Showing papers in "Journal of Microbiological Methods in 2006"

TL;DR: A novel chemical, propidium monoazide (PMA), that (like propidium iodide) is highly selective in penetrating only into 'dead' bacterial cells with compromised membrane integrity but not into live cells with intact cell membranes/cell walls.

TL;DR: A rapid microcentrifuge-based method is described for preparation of Pseudomonas aeruginosa electrocompetent cells with up to 10,000-fold increased transformation efficiencies over existing procedures, which enables the use of transformation for all applications requiring DNA transfer.

TL;DR: The authors' rapid, sensitive and specific TaqMan PCR assay for the detection, identification and quantification of Ca.

TL;DR: The main topics covered are cell growth phases and concentration, inducing drying tolerance in microbial cells, drying methods, rehydration of dried cells and packaging and storage conditions.

TL;DR: Linking the results of the physico-chemical follow-up of the field and lab experiments to the dsrB-DGGE data will provide a better understanding of the contribution of the SRB populations to the ongoing ISMP processes.

TL;DR: 16S rDNA sequencing is investigated for the usefulness of this method for identifying a range of bacteria in a clinical laboratory under routine conditions and failed to identify bacteria to the taxonomic level.

TL;DR: The current and emerging molecular approaches for characterizing microbial community composition and structure in wastewater processes are reviewed and the ability to automate a detection/identification system is discussed.

TL;DR: The method presented here will improve and facilitate the risk assessment in case of bioaerosol exposure, as strains with different physiological properties (e.g. toxic, non-toxic) could be differentiated.

TL;DR: Analysis of the diversity of the alkB sequences obtained from a grassland and an agricultural soil indicated that the alkane degrading microbial populations occurring at these sites were rather diverse.

TL;DR: The development of a 24-h spectrophotometric assay employing 96-well microtiter plates, that is more sensitive and more amenable to statistical analysis than the assays currently employed, and is capable of detecting inhibitory levels below those recorded for well or disc diffusion assays is undertaken.

TL;DR: A real-time PCR assay using non-patented primers and a TaqMan probe for the detection and quantification of Salmonella spp.

TL;DR: The PCR amplified DNA microarray successfully detected multiple bacterial pathogens in wastewater and a real-time quantitative PCR assay was developed based on the fluorescent TaqMan probes (Applied Biosystems).

TL;DR: Some of the common methods used to detect the pathogen and the LLO toxin in food products and comments on some of the potential uses and drawbacks for the food industry are focused on.

TL;DR: Ethidium bromide monoazide (EMA) was utilized to selectively allow the real-time PCR (RT-PCR) amplification of a targeted DNA sequence in viable but not dead cells of Vibrio vulnificus.

TL;DR: Results show spatial variation in the composition of the BTEX degradation genes and hence in the type of BTex degradation activity and pathway, at the examined site, and indicate that bacteria carrying specific pathways and primarily carrying tmoA/xylM/ xylE1 genotypes, are being selected upon BTEX contamination.

TL;DR: The low-biomass contaminant (LBC) database is established, which contains the 16S rRNA gene sequences of species that have been identified as common laboratory contaminants that provide a reference database to allow investigators to critically evaluate certain species identified within their phylogenetic profile when examining such low-Biomass environments.

TL;DR: Examination by light microscopy showed that grinding with mortar and pestle was the most efficient means of disrupting the rigid fungal cell walls of hyphae and conidia and DNA quality was confirmed by the successful PCR amplification of the conserved region of the fungal 18S small-subunit rRNA multicopy gene.

TL;DR: Optimal sample preparation and MALDI conditions for discrimination at the strain level were determined and strain differences corresponded with their 16S rRNA gene phylogeny but it had greater discrimination.

TL;DR: QPCR was found to show good reproducibility and high sensitivity in detecting a two fold difference in template concentration, and a wide linear dynamic range covering 0.5 pg to 50 ng of DNA.

TL;DR: To achieve faster bacteremia diagnosis, selected ion flow tube mass spectrometry (SIFT-MS) measured metabolic gases in the headspaces of BacT/ALERT blood culture bottles.

TL;DR: Flow cytometry was successfully used to analyze freshwater bacteria and viruses in lake sediments after relatively simple sample treatment and optimization of dilution/fixation/staining procedures, and analysis of the distribution of the viruses in the water column and in the sediments of Lakes Bourget revealed a marked gradient.

TL;DR: The LNA probe with annealing temperature of 65 degrees C could be useful for more sensitive detection limits, and was found to be the most sensitive with the strongest fluorescence signal.

TL;DR: A methodology was developed for the extraction of medium-chain-length poly-3-hydroxyalkanoates (mcl-PHA) from Pseudomonas putida and it was determined that almost all of the PHA could be recovered with no detectable loss of molecular weight.

TL;DR: This multiplex real-time PCR assay allows for a more reliable, rapid detection and identification of V. cholerae which is considerably faster than current conventional detection assays.

TL;DR: The number of positive cases verified by PCR and IgM ELISA among the 45 unconfirmed cases by MAT, demonstrating the value of PCR in the early diagnosis of human leptospirosis, is demonstrated.

TL;DR: This procedure produced unique and distinguishable patterns to differentiate between 15 ATCC reference strains as well as 3 misidentified Bacillus probiotic strains in a commercial collection.

TL;DR: Results showed that LPSM is suitable for detection and enumeration of L. plantarum in faecal samples and showed a sensitivity similar to those of enriched and Lactobacillus-adapted media.

TL;DR: P phylogenetic analysis of the sequence alignments grouped species in clades that matched those based on the ITS regions of the rDNA, in many cases the resolution was improved over ITS but in other cases sequences were too variable to align accurately and yielded phylograms inconsistent with other data.

TL;DR: Results are presented on killing of B. pumilus spores using SC CO(2) containing trace levels of additives, and addition of water resulted in greater than three-log killing, but this is insufficient to claim sterilization.

TL;DR: Two real time PCR assays using TaqMan and SYBR Green to identify the pathogen after selective enrichment in mLST and BHI are developed and are more sensitive and effective based on Two-Tm-Value of PCR.