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Journal articles on the topic 'Fluorescent micro-organisms'

Author: Grafiati

Published: 4 June 2021

Last updated: 3 February 2022

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1

Pereira, Tanya, Thomas J. Millar, and Jo-Anne Chuck. "Viability analysis of alginate encapsulated micro-organisms using fluorescent stains." Journal of Microencapsulation 22, no. 7 (2005): 787–92. http://dx.doi.org/10.1080/02652040500273829.

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2

Eikelboom, D. H., and B. Geurkink. "Filamentous micro-organisms observed in industrial activated sludge plants." Water Science and Technology 46, no. 1-2 (2002): 535–42. http://dx.doi.org/10.2166/wst.2002.0531.

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As part of the EU-sponsored MACOBS (Monitoring and Control of Bulking Sludge through Molecular Probe Assays) project, the size and the composition of the filamentous population in 73 industrial activated sludge plants, were investigated. The inventory included plants in Denmark, Germany, Italy and The Netherlands. Large filamentous populations were present in about 60% of the plants, which means that bulking of activated sludge, which is no longer a serious problem in modern domestic nutrient removal plants, still occurs frequently in industrial treatment plants. The filamentous micro-organism

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Rosenberger, S., R. Witzig, W. Manz, U. Szewzyk, and M. Kraume. "Operation of different membrane bioreactors: experimental results and physiological state of the micro-organisms." Water Science and Technology 41, no. 10-11 (2000): 269–77. http://dx.doi.org/10.2166/wst.2000.0659.

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Lab-scale and pilot-scale activated sludge bioreactors with integrated microfiltration membranes were operated over a period of up to three years. During the entire operation period no excess sludge was removed from the bioreactors apart from sampling, resulting in highly concentrated biomass in the reactors. The dry weight of the sludge ranged from 15 to 23 g MLSS l–1 for a plant fed with municipal wastewater and up to 60 g ll–1 for a lab-scale plant fed with high strength molasses. Stable biomass concentrations were reached at F/M ratios as low as approximately 0.07 kg COD (kg MLSS)–1 d–1. T

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Asapu, Sunitha, Santosh Pant, Peyman Majid, Isabel C. Escobar, and Cyndee L. Gruden. "Study of copper-charged membranes for control of fouling due to bacteria and algae organic matter." Journal of Water Reuse and Desalination 5, no. 4 (2015): 516–27. http://dx.doi.org/10.2166/wrd.2015.001.

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The accumulation of micro-organisms, along with the presence of nutrients, forms biofilms. Biofoulants that are typically encountered in desalination systems include cellular organisms (e.g. bacteria or algae) and organic debris, including algae organic matter. The accumulation of these micro-organisms is problematic to membranes by causing irreversible fouling. The most adverse effects due to biofouling include declines in permeate flux and salt rejection. In addition, biofilm formation necessitates frequent membrane cleaning, increasing operating costs and decreasing membrane life. The goal

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Bouix, Marielle, Agnès Grabowski, Monique Charpentier, Jean-Yves Leveau, and Bruno Duteurtre. "Rapid detection of microbial contamination in grape juice by flow cytometry." OENO One 33, no. 1 (1999): 31. http://dx.doi.org/10.20870/oeno-one.1999.33.1.1038.

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<p style="text-align: justify;">This study presents an application of flow cytometry to evaluate rapidly the viable micro-organisms in grape juice. In this method, viable cells are firstly specitically labelled with a fluorescent reagent. The sample is then injected into the flow cytometer where the labelled micro-organisms are individually illuminated by a laser beam. The emission of fluorescence is measured. The system counts the number of fluorescent events and prints out a histogram of the fluorescence intensity which is characteristic of the micro-organism being analysed. In laborat

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Bernhard, J. M., W. G. Phalen, A. McIntyre-Wressnig, et al. "Technical Note: Towards resolving in situ, centimeter-scale location and timing of biomineralization in calcareous meiobenthos – the calcein–osmotic pump method." Biogeosciences 12, no. 18 (2015): 5515–22. http://dx.doi.org/10.5194/bg-12-5515-2015.

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Abstract. Insights into oceanographic environmental conditions such as paleoproductivity, deep-water temperatures, salinity, ice volumes, and nutrient cycling have all been obtained from geochemical analyses of biomineralized carbonate of marine organisms. However, we cannot fully understand geochemical proxy incorporation and the fidelity of such in species until we better understand fundamental aspects of their ecology such as where and when these (micro)organisms calcify. Here, we present an innovative method using osmotic pumps and the fluorescent marker calcein to help identify where and

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Bernhard, J. M., W. G. Phalen, A. McIntyre-Wressnig, et al. "Technical Note: Towards resolving in situ, centimeter-scale location and timing of biomineralization in calcareous meiobenthos – the Calcein-Osmotic pump method." Biogeosciences Discussions 12, no. 12 (2015): 9443–63. http://dx.doi.org/10.5194/bgd-12-9443-2015.

