Aplicação da Técnica de “NESTED PCR” Durante o Período Pré-Patente para Identificação de Schistosoma Mansoni no Hospedeiro Intermediário Biomphalaria Glabrata

Biomphalaria glabrata, molusco de água doce, desempenha um importante papel em Parasitologia Médica, por ser o hospedeiro intermediário de Schistosoma mansoni, tremátode digenético responsável pela schistosomose intestinal. A detecção de moluscos infectados pelo Schistosoma mansoni tem uma grande importância em Saúde pública, porque identifica focos de transmissão da schistosomose. As limitações dos métodos clássicos para o diagnóstico de infecções pré patentes fazem com que os métodos de biologia moleculares sejam vistos como possíveis alternativas através da detecção de ADN do S. mansoni em moluscos hospedeiros. A detecção de sequências específicas de ADN por reacção de polimerase em cadeia (PCR) tem-se verificado ser de extrema importância para a análise genética e diagnóstico de várias doenças infecciosas. Neste estudo foi aplicada a técnica de Nested-PCR, com o objectivo de identificar, no período pré-patente, S. mansoni em moluscos expostos a 1, 5 e 10 miracídios em diferentes períodos de tempo. Foram utilizados moluscos das estirpes albina e selvagem de B. glabrata. Para a realização das técnicas de PCR e de Nested–PCR (NPCR) foram utilizados dois pares de oligonucleótidos desenhados especificamente para detectar o ADN de S. mansoni . Verificou-se amplificação do fragmento de ADN do parasita em 80% das amostras analisadas, independentemente da dose de miracídios e do período de exposição. O método utilizado é altamente sensível, mostrando ser uma ferramenta útil na detecção de hospedeiros intermediários de S. mansoni, consequentemente na identificação de focos de schistosomose intestinal.

Aplicação da Técnica de “Nested Pcr” Durante o Período Pré-Patente para Identificação de Schistosoma Mansoni no Hospedeiro Intermediário Biomphalaria Glabrata

Biomphalaria glabrata, molusco de água doce, desempenha um importante papel em Parasitologia Médica, por ser o hospedeiro intermediário de Schistosoma mansoni, tremátode digenético responsável pela schistosomose intestinal. A detecção de moluscos infectados pelo Schistosoma mansoni tem uma grande importância em Saúde pública, porque identifica focos de transmissão da schistosomose. As limitações dos métodos clássicos para o diagnóstico de infecções pré patentes fazem com que os métodos de biologia moleculares sejam vistos como possíveis alternativas através da detecção de ADN do S. mansoni em moluscos hospedeiros. A detecção de sequências específicas de ADN por reacção de polimerase em cadeia (PCR) tem-se verificado ser de extrema importância para a análise genética e diagnóstico de várias doenças infecciosas. Neste estudo foi aplicada a técnica de Nested-PCR, com o objectivo de identificar, no período pré-patente, S. mansoni em moluscos expostos a 1, 5 e 10 miracídios em diferentes períodos de tempo. Foram utilizados moluscos das estirpes albina e selvagem de B. glabrata. Para a realização das técnicas de PCR e de Nested–PCR (NPCR) foram utilizados dois pares de oligonucleótidos desenhados especificamente para detectar o ADN de S. mansoni . Verificou-se amplificação do fragmento de ADN do parasita em 80% das amostras analisadas, independentemente da dose de miracídios e do período de exposição. O método utilizado é altamente sensível, mostrando ser uma ferramenta útil na detecção de hospedeiros intermediários de S. mansoni, consequentemente na identificação de focos de schistosomose intestinal.

One-sided tolerance interval in a two-way balanced nested model with mixed effects

In many research areas (such as public health, environmental contamination, and others) one deals with the necessity of using data to infer whether some proportion (%) of a population of interest is (or one wants it to be) below and/or over some threshold, through the computation of tolerance interval. The idea is, once a threshold is given, one computes the tolerance interval or limit (which might be one or two - sided bounded) and then to check if it satisfies the given threshold. Since in this work we deal with the computation of one - sided tolerance interval, for the two-sided case we recomend, for instance, Krishnamoorthy and Mathew [5]. Krishnamoorthy and Mathew [4] performed the computation of upper tolerance limit in balanced and unbalanced one-way random effects models, whereas Fonseca et al [3] performed it based in a similar ideas but in a tow-way nested mixed or random effects model. In case of random effects model, Fonseca et al [3] performed the computation of such interval only for the balanced data, whereas in the mixed effects case they dit it only for the unbalanced data. For the computation of twosided tolerance interval in models with mixed and/or random effects we recomend, for instance, Sharma and Mathew [7]. The purpose of this paper is the computation of upper and lower tolerance interval in a two-way nested mixed effects models in balanced data. For the case of unbalanced data, as mentioned above, Fonseca et al [3] have already computed upper tolerance interval. Hence, using the notions persented in Fonseca et al [3] and Krishnamoorthy and Mathew [4], we present some results on the construction of one-sided tolerance interval for the balanced case. Thus, in order to do so at first instance we perform the construction for the upper case, and then the construction for the lower case.

