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environmental microbiology

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https://www.readbyqxmd.com/read/28790204/bacterial-chromatin-structural-proteins-regulate-the-bimodal-expression-of-the-locus-of-enterocyte-effacement-lee-pathogenicity-island-in-enteropathogenic-escherichia-coli
#1
Hervé Leh, Ahmad Khodr, Marie-Christine Bouger, Bianca Sclavi, Sylvie Rimsky, Stéphanie Bury-Moné
In enteropathogenic Escherichia coli (EPEC), the locus of enterocyte effacement (LEE) encodes a type 3 secretion system (T3SS) essential for pathogenesis. This pathogenicity island comprises five major operons (LEE1 to LEE5), with the LEE5 operon encoding T3SS effectors involved in the intimate adherence of bacteria to enterocytes. The first operon, LEE1, encodes Ler (LEE-encoded regulator), an H-NS (nucleoid structuring protein) paralog that alleviates the LEE H-NS silencing. We observed that the LEE5 and LEE1 promoters present a bimodal expression pattern, depending on environmental stimuli...
August 8, 2017: MBio
https://www.readbyqxmd.com/read/28782999/environmental-factors-affecting-escherichia-coli-concentrations-in-striped-venus-clam-chamelea-gallina-l-harvested-in-the-north-adriatic-sea
#2
Giulia Tabanelli, Chiara Montanari, Aldo Gardini, Mirko Maffei, Chiara Prioli, Fausto Gardini
The aim of this work was to evaluate the microbiological quality of striped venus clams (Chamelea gallina L.) harvested in the north Adriatic Sea during an 8-year monitoring period. A total of 387 samples were analyzed to assess the presence of Escherichia coli. Environmental parameters (salinity, pH, dissolved oxygen, seawater temperature, and freshwater outflow) were collected to find out a possible relationship between the E. coli counts and environmental factors. The results evidenced that the microbiological quality of the clams was good, with only about 5% of the samples not complying with European and Italian regulations for this product, that is, with E...
August 7, 2017: Journal of Food Protection
https://www.readbyqxmd.com/read/28782649/comparison-of-methods-available-for-the-identification-of-mycobacterium-chimaera
#3
Emmanuel Lecorche, Sophie Haenn, Faiza Mougari, Sylvain Kumanski, Nicolas Veziris, Hanaa Benmansour, Laurent Raskine, Laurent Moulin, Emmanuelle Cambau
OBJECTIVES: Mycobacterium chimaera is a recently described nontuberculous mycobacterium belonging to the M. avium complex (MAC). Because this species is implicated in a worldwide outbreak due to contaminated heater-cooler unit water tanks during open-heart surgery, it becomes mandatory for clinical microbiology laboratories to be able to differentiate M. chimaera from the other MAC species, especially M. intracellulare. Such identification was so far restricted to specialized laboratories, since it required the analysis of several gene sequences...
August 4, 2017: Clinical Microbiology and Infection
https://www.readbyqxmd.com/read/28780309/clinical-and-microbiological-characteristics-of-pantoea-agglomerans-infection-in-children
#4
Ayşe Büyükcam, Özlem Tuncer, Deniz Gür, Banu Sancak, Mehmet Ceyhan, Ali Bülent Cengiz, Ateş Kara
Pantoea agglomerans is an environmental Gram-negative bacterium that rarely is responsible for the infections in humans but it is often a causative factor of a number of occupational diseases. This study evaluated the clinical and microbiological characteristics and pathogenicity of P. agglomerans in children. We retrospectively reviewed microbiological test results for all children (1 month old to 18 years old) who were admitted to our pediatric hospital between January 2000 to June 2015 and had positive clinical specimen cultures for P...
