

A simple and sensitive spectrophotometric method for the determination of tryptophan (TRP) is described. The method is based on the coupling reaction of tryptophan with diazotized p-phenylenediamine dihydrochloride (PPDD) in sulfuric acid medium to give the colored product having an absorption maximum at 520 nm. The coupled product was stable for 2h. Beer's law is obeyed in the tryptophan concentration range of 0.25-11 microg/ml. The method is applied for the analysis of pharmaceutical preparations of tryptophan and also in protein samples for tryptophan. Common excipients used as additives in pharmaceutical preparations do not interfere in the proposed method and the significant feature of the method is that most of the amino acids do not interfere in the determination of tryptophan.