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Abstract. Insights into oceanographic environmental conditions such as paleoproductivity, sea-surface temperatures, deep-water temperatures, salinity, ice volumes, circulation patterns, and nutrient cycling have all been obtained from geochemical analyses of biomineralized carbonate of marine organisms. However, we cannot fully understand geochemical proxy incorporation and the fidelity of such in species until we better understand fundamental aspects of their ecology such as where and when these (micro)organisms calcify. Here, we present an innovative method using osmotic pumps and the fluore

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Facchetti, Samantha V., Rita La Spina, Francesco Fumagalli, Nicoletta Riccardi, Douglas Gilliland, and Jessica Ponti. "Detection of Metal-Doped Fluorescent PVC Microplastics in Freshwater Mussels." Nanomaterials 10, no. 12 (2020): 2363. http://dx.doi.org/10.3390/nano10122363.

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The large-scale production of plastic and the resulting release of waste is leading to a huge accumulation of micro-sized particles in the environment that could have an impact on not only aquatic organisms but also on humans. Despite the extensive literature on the subject, there is still an insufficient harmonization of methodologies for the collection and analysis of microplastics (MPs) in complex matrices; especially for high density polymers; such as polyvinyl chloride (PVC), which tend to sink and accumulate in sediments, becoming available to benthonic organisms. In this article, mussel

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Umar, Mubarak I., Danyang Ji, Chun-Yin Chan, and Chun Kit Kwok. "G-Quadruplex-Based Fluorescent Turn-On Ligands and Aptamers: From Development to Applications." Molecules 24, no. 13 (2019): 2416. http://dx.doi.org/10.3390/molecules24132416.

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Guanine (G)-quadruplexes (G4s) are unique nucleic acid structures that are formed by stacked G-tetrads in G-rich DNA or RNA sequences. G4s have been reported to play significant roles in various cellular events in both macro- and micro-organisms. The identification and characterization of G4s can help to understand their different biological roles and potential applications in diagnosis and therapy. In addition to biophysical and biochemical methods to interrogate G4 formation, G4 fluorescent turn-on ligands can be used to target and visualize G4 formation both in vitro and in cells. Here, we

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Hügler, Michael, Karin Böckle, Ingrid Eberhagen, Karin Thelen, Claudia Beimfohr, and Beate Hambsch. "Development and validation of a FISH-based method for the detection and quantification of E. coli and coliform bacteria in water samples." Water Science and Technology 64, no. 7 (2011): 1435–42. http://dx.doi.org/10.2166/wst.2011.761.

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Monitoring of microbiological contaminants in water supplies requires fast and sensitive methods for the specific detection of indicator organisms or pathogens. We developed a protocol for the simultaneous detection of E. coli and coliform bacteria based on the Fluorescence in situ Hybridization (FISH) technology. This protocol consists of two approaches. The first allows the direct detection of single E. coli and coliform bacterial cells on the filter membranes. The second approach includes incubation of the filter membranes on a nutrient agar plate and subsequent detection of the grown micro

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Castillo, Luis, Kemi Seriki, Stéphanie Mateos, et al. "In vivo endocrine disruption assessment of wastewater treatment plant effluents with small organisms." Water Science and Technology 68, no. 1 (2013): 261–68. http://dx.doi.org/10.2166/wst.2013.179.

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Surface water receives a variety of micro-pollutants that could alter aquatic organisms' reproduction and development. It is known that a few nanograms per litre of these compounds can induce endocrine-disrupting effects in aquatic species. Many compounds are released daily in wastewater, and identifying the compounds responsible for inducing such disruption is difficult. Methods using biological analysis are therefore an alternative to chemical analysis, as the endocrine disruption potential of the stream as a whole is considered. To detect hormonal disruption of thyroid and oestrogenic funct

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Malic, Sladjana, Katja E. Hill, Anthony Hayes, Steven L. Percival, David W. Thomas, and David W. Williams. "Detection and identification of specific bacteria in wound biofilms using peptide nucleic acid fluorescent in situ hybridization (PNA FISH)." Microbiology 155, no. 8 (2009): 2603–11. http://dx.doi.org/10.1099/mic.0.028712-0.

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Biofilms provide a reservoir of potentially infectious micro-organisms that are resistant to antimicrobial agents, and their importance in the failure of medical devices and chronic inflammatory conditions is increasingly being recognized. Particular research interest exists in the association of biofilms with wound infection and non-healing, i.e. chronic wounds. In this study, fluorescent in situ hybridization (FISH) was used in combination with confocal laser scanning microscopy (CLSM) to detect and characterize the spatial distribution of biofilm-forming bacteria which predominate within hu

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Merrett, N. R., R. L. Haedrich, J. D. M. Gordon, and M. Stehmann. "Deep Demersal Fish Assemblage Structure in the Porcupine Seabight (Eastern North Atlantic): Results of Single Warp Trawling at Lower Slope to Abyssal Soundings." Journal of the Marine Biological Association of the United Kingdom 71, no. 2 (1991): 359–73. http://dx.doi.org/10.1017/s002531540005164x.