August 2, 2017: Journal of Infection and Public Health
https://www.readbyqxmd.com/read/28776041/hiding-in-plain-sight-mining-bacterial-species-records-for-phenotypic-trait-information
#5
Albert Barberán, Hildamarie Caceres Velazquez, Stuart Jones, Noah Fierer
Cultivation in the laboratory is essential for understanding the phenotypic characteristics and environmental preferences of bacteria. However, basic phenotypic information is not readily accessible. Here, we compiled phenotypic and environmental tolerance information for >5,000 bacterial strains described in the International Journal of Systematic and Evolutionary Microbiology (IJSEM) with all information made publicly available in an updatable database. Although the data span 23 different bacterial phyla, most entries described aerobic, mesophilic, neutrophilic strains from Proteobacteria (mainly Alpha- and Gammaproteobacteria), Actinobacteria, Firmicutes, and Bacteroidetes isolated from soils, marine habitats, and plants...
July 2017: MSphere
https://www.readbyqxmd.com/read/28772060/methanotroph-derived-bacteriohopanepolyol-bhp-signatures-as-a-function-of-temperature-related-growth-survival-cell-death-and-preservation-in-the-geological-record
#6
Kate A Osborne, Neil D Gray, Angela Sherry, Peter Leary, Obioma Mejeha, Juliane Bischoff, Darci Rush, Frances R Sidgwick, Daniel Birgel, Marina G Kalyuzhnaya, Helen M Talbot
Interpretation of bacteriohopanepolyol (BHP) biomarkers tracing microbiological processes in modern and ancient sediments relies on understanding environmental controls of production and preservation. BHPs from methanotrophs (35-aminoBHPs) were studied in methane-amended aerobic river-sediment incubations at different temperatures. It was found that: 1. With increasing temperature (4-40°C) a tenfold increase in aminopentol (associated with Crenothrix and Methylobacter spp. growth) occurred with only marginal increases in aminotriol and aminotetrol; 2...
August 3, 2017: Environmental Microbiology Reports
https://www.readbyqxmd.com/read/28771145/waterborne-disease-outbreak-detection-an-integrated-approach-using-health-administrative-databases
#7
S Coly, N Vincent, E Vaissiere, M Charras-Garrido, A Gallay, C Ducrot, D Mouly
Hundreds of waterborne disease outbreaks (WBDO) of acute gastroenteritis (AGI) due to contaminated tap water are reported in developed countries each year. Such outbreaks are probably under-detected. The aim of our study was to develop an integrated approach to detect and study clusters of AGI in geographical areas with homogeneous exposure to drinking water. Data for the number of AGI cases are available at the municipality level while exposure to tap water depends on drinking water networks (DWN). These two geographical units do not systematically overlap...
August 2017: Journal of Water and Health
https://www.readbyqxmd.com/read/28770188/early-childhood-caries-prevalence-risk-factors-and-prevention
#8
REVIEW
Sukumaran Anil, Pradeep S Anand
Early childhood caries (ECC) is major oral health problem, mainly in socially disadvantaged populations. ECC affects infants and preschool children worldwide. The prevalence of ECC differs according to the group examined, and a prevalence of up to 85% has been reported for disadvantaged groups. ECC is the presence of one or more decayed, missing, or filled primary teeth in children aged 71 months (5 years) or younger. It begins with white-spot lesions in the upper primary incisors along the margin of the gingiva...
2017: Frontiers in Pediatrics
https://www.readbyqxmd.com/read/28764159/otomycosis-in-a-rural-community-attending-a-tertiary-care-hospital-assessment-of-risk-factors-and-identification-of-fungal-and-bacterial-agents
#9
Priti Agarwal, Leimapokpam Sumitra Devi
INTRODUCTION: Otomycosis is one of the frequently encountered fungal infections of external auditory canal, commonly seen in tropical and subtropical regions of the world. Various host (local, systemic) and environmental factors can predispose a person to otomycosis. Although clinical presentations along with otoscopic findings of the patients are well suggestive of fungal infection, proper identification of causative agents is mandatory in order to prevent recurrences and complications...
