Showing papers in "Journal of Microbiological Methods in 2005"

TL;DR: Results indicated that the inc/rep PCR method demonstrates high specificity and sensitivity in detecting replicons on reference plasmids and also revealed the presence of recurrent and common plasmid in epidemiologically unrelated Salmonella isolates of different serotypes.

TL;DR: The performance of an iDEP device in removing and concentrating bacterial cells, spores and viruses while operated with a DC applied electric field and pressure gradient is described.

TL;DR: The proposed method could be suggested to refine previous strain identifications, eliminate redundancy and dispose of a technologically useful LAB strain collection, and could also be applied to identify LAB strains isolated from other food ecosystems.

TL;DR: Different commonly used methods to measure adhesion of bacteria; radioactive labelling, fluorescence tagging, and staining of bacteria are compared and it is shown that the best reproducibility and sensitivity were obtained using radioactive laboratoryelling.

TL;DR: Methods used for RNA extraction, DNA microarrays, real-time PCR, competitive RT-PCR, stable isotope probing and the use of reporter genes provide methods for detecting and quantifying gene expression.

TL;DR: It is reported that the size of DNA fragments extracted from soil varied in a range between less than 100 kb and more than 400 kb depending on the soil, which was partly due to mechanical, chemical or enzymatic shearing of the DNA during the extraction process but partly to the microbial growth status.

TL;DR: A method that enables relative transcript quantification in different conditions in the lactic acid bacteria Oenococcus oeni, notably in a technological medium is established and validated.

TL;DR: The aim of this study was to develop a molecular tool that would allow screening for the presence or absence of different microorganisms within compost samples, and a combination of two different DNA extraction methods was found to give the best DNA yields.

TL;DR: PFGE is the therefore the preferred molecular typing method for surveillance and outbreak investigations, whereas AFLP is most useful for local outbreak investigations.

TL;DR: The use of this molecular tool for early and rapid detection of Gram-positive BA-producing bacteria is of interest in evaluating the potential of cultured indigenous strains to produce biogenic amines in a fermented food product as well as to validate the innocuity of potential starter strains in the food industry.

TL;DR: While RISA represents a fast and general fingerprinting method of moderate cost and labor intensity, T-RFLP is technically more demanding but offers the advantage of phylogenetic identification of detected soil microorganisms, therefore, selection of either of these methods should be based on the specific research question under investigation.

TL;DR: Investigation of the degradation kinetics of free DNA in four types of meat samples indicated that degradation occurred faster in chicken samples than in pork samples and faster at higher temperatures, and there is a risk of false-positive PCR results.

TL;DR: Two fluorogenic assays using fluorescein diacetate (FDA and SYTO 9) and the XTT assay were comparatively evaluated with regard to the linear range of Candida albicans and Candida parapsilosis cell number-response curves, precision and intra- and interspecies variability and proved superior.

TL;DR: HPV could provide an attractive alternative to other decontamination methods, as it was rapid, residue-free and did not give rise to the health and safety concerns associated with other gaseous decontaminating systems.

TL;DR: Modifications made to published arbitrary primed polymerase chain reaction (AP-PCR) procedures resulted in increased specificity and sensitivity, and several arbitrary primer sequences were evaluated, resulting in recommendations for primer design.

TL;DR: A PCR-RFLP method targeted toward 26S rDNA and with 2 restriction enzymes, CfoI and BstF51, was developed to identify 11 Malassezia species, successfully identifying type and standard strains and 13 clinical isolates.

TL;DR: The results showed that great differences existed among the ten procedures and only a few of the methods gave satisfactory results when applied to bacterial pathogens, suggesting that the extraction method needed to be carefully selected to produce significant and confident results in the detection of pathogens from environmental samples.

TL;DR: The experimental parameters, namely, the incubation period, the number of passages required from lyophilised or stored isolates, the method of deposition of the bacterial cells, the concentration of matrix solution, and the drying time of bacterial cells prior to the addition of the matrix solution were considered during the development of defined methods.

TL;DR: A 1-dimensional transfer matrix model analysis for piezoelectric resonators was applied to an axial cross-section of the tubular sonicator to predict frequencies of mechanical resonance in the sample volume associated with maximum acoustic pressure and form a basis for rational design of an ultrasound cell disruption technique for small-volume samples.

TL;DR: The loop-mediated isothermal amplification method (LAMP) that amplifies DNA with high specificity and rapidity at an isothermal condition was evaluated for rapid detection of E. ictaluri and concluded that the LAMP assay can potentially be used for rapid diagnosis in hatcheries and ponds.

TL;DR: This method achieved 100% sensitivity and specificity in simple lysates made from a range of bacteria, without requiring DNA extraction, and is recommended as an efficient screening tool for surveys of integron cassettes.

TL;DR: Specificity of Petrifilm EC plates and mFC agar was evaluated by comparing typical colony counts with confirmed counts and typical colonies were almost identical to confirmed colony counts for both fecal coliforms and E. coli in water.

TL;DR: The technique was effective to visually discriminate between the majority of Fusarium species and/or isolates tested in pure culture, while a further sequencing step permitted to distinguish between the few species showing similar migration patterns.

TL;DR: The use of a mathematical Invasion Success Model to analyse Campylobacter invasion is presented and it can be used to derive three strain dependent characteristics Imax, k, and I0 and used to statistically compare Campylabacter strains for their invasion of epithelial cells.

TL;DR: The fingerprint of volatiles is found to be strongly dependent on the culture medium, both in terms of variety and quantity ofvolatiles produced, but may form the basis for species specific identification of medically important fungi.

TL;DR: Within the data set for planktonic organisms, variations in growth rate created the largest variation between fingerprints, and the effect of varying growth temperature on Y. enterocolitica was also examined.

TL;DR: It is concluded that PAD-HCM enables the prediction of T-RFs at the species level including difficult-to-culture bacteria, and that it is very useful for the T-RFLP analysis of human colonic microbiota.

TL;DR: Stability of the substrates and MUF and AMC standard solutions were stable over the pH range studied and soil-dependent variation in pH optima were observed for chitinase, esterase, PDE and PME.

TL;DR: PCR-DGGE analysis of different 16S rDNA amplicons was able to discriminate between LAB and Gram-positive, coagulase-negative cocci, resulting an effective tool to establish the microbiota developed in artisanal dry sausages.

TL;DR: R reverse hybridization successfully detected over 80% of isoniazid- resistant strains and over 92% of rifampicin-resistant strains among Korean isolates and significant differences in mutation rates in the rpoB, katG, and inhA genes between Beijing strains and non-Beijing strains could explain discrepancies in mutations rates of genotypes in different countries.