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The dynamics of clearance, segregation and elimination of a marine bacterium, Moraxella sp., by the shore crab, Carcinus maenas (L.) has been studied utilizing fluorescent and radiolabelling techniques. In addition to the gills, the hepatopancreas was a major site of bacterial accumulation with sequestration occurring within haemocyte clumps and groups of stationary cells in this organ. The heart, excretory organ and subcuticular tissues also incorporated bacteria, but to a lesser extent. By the first day post-injection, many of the segregated micro-organisms had been removed from the organs.

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Cloete, T. E., P. L. Steyn, and L. Buchan. "An Aut-Ecological Study of Acinetobacter in Activated Sludge." Water Science and Technology 17, no. 11-12 (1985): 139–46. http://dx.doi.org/10.2166/wst.1985.0228.

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Data are reported on the role of Acinetobacter in phosphate removal in activated sludge. The fluorescent antibody (FA) technique was applied in an autecological study of Acinetobacter in this habitat. Results indicated that Acinetobacter was present in numbers exceeding 106 organisms per cm3 throughout all zones of the activated sludge process, with higher numbers occurring in the aeration zone. It was also found that Acinetobacter numbers did not vary regardless of whether phosphate was removed or not. Combined electron microscopy and electron dispersive micro-analysis of X-rays (EDAX) furthe

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15

Orsi, William, Virginia Edgcomb, Jose Faria, et al. "Class Cariacotrichea, a novel ciliate taxon from the anoxic Cariaco Basin, Venezuela." International Journal of Systematic and Evolutionary Microbiology 62, Pt_6 (2012): 1425–33. http://dx.doi.org/10.1099/ijs.0.034710-0.

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The majority of environmental micro-organisms identified with the rRNA approach have never been visualized. Thus, their reliable classification and taxonomic assignment is often difficult or even impossible. In our preliminary 18S rRNA gene sequencing work from the world’s largest anoxic marine environment, the Cariaco Basin (Caribbean Sea, Venezuela), we detected a ciliate clade, designated previously as CAR_H [Stoeck, S., Taylor, G. T. & Epstein, S. S. (2003). Appl Environ Microbiol 63, 5656–5663]. Here, we combine the traditional rRNA detection method of fluorescent in situ hybridizatio

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Coxon, K. M., E. Chakauya, H. H. Ottenhof, et al. "Pantothenate biosynthesis in higher plants." Biochemical Society Transactions 33, no. 4 (2005): 743–46. http://dx.doi.org/10.1042/bst0330743.

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Pantothenate (vitamin B5) is a water-soluble vitamin essential for the synthesis of CoA and ACP (acyl-carrier protein, cofactors in energy yielding reactions including carbohydrate metabolism and fatty acid synthesis. Pantothenate is synthesized de novo by plants and micro-organisms; however, animals obtain the vitamin through their diet. Utilizing our knowledge of the pathway in Escherichia coli, we have discovered and cloned genes encoding the first and last enzymes of the pathway from Arabidopsis, panB1, panB2 and panC. It is unlikely that there is a homologue of the E. coli panD gene, ther

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17

Sachdeva, Poonam, Achchhe Lal Patel, Divya Sachdev, Mashook Ali, Aruna Mittal, and Daman Saluja. "Comparison of an in-house PCR assay, direct fluorescence assay and the Roche AMPLICOR Chlamydia trachomatis kit for detection of C. trachomatis." Journal of Medical Microbiology 58, no. 7 (2009): 867–73. http://dx.doi.org/10.1099/jmm.0.008698-0.

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To improve the control of Chlamydia trachomatis infection in India, a rapid, specific and cost-effective method is much needed. We developed an in-house PCR assay by targeting a unique genomic sequence encoding a protein from the C. trachomatis phospholipase D endonuclease superfamily that produces an amplified fragment of 368 bp. The specificity of the primers was confirmed using genomic DNA from other sexually transmitted disease-causing and related micro-organisms and from humans. The assay was highly sensitive and could detect as low as 10 fg C. trachomatis DNA. Clinical evaluation of the

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18

Cheng, Delfine, Gerald J. Shami, Marco Morsch, Roger S. Chung, and Filip Braet. "Ultrastructural Mapping of the Zebrafish Gastrointestinal System as a Basis for Experimental Drug Studies." BioMed Research International 2016 (2016): 1–13. http://dx.doi.org/10.1155/2016/8758460.

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Research in the field of gastroenterology is increasingly focused on the use of alternative nonrodent model organisms to provide new experimental tools to study chronic diseases. The zebrafish is a particularly valuable experimental platform to explore organ and cell structure-function relationships under relevant biological and pathobiological settings. This is due to its optical transparency and its close-to-human genetic makeup. To-date, the structure-function properties of the GIS of the zebrafish are relatively unexplored and limited to histology and fluorescent microscopy. Occasionally t

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ZAROMB, SOLOMON, DENNIS MARTELL, NATHAN SCHATTKE, and GARY HANKINS. "PRECONCENTRATION OF MICROORGANISMS INTO A TINY VOLUME OF LIQUID FOR ENHANCED SPECTRAL DETECTION." International Journal of High Speed Electronics and Systems 17, no. 04 (2007): 739–46. http://dx.doi.org/10.1142/s0129156407004941.

