Molecular Analysis of Microbial Communities in Endotracheal Tube Biofilms

Ventilator-associated pneumonia is the most prevalent acquired infection of patients on intensive care units and is associated with considerable morbidity and mortality. Evidence suggests that an improved understanding of the composition of the biofilm communities that form on endotracheal tubes may result in the development of improved preventative strategies for ventilator-associated pneumonia. (n = 5). DGGE profiling of the endotracheal biofilms revealed complex banding patterns containing between 3 and 22 (mean 6) bands per tube, thus demonstrating the marked complexity of the constituent biofilms. Significant inter-patient diversity was evident. The number of DGGE bands detected was not related to total viable microbial counts or the duration of intubation.Molecular profiling using DGGE demonstrated considerable biofilm compositional complexity and inter-patient diversity and provides a rapid method for the further study of biofilm composition in longitudinal and interventional studies. The presence of oral microorganisms in endotracheal tube biofilms suggests that these may be important in biofilm development and may provide a therapeutic target for the prevention of ventilator-associated pneumonia

Identification of bacteria in a biodegraded wall painting by denaturing gradient gel electrophoresis of PCR-amplified gene fragments coding for 16S rRNA.

Medieval wall paintings are often affected by biodecay. An inventory of the existing microorganisms associated with the damage to the paintings is not yet an integral part of the restoration process. This stems from the lack of effective means for such a stocktaking. Nevertheless, fungi and bacteria cause severe damage through mechanical processes from growth into the painting and its grounding and through their metabolism. Detailed information on the bacterial colonization of ancient wall paintings is essential for the protection of the paintings. We used a molecular approach based on the detection and identification of DNA sequences encoding rRNA (rDNA) to identify bacteria present on an ancient wall painting without prior cultivation of the organisms, since it has been shown that most of these bacteria cannot be cultivated under laboratory conditions. To trace the noncultivated fraction of bacteria, total DNA from a biodegraded wall painting sample from a 13th century fresco was extracted and 194-bp fragments of the 16S rDNA were amplified with eubacterial primers. The 16S rDNA fragments of uniform length obtained from the different bacterial species were separated according to their sequence differences by denaturing gradient gel electrophoresis (DGGE). By sequencing excised and reamplified individual DNA bands, we characterized the phylogenetic affiliation of the corresponding bacteria. Using this approach, we identified members or close relatives of the genera Halomonas, Clostridium, and Frankia. To our knowledge, these groups of bacteria have not yet been isolated and implicated by conventional microbiological techniques as contributing to the biodegradation of wall paintings

Vergleich der Immunantwort nach konventioneller und laparoskopischer Sigmaresektion

This paper introduces the concept of a Parameterised Search System (PSS), which allows flexibility in user queries, and, more importantly, allows system engineers to easily define customised search strategies. Putting this idea into practise requires a carefully designed system architecture that supports a declarative abstraction language for the specification of search strategies. These specifications should stay as close as possible to the problem definition (i.e., the retrieval model to be used in the search application), abstracting away the details of the physical organisation of data and content. We show how extending an existing retrieval system with an abstraction mechanism based on array databases meets this requirement

The use of summaries in XML retrieval

Abstract. The availability of the logical structure of documents in contentoriented XML retrieval can be beneficial for users of XML retrieval systems. However, research into structured document retrieval has so far not systematically examined how structure can be used to facilitate the search process of users. We investigate how users of an XML retrieval system can be supported in their search process, if at all, through summarisation. To answer this question, an interactive information retrieval system was developed and a study using human searchers was conducted. The results show that searchers actively utilise the provided summaries, and that summary usage varied at different levels of the XML document structure. The results have implications for the design of interactive XML retrieval systems.