Is the capture success of orchid bees (Hymenoptera, Apoidea) influenced by different baited trap designs? A case study from southern Brazil

Orchid bees are increasingly applied on Neotropical biomonitoring and bioindication studies due to the relative easiness of sampling and identification when compared to other bee groups. A considerable number of orchid bee community studies have been adopting baited traps as a sampling method, especially for replication purposes. However, the trap attributes are variable, and hitherto no evaluation of different designs was carried out. Here, five attributes of baited traps were tested: trap volume, number of entrance holes, presence of landing platform, kind of landing platform, and fixation content. We use Mann-Whitney tests to access differences in richness and abundance capture rates for each trap design. We found that volume, number of entrance holes, and fixation content do not influence orchid bees capture. However, the design without landing platforms had a significantly higher capture rate for richness when compared with sanded landing platforms. On the other hand, analyzing the kind of landing platform, we detected a significantly higher richness and abundance for the trap with landing platforms glued with sand. Despite the fact that the effects of different designs tested here were very punctual, we consider that results from samples taken with different baited trap designs are comparable. Some adjustments on trap design can be done according to the particularities of future studies.

A program for the computation of power and determination of sample size in hierarchical experimental designs.

We have devised a program that allows computation of the power of F-test, and hence determination of appropriate sample and subsample sizes, in the context of the one-way hierarchical analysis of variance with fixed effects. The power at a fixed alternative is an increasing function of the sample size and of the subsample size. The program makes it easy to obtain the power of F-test for a range of values of sample and subsample sizes, and therefore the appropriate sizes based on a desired power. The program can be used for the 'ordinary' case of the one-way analysis of variance, as well as for hierarchical analysis of variance with two stages of sampling. Examples are given of the practical use of the program.

Random assignment of intervention points in two phase single-case designs: data-division-specific distributions

The present study explores the statistical properties of a randomization test based on the random assignment of the intervention point in a two-phase (AB) single-case design. The focus is on randomization distributions constructed with the values of the test statistic for all possible random assignments and used to obtain p-values. The shape of those distributions is investigated for each specific data division defined by the moment in which the intervention is introduced. Another aim of the study consisted in testing the detection of inexistent effects (i.e., production of false alarms) in autocorrelated data series, in which the assumption of exchangeability between observations may be untenable. In this way, it was possible to compare nominal and empirical Type I error rates in order to obtain evidence on the statistical validity of the randomization test for each individual data division. The results suggest that when either of the two phases has considerably less measurement times, Type I errors may be too probable and, hence, the decision making process to be carried out by applied researchers may be jeopardized.

R functions for quantifying nonindependence in standard dyadic and SRM designs

Interdependence is the main feature of dyadic relationships and, in recent years, various statistical procedures have been proposed for quantifying and testing this social attribute in different dyadic designs. The purpose of this paper is to develop several functions for this kind of statistical tests in an R package, known as nonindependence, for use by applied social researchers. A Graphical User Interface (GUI) is also developed to facilitate the use of the functions included in this package. Examples drawn from psychological research and simulated data are used to illustrate how the software works.

Comparing 'visual' effect size indices for single-case designs

Effect size indices are indispensable for carrying out meta-analyses and can also be seen as an alternative for making decisions about the effectiveness of a treatment in an individual applied study. The desirable features of the procedures for quantifying the magnitude of intervention effect include educational/clinical meaningfulness, calculus easiness, insensitivity to autocorrelation, low false alarm and low miss rates. Three effect size indices related to visual analysis are compared according to the aforementioned criteria. The comparison is made by means of data sets with known parameters: degree of serial dependence, presence or absence of general trend, changes in level and/or in slope. The percent of nonoverlapping data showed the highest discrimination between data sets with and without intervention effect. In cases when autocorrelation or trend is present, the percentage of data points exceeding the median may be a better option to quantify the effectiveness of a psychological treatment.