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Concentration of 1-micron-size micro-organisms from about 100 ml of liquid, whether drawn from a bio-aerosol collector or from an environmental water source, into a volume of 1 to 2 ml. is achieved by a liquid flow system including a reversible filter through which filtered liquid can be recirculated or disposed of and from which a concentrated sample is recovered by opening a solenoid valve leading to a detector or to a collection container and reversing the pump for a short time. The reversing action flushes the collected particles off the filter and into the detector or container. The effec

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Keir, J., L. Pedelty, and A. C. Swift. "Biofilms in chronic rhinosinusitis: systematic review and suggestions for future research." Journal of Laryngology & Otology 125, no. 4 (2011): 331–37. http://dx.doi.org/10.1017/s0022215111000016.

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AbstractBackground:A biofilm is a community of micro-organisms encased within a self-produced, extracellular, polymeric substance. The role of biofilms as a major pathological aetiology in chronic rhinosinusitis would help explain the clinical manifestation of the disease.Objectives:To examine the current evidence, and to discuss possible future research directions, in relation to biofilms and chronic rhinosinusitis.Study design:Systematic literature review.Evaluation method:Two assessors independently undertook critical appraisal of the studies identified by the literature search. Significant

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Junge, Karen, Christopher Krembs, Jody Deming, Aaron Stierle, and Hajo Eicken. "A microscopic approach to investigate bacteria under in situ conditions in sea-ice samples." Annals of Glaciology 33 (2001): 304–10. http://dx.doi.org/10.3189/172756401781818275.

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AbstractMicrobial populations and activity within sea ice have been well described based on bulk measurements from melted sea-ice samples. However, melting destroys the micro-environments within the ice matrix and does not allow for examination of microbial populations at a spatial scale relevant to the organism. Here, we describe the development of a new method allowing for microscopic observations of bacteria localized within the three-dimensional network of brine inclusions in sea ice under in situ conditions. Conventional bacterial staining procedures, using the DNA-specific fluorescent st

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Patel, Ripal, Pouya Alijanipour, and Javad Parvizi. "Advancements in Diagnosing Periprosthetic Joint Infections after Total Hip and Knee Arthroplasty." Open Orthopaedics Journal 10, no. 1 (2016): 654–61. http://dx.doi.org/10.2174/1874325001610010654.

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Periprosthetic joint infection (PJI) is a complication of total joint arthroplasty that is challenging to diagnose. Currently, there is no “gold standard” for definite diagnosis of PJI. A multi-criteria definition has been described for PJI based on microbiology cultures, serum markers, such as erythrocyte sedimentation rate and C-reactive protein (CRP), synovial fluid biomarkers, such as leukocyte esterase and histopathology assessment of the periprosthetic tissue. The conventional serum markers are generally nonspecific and can be elevated in inflammatory conditions. Therefore, they cannot b

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Bruhn, Oliver, Petra Regenhard, Matthias Michalek та ін. "A novel horse α-defensin: gene transcription, recombinant expression and characterization of the structure and function". Biochemical Journal 407, № 2 (2007): 267–76. http://dx.doi.org/10.1042/bj20070747.

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Defensins are a predominant class of antimicrobial peptides, which act as endogenous antibiotics. Defensins are classified into three distinct sub-families: θ-, β-, and α-defensins. Synthesis of α-defensin has been confirmed only in primates and glires to date and is presumably unique for a few tissues, including neutrophils and Paneth cells of the small intestine. Antimicrobial activities of these peptides were shown against a wide variety of microbes including bacteria, fungi, viruses and protozoan parasites. In the present study, we report the characterization of the equine α-defensin DEFA

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Fay, F. S., R. Brundage, K. Perry, and S. H. Gilbert. "The dynamics of local chemical changes underlying white-cell chemotaxis measured with digital imaging microscopy." Proceedings, annual meeting, Electron Microscopy Society of America 50, no. 1 (1992): 422–23. http://dx.doi.org/10.1017/s0424820100122514.

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The ability of cells to polarize and move towards or away from a chemical stimulus is a fundamental property of virtually all cell types at some stage in their development. This process is important for biological processes ranging from morphogenesis, to wound healing, to the attack by leukocytes of invading organisms in our body. Despite the importance of this phenomenon, surprisingly little is known regarding the mechanism whereby an external chemical gradient is converted into an intracellular gradient of 2° messengers, how the local chemistry of the cell is compared and how the result of t

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Hannig, Christian, Marie Follo, Elmar Hellwig, and Ali Al-Ahmad. "Visualization of adherent micro-organisms using different techniques." Journal of Medical Microbiology 59, no. 1 (2010): 1–7. http://dx.doi.org/10.1099/jmm.0.015420-0.

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The visualization and quantification of adherent bacteria is still one of the most relevant topics in microbiology. Besides electron microscopic techniques such as transmission electron microscopy, scanning electron microscopy and environmental scanning electron microscopy, modern fluorescence microscopic approaches based on fluorogenic dyes offer detailed insight into bacterial biofilms. The aim of the present review was to provide an overview of the advantages and disadvantages of different methods for visualization of adherent bacteria with a special focus on the experiences gained in denta

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Chen, Xiao, Yihong Wu, and Li Zeng. "Migration of Gyrotactic Micro-Organisms in Water." Water 10, no. 10 (2018): 1455. http://dx.doi.org/10.3390/w10101455.

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Understanding the swimming characteristics of micro-organisms is significant for modelling the migration of motile cells and corresponding ecological risk assessments associated with harmful algae in oceans and estuaries. Presented in this paper is an experimental and numerical investigation of swimming characteristics of a typical gyrotactic micro-organism, Heterosigma akashiwo (H. akashiwo) in water, based on the technology of planar laser-induced fluorescence and the finite volume method. Two-dimensional swimming velocity of algal cells are obtained by analyzing cells’ trajectories in the v

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Eduard, W. "Recognition errors in the quantification of micro-organisms by fluorescence microscopy." Annals of Occupational Hygiene 45, no. 6 (2001): 493–98. http://dx.doi.org/10.1016/s0003-4878(01)00006-0.

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Gatti, M., V. Bernini, C. Lazzi, and E. Neviani. "Fluorescence microscopy for studying the viability of micro-organisms in natural whey starters." Letters in Applied Microbiology 42, no. 4 (2006): 338–43. http://dx.doi.org/10.1111/j.1472-765x.2006.01859.x.

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GOSTISHCHEV, V. K., V. A. KHOMENKO, A. G. KUZMINA, G. P. KUZMIN, G. B. IVAKHOV, and O. G. GAPONENKO. "LASER FLUORESCENCE ANALYSIS METHOD USE FOR EXPRESS-DIAGNOSIS OF ANTIBIOTIC RESISTANCE AMONG ABDOMINAL SEPSIS PATIENTS POST-OPERATION." Journal of Innovative Optical Health Sciences 05, no. 03 (2012): 1250012. http://dx.doi.org/10.1142/s1793545812500125.

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The adequate method of antibiotic choice is reported using the laser fluorescence analysis of blood plasma with the laboratory diagnostic device "Spectrolux-MB". The method is based on the ability of micro-organisms and products of their vital functions (metabolism) to fluoresce under laser radiation. The method of fluorescence analysis has great prospects in urgent surgery and other medicine brunches due to its high information content, low cost (compared to other methods of express-diagnostics) and high speed of information acquisition.

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Geier, Benedikt, Janina Oetjen, Bernhard Ruthensteiner, Maxim Polikarpov, Harald R. Gruber-Vodicka, and Manuel Liebeke. "Connecting structure and function from organisms to molecules in small-animal symbioses through chemo-histo-tomography." Proceedings of the National Academy of Sciences 118, no. 27 (2021): e2023773118. http://dx.doi.org/10.1073/pnas.2023773118.

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Our understanding of metabolic interactions between small symbiotic animals and bacteria or parasitic eukaryotes that reside within their bodies is extremely limited. This gap in knowledge originates from a methodological challenge, namely to connect histological changes in host tissues induced by beneficial and parasitic (micro)organisms to the underlying metabolites. We addressed this challenge and developed chemo-histo-tomography (CHEMHIST), a culture-independent approach to connect anatomic structure and metabolic function in millimeter-sized symbiotic animals. CHEMHIST combines chemical i

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De Samber, B., K. De Schamphelaere, B. Masschaele, et al. "F-59 X-ray Imaging on Biological Model Organisms Using Micro and Nano X-ray Fluorescence." Powder Diffraction 24, no. 2 (2009): 167. http://dx.doi.org/10.1154/1.3175947.

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Price, P. Buford. "Life in Solid Ice on Earth and Other Planetary Bodies." Symposium - International Astronomical Union 213 (2004): 363–66. http://dx.doi.org/10.1017/s0074180900193556.

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Theory and direct observation indicate that micro-organisms exist in liquid veins in ice and permafrost, provided the temperature is above the eutectic for H2O and soluble impurities present. Microbes can exist and metabolize in glacial ice and permafrost on Earth, Mars, and Europa. One can search directly (with fluorescence microscopy at liquid veins in Vostok ice core samples) or with a biologging instrument (for microbial fluorescence in a borehole in terrestrial or martian permafrost or ice). The viability lifetime against DNA destruction of bacterial spores can be measured with analytical

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Capdevila, Silvia, Francisco M. Martínez-Granero, María Sánchez-Contreras, Rafael Rivilla, and Marta Martín. "Analysis of Pseudomonas fluorescens F113 genes implicated in flagellar filament synthesis and their role in competitive root colonization." Microbiology 150, no. 11 (2004): 3889–97. http://dx.doi.org/10.1099/mic.0.27362-0.