Factors affecting visual analysis in single-case designs

Visual inspection remains the most frequently applied method for detecting treatment effects in single-case designs. The advantages and limitations of visual inference are here discussed in relation to other procedures for assessing intervention effectiveness. The first part of the paper reviews previous research on visual analysis, paying special attention to the validation of visual analysts" decisions, inter-judge agreement, and false alarm and omission rates. The most relevant factors affecting visual inspection (i.e., effect size, autocorrelation, data variability, and analysts" expertise) are highlighted and incorporated into an empirical simulation study with the aim of providing further evidence about the reliability of visual analysis. Our results concur with previous studies that have reported the relationship between serial dependence and increased Type I rates. Participants with greater experience appeared to be more conservative and used more consistent criteria when assessing graphed data. Nonetheless, the decisions made by both professionals and students did not match sufficiently the simulated data features, and we also found low intra-judge agreement, thus suggesting that visual inspection should be complemented by other methods when assessing treatment effectiveness.

Estimating slope and level change in N=1 designs

The current study proposes a new procedure for separately estimating slope change and level change between two adjacent phases in single-case designs. The procedure eliminates baseline trend from the whole data series prior to assessing treatment effectiveness. The steps necessary to obtain the estimates are presented in detail, explained, and illustrated. A simulation study is carried out to explore the bias and precision of the estimators and compare them to an analytical procedure matching the data simulation model. The experimental conditions include two data generation models, several degrees of serial dependence, trend, level and/or slope change. The results suggest that the level and slope change estimates provided by the procedure are unbiased for all levels of serial dependence tested and trend is effectively controlled for. The efficiency of the slope change estimator is acceptable, whereas the variance of the level change estimator may be problematic for highly negatively autocorrelated data series.

Superpave Mix Designs for Low Volume Roads, Construction Report, TR-414, 2001

Most research current to the time of these projects was focused on use of Superpave mix designs on higher volume roads. Low volume roads have different requirements in terms of mix design, aggregate types, aggregate sources and project budgets. The purpose of this research was to determine if the Superpave mix design strategy for low volume roads was practical and economical. Eight projects were selected in five counties. The projects were completed in the summer of 1998. Performance evaluation of the resulting pavements was carried out annually. There was no significant increase in costs related to the use of Superpave. Nor were there any significant construction issues. There were some differences noted in placement and compaction in the field, but these were not serious.

How important are interview methods and questionnaire designs in research on self-reported juvenile delinquency? An experimental comparison of internet vs. paper-and-pencil questionnaires and different definitions of the reference period

There has been relatively little change over recent decades in the methods used in research on self-reported delinquency. Face-to-face interviews and selfadministered interviews in the classroom are still the predominant alternatives envisaged. New methods have been brought into the picture by recent computer technology, the Internet, and an increasing availability of computer equipment and Internet access in schools. In the autumn of 2004, a controlled experiment was conducted with 1,203 students in Lausanne (Switzerland), where "paper-and-pencil" questionnaires were compared with computer-assisted interviews through the Internet. The experiment included a test of two different definitions of the (same) reference period. After the introductory question ("Did you ever..."), students were asked how many times they had done it (or experienced it), if ever, "over the last 12 months" or "since the October 2003 vacation". Few significant differences were found between the results obtained by the two methods and for the two definitions of the reference period, in the answers concerning victimisation, self-reported delinquency, drug use, failure to respond (missing data). Students were found to be more motivated to respond through the Internet, take less time for filling out the questionnaire, and were apparently more confident of privacy, while the school principals were less reluctant to allow classes to be interviewed through the Internet. The Internet method also involves considerable cost reductions, which is a critical advantage if self-reported delinquency surveys are to become a routinely applied method of evaluation, particularly so in countries with limited resources. On balance, the Internet may be instrumental in making research on self-reported delinquency far more feasible in situations where limited resources so far have prevented its implementation.

Survival in soil and detection of co-transformed Trichoderma harzianum by nested PCR

The objective of this work was to evaluate the survival of two Trichoderma harzianum co-transformants, TE 10 and TE 41, carrying genes for green fluorescent protein (egfp) and for resistance to benomyl, during four weeks in a contained soil microcosm. Selective culture media were used to detect viable fungal material, whose identity was confirmed by the observation of the fluorescent phenotype by direct epifluorence microscopy. PCR using two nested primer pairs specific to the egfp gene was also used to detect the transformed fungi. Although it was not possible to reliably detect the egfp gene directly from soil extracts, an enrichment step involving selective culture of soil samples in liquid medium prior to DNA extraction enabled the consistent detection of the T. harzianum co-transformants by nested PCR for the duration of the incubation period.