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The ability of plant-associated micro-organisms to colonize and compete in the rhizosphere is specially relevant for the biotechnological application of micro-organisms as inoculants. Pseudomonads are one of the best root colonizers and they are widely used in plant-pathogen biocontrol and in soil bioremediation. This study analyses the motility mechanism of the well-known biocontrol strain Pseudomonas fluorescens F113. A 6·5 kb region involved in the flagellar filament synthesis, containing the fliC, flaG, fliD, fliS, fliT and fleQ genes and part of the fleS gene, was sequenced and mutants in

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Sunde, Pia T., Ingar Olsen, Ulf B. Göbel, et al. "Fluorescence in situ hybridization (FISH) for direct visualization of bacteria in periapical lesions of asymptomatic root-filled teeth." Microbiology 149, no. 5 (2003): 1095–102. http://dx.doi.org/10.1099/mic.0.26077-0.

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Whether micro-organisms can live in periapical endodontic lesions of asymptomatic teeth is under debate. The aim of the present study was to visualize and identify micro-organisms within periapical lesions directly, using fluorescence in situ hybridization (FISH) in combination with epifluorescence and confocal laser scanning microscopy (CLSM). Thirty-nine periapical lesions were surgically removed, fixed, embedded in cold polymerizing resin and sectioned. The probe EUB 338, specific for the domain Bacteria, was used together with a number of species-specific16S rRNA-directed oligonucleotide p

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WIERZCHOS, J., A. DE LOS RIOS, L. G. SANCHO, and C. ASCASO. "Viability of endolithic micro-organisms in rocks from the McMurdo Dry Valleys of Antarctica established by confocal and fluorescence microscopy." Journal of Microscopy 216, no. 1 (2004): 57–61. http://dx.doi.org/10.1111/j.0022-2720.2004.01386.x.

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Rajeswari, P., and R. Kapoor. "Combinatorial efficacy of Trichoderma spp. and Pseudomonas fluorescens to enhance suppression of cell wall degrading enzymes produced by Fusarium wilt of Arachis hypogaea.L." International Journal of Agricultural Research, Innovation and Technology 7, no. 2 (2018): 36–42. http://dx.doi.org/10.3329/ijarit.v7i2.35320.

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Fusarium oxysporum, the soil borne pathogen causes vascular wilt, on majority of crop plants. It has been demonstrated that two different species of Trichoderma and Pseudomonas fluorescens suppress disease by different mechanisms. Therefore, application of a mixture of these biocontrol agents, and thus of several suppressive mechanisms, may represent a viable control strategy. A necessity for biocontrol by combinations of biocontrol agents can be the compatibility of the co-inoculated micro-organisms. Hence, compatibility between Trichoderma spp. and Pseudomonas fluorescens that have the abili

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Stockwell, Virginia O., and Joyce E. Loper. "The sigma factor RpoS is required for stress tolerance and environmental fitness of Pseudomonas fluorescens Pf-5." Microbiology 151, no. 9 (2005): 3001–9. http://dx.doi.org/10.1099/mic.0.28077-0.

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Many micro-organisms exist in natural habitats that are subject to severe or dramatically fluctuating environmental conditions. Such is the case for bacteria inhabiting plant surfaces, where they are exposed to UV irradiation, oxygen radicals, and large fluctuations in temperature and moisture. This study focuses on the role of RpoS, a central regulator of stationary-phase gene expression in bacterial cells, in stress response and environmental fitness of Pseudomonas fluorescens Pf-5. Strain Pf-5 is a rhizosphere-inhabiting bacterium that suppresses plant diseases caused by several plant-patho

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Champdoré, Marcella de, Maria Staiano, Mosè Rossi, and Sabato D'Auria. "Proteins from extremophiles as stable tools for advanced biotechnological applications of high social interest." Journal of The Royal Society Interface 4, no. 13 (2006): 183–91. http://dx.doi.org/10.1098/rsif.2006.0174.

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Extremophiles are micro-organisms adapted to survive in ecological niches defined as ‘extreme’ for humans and characterized by the presence of adverse environmental conditions, such as high or low temperatures, extreme values of pH, high salt concentrations or high pressure. Biomolecules isolated from extremophiles possess extraordinary properties and, in particular, proteins isolated from extremophiles represent unique biomolecules that function under severe conditions, comparable to those prevailing in various industrial processes. In this article, we will review some examples of recent appl

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Chauret, C., L. Stover, C. Volk, T. S. Dykstra, G. A. Gagnon, and R. C. Andrews. "Effect of disinfectants on microbial ecology in model distribution systems." Journal of Water and Health 3, no. 4 (2005): 359–69. http://dx.doi.org/10.2166/wh.2005.050.

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This research was conducted to assess the impact of various disinfectants on bacterial water quality within model distribution systems (i.e. annular reactors). After colonization with non-disinfected water, annular reactors were treated with relatively low doses of chlorine (0.4 mg/l), chlorine dioxide (0.15 mg/l), or chloramines (0.9 mg/l). Under the tested conditions, bacterial inactivation varied as a function of disinfectant type (ranking by efficiency per mg of oxidant: ClO2 &gt; Cl2 &gt; ClNH2) and sample type (bulk water vs. biofilm). Depending on the disinfectant, the log inact

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Oehmen, Adrian, Raymond J. Zeng, Aaron M. Saunders, Linda L. Blackall, Jürg Keller, and Zhiguo Yuan. "Anaerobic and aerobic metabolism of glycogen-accumulating organisms selected with propionate as the sole carbon source." Microbiology 152, no. 9 (2006): 2767–78. http://dx.doi.org/10.1099/mic.0.28065-0.

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In the microbial competition observed in enhanced biological phosphorus removal (EBPR) systems, an undesirable group of micro-organisms known as glycogen-accumulating organisms (GAOs) compete for carbon in the anaerobic period with the desired polyphosphate-accumulating organisms (PAOs). Some studies have suggested that a propionate carbon source provides PAOs with a competitive advantage over GAOs in EBPR systems; however, the metabolism of GAOs with this carbon source has not been previously investigated. In this study, GAOs were enriched in a laboratory-scale bioreactor with propionate as t

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Joaquin, Jonathan C., Calvin Kwan, Nina Abramzon, Kurt Vandervoort, and Graciela Brelles-Mariño. "Is gas-discharge plasma a new solution to the old problem of biofilm inactivation?" Microbiology 155, no. 3 (2009): 724–32. http://dx.doi.org/10.1099/mic.0.021501-0.

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Conventional disinfection and sterilization methods are often ineffective with biofilms, which are ubiquitous, hard-to-destroy microbial communities embedded in a matrix mostly composed of exopolysaccharides. The use of gas-discharge plasmas represents an alternative method, since plasmas contain a mixture of charged particles, chemically reactive species and UV radiation, whose decontamination potential for free-living, planktonic micro-organisms is well established. In this study, biofilms were produced using Chromobacterium violaceum, a Gram-negative bacterium present in soil and water and

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Nesbitt, Jake A., Jared M. Robertson, Lawrence A. Swerhone, and Matthew B. J. Lindsay. "Nickel geochemistry of oil sands fluid petroleum coke deposits, Alberta, Canada." FACETS 3, no. 1 (2018): 469–86. http://dx.doi.org/10.1139/facets-2017-0115.

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Nickel (Ni) leaching from oil sands petroleum coke can have toxicological effects on aquatic organisms. However, geochemical controls on Ni release, transport, and attenuation within coke deposits remains limited. We examined the geochemistry of fluid coke and associated pore waters from two deposits at an oil sands mine near Fort McMurray, Alberta, Canada. Synchrotron-based micro-X-ray fluorescence (μXRF) and micro-X-ray absorption near edge structure (μXANES) spectroscopy show that Ni(II)-porphyrin complexes dominate, but inorganic phases including Ni(II)-sulfide and Ni(II)-oxide comprise a

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SACRISTÁN-PÉREZ-MINAYO, G., J. I. REGUERA-USEROS, D. J. LÓPEZ-ROBLES, A. GARCÍA-VILLARACO, and F. J. GUTIÉRREZ-MAÑERO. "Evaluation of biocontrol agro-techniques against R. solani: study of microbial communities catabolic profile modifications." Journal of Agricultural Science 149, no. 5 (2011): 595–607. http://dx.doi.org/10.1017/s0021859611000025.

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SUMMARYDamping off is the most common disease caused by edaphic fungi in Spanish crops, among which Rhizoctonia solani AG-4 stands out. In the present work, two possible methods of control were evaluated, incorporation of different doses of organic matter (OM; obtained from strawberry crops) and Pseudomonas fluorescens as a plant growth promoting rhizobacteria (PGPR). The highest inhibition (43% less) against the pathogen was found in the assays that used 20 g of biofumigant/kg soil. Inoculation of the P. fluorescens strain (PGPR) did not protect against the pathogen. In addition, the microbia

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Clauß, M., A. C. Springorum, and J. Hartung. "Comparison of Different Fluorescence and Non-Fluorescence Staining Techniques for Rapid Detection of Airborne Micro-Organisms Collected on Room Temperature Vulcanizing (RTV) Silicones from Generated Aerosols and from Ambient Air." Aerosol Science and Technology 46, no. 7 (2012): 818–27. http://dx.doi.org/10.1080/02786826.2012.667171.

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Hatamoto, Masashi, Yayoi Saito, Kazuya Dehama, et al. "Microbial community structure of a simultaneous nitrogen and phosphorus removal reactor following treatment in a UASB-DHS system." Water Science and Technology 71, no. 3 (2015): 454–61. http://dx.doi.org/10.2166/wst.2015.016.

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The anaerobic–anoxic sequence batch reactor (A2SBR) was applied to achieve nitrogen and phosphorus removal in an energy-saving sewage treatment system involving an up-flow anaerobic sludge blanket combined with a down-flow hanging sponge reactor to treat municipal sewage. After sludge acclimation, the A2SBR showed satisfactory denitrification and phosphorus removal performance with total phosphate and nitrate concentrations of the effluent of 8.4 ± 3.4 mg-N L–1 and 0.9 ± 0.6 mg-P L–1, respectively. 16S rRNA gene sequence and fluorescence in situ hybridization analyses revealed that ‘Candidatus

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Fenu, A., B. M. R. Donckels, T. Beffa, C. Bemfohr, and M. Weemaes. "Evaluating the application of Microbacterium sp. strain BR1 for the removal of sulfamethoxazole in full-scale membrane bioreactors." Water Science and Technology 72, no. 10 (2015): 1754–61. http://dx.doi.org/10.2166/wst.2015.397.

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Microbacterium sp. strain BR1 is a bacterial strain that recently received attention for its capability to mineralize sulfamethoxazole (SMX) and other sulfonamides. In this study, the survival of Microbacterium sp. in municipal sludge waters was tested in batch experiments to explore optimal process conditions. Inoculation of Microbacterium sp. was subsequently performed in a pilot membrane bioreactor (MBR) operated in two configurations: treating full-scale MBR permeate (post-treatment) and treating raw municipal wastewater. SMX removal by Microbacterium sp. could not be proved in any of the

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GUAGLIARDI, Annamaria, Laura CERCHIA, and Mosè ROSSI. "An intracellular protease of the crenarchaeon Sulfolobus solfataricus, which has sequence similarity to eukaryotic peptidases of the CD clan." Biochemical Journal 368, no. 1 (2002): 357–63. http://dx.doi.org/10.1042/bj20021017.

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We purified from crude extracts of the hyperthermophilic crenarchaeon Sulfolobus solfataricus a protease that is able to hydrolyse proteins with a pH optimum of 7.5 and a temperature optimum of 70°C. Assays in the presence of classical protease inhibitors showed that the hydrolytic activity is sensitive to thiol-blocking reagents. Fluorescence assays using synthetic peptides demonstrated that the protease has a preference for cleaving glutamic acid residues. The first 12 residues of the protease match the N-terminus residues of a hypothetical protein in the S. solfataricus genome of 95 amino a

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Stiles, M. E., and A. Z. Sheena. "Efficacy of low-concentration iodophors for germicidal hand washing." Journal of Hygiene 94, no. 3 (1985): 269–77. http://dx.doi.org/10.1017/s0022172400061490.

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SUMMARYThe efficacy of iodophor germicides containing different concentrations of available iodine against transient (inoculated) bacteria and the natural hand microflora was compared with chlorhexidine gluconate (2 and 4%) liquid detergent (Hibitane), non-germicidal soap and a tap water rinse. The tap water rinse was ineffective compared with all other treatments. Only 4% chlorhexidine gluconate liquid detergent and iodophor containing 0·75% available iodine were significantly better than the non-germicidal soap for reduction of transient bacteria,Escherichia coliandPseudomonas fluorescens, t

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Chon, K., K. Chon, J. S. Chang, H. Oh, E. Lee, and J. Cho. "Technical Note: Community of bacteria attached on the PVDF MF membrane surface fouled from drinking water treatment, in Seoul, Korea." Drinking Water Engineering and Science 2, no. 2 (2009): 35–39. http://dx.doi.org/10.5194/dwes-2-35-2009.

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Abstract. Alpha, beta, and gamma proteobacteria comprise approximately 68, 16, and 7% of all identified bacteria. In this study, bacterial communities that had fouled polyvinylidene fluoride microfiltration membranes, which are used for drinking water treatment, over an 18 month period were analyzed using the 16s rRNA gene clone library method. The alpha, beta, and gamma proteobacteria were composed of mainly Bradyrhizobium and Rhodopseudomonas, Ralstonia, and Legionella, respectively. The presence of a relatively high amount of alpha proteobacteria was due to the oligotrophic condition of the

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Suzuki, K., A. Hattori-Saito, Y. Sekiguchi, et al. "Spatial variability in iron nutritional status of large diatoms in the Sea of Okhotsk with special reference to the Amur River discharge." Biogeosciences 11, no. 9 (2014): 2503–17. http://dx.doi.org/10.5194/bg-11-2503-2014.

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Abstract. The Sea of Okhotsk is known as one of the most biologically productive regions among the world's oceans, and its productivity is supported in part by the discharge of iron (Fe)-rich water from the Amur River. However, little is known about the effect of riverine-derived Fe input on the physiology of the large diatoms which often flourish in surface waters of the productive continental shelf region. We conducted diatom-specific immunochemical ferredoxin (Fd) and flavodoxin (Fld) assays in order to investigate the spatial variability of Fe nutritional status in the microplankton-sized

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