June 2017: Journal of Clinical and Diagnostic Research: JCDR
https://www.readbyqxmd.com/read/28738817/exacerbation-of-bronchiectasis-by-pseudomonas-monteilii-a-case-report
#10
Aditi, Malini Shariff, Kiran Beri
BACKGROUND: Pseudomonas spp are important opportunistic and nosocomial pathogens. One such species is Pseudomonas monteilii (P. monteilii). It has been described as an environmental contaminant and potential pathogen. We identified this organism as the causative agent of an exacerbation of bronchiectasis and an environmental contaminant in our hospital on two separate occasions. CASE PRESENTATION: P. monteilii was the cause of an exacerbation of bronchiectasis in a 30-year-old HIV negative male...
July 24, 2017: BMC Infectious Diseases
https://www.readbyqxmd.com/read/28738078/evaluation-of-maldi-tof-mass-spectrometry-and-maldi-biotyper-in-comparison-to-16s-rdna-sequencing-for-the-identification-of-bacteria-isolated-from-arctic-sea-water
#11
Anna Maria Timperio, Susanna Gorrasi, Lello Zolla, Massimiliano Fenice
MALDI-TOF Mass Spectrometry in association with the MALDI BioTyper 3.1 software has been evaluated for the identification and classification of 45 Arctic bacteria isolated from Kandalaksha Bay (White Sea, Russia). The high reliability of this method has been already demonstrated, in clinical microbiology, by a number of studies showing high attribution concordance with other credited analyses. Recently, it has been employed also in other branches of microbiology with controversial performance. The phyloproteomic results reported in this study were validated with those obtained by the "gold standard" 16S rDNA analysis...
2017: PloS One
https://www.readbyqxmd.com/read/28732304/outbreak-of-salmonella-enteritidis-pt14b-gastroenteritis-at-a-restaurant-in-england-the-use-of-molecular-typing-to-achieve-a-successful-prosecution
#12
C Chatt, D Nicholds-Trainor, A Scrivener, S Suleman, M Harvey, T Dallman, J Hawker, B Sibal
OBJECTIVES: To describe an outbreak of Salmonella enteritidis phage type (PT) 14b in people who had eaten at a restaurant, and the investigation and subsequent prosecution of the food business operator (FBO). STUDY DESIGN: The local health protection team and environmental health department formed an outbreak control team to investigate the outbreak. METHODS: Epidemiological, microbiological, and environmental investigations were undertaken...
July 18, 2017: Public Health
https://www.readbyqxmd.com/read/28732056/inferring-microbial-interactions-in-thermophilic-and-mesophilic-anaerobic-digestion-of-hog-waste
#13
Grace Tzun-Wen Shaw, An-Chi Liu, Chieh-Yin Weng, Chu-Yang Chou, Daryi Wang
Anaerobic digestion (AnD) is a microbiological process that converts organic waste materials into biogas. Because of its high methane content, biogas is a combustible energy source and serves as an important environmental technology commonly used in the management of animal waste generated on large animal farms. Much work has been done on hardware design and process engineering for the generation of biogas. However, little is known about the complexity of the microbiology in this process. In particular, how microbes interact in the digester and eventually breakdown and convert organic matter into biogas is still regarded as a "black box...
2017: PloS One
https://www.readbyqxmd.com/read/28729688/improved-genome-recovery-and-integrated-cell-size-analyses-of-individual-uncultured-microbial-cells-and-viral-particles
#14
Ramunas Stepanauskas, Elizabeth A Fergusson, Joseph Brown, Nicole J Poulton, Ben Tupper, Jessica M Labonté, Eric D Becraft, Julia M Brown, Maria G Pachiadaki, Tadas Povilaitis, Brian P Thompson, Corianna J Mascena, Wendy K Bellows, Arvydas Lubys
Microbial single-cell genomics can be used to provide insights into the metabolic potential, interactions, and evolution of uncultured microorganisms. Here we present WGA-X, a method based on multiple displacement amplification of DNA that utilizes a thermostable mutant of the phi29 polymerase. WGA-X enhances genome recovery from individual microbial cells and viral particles while maintaining ease of use and scalability. The greatest improvements are observed when amplifying high G+C content templates, such as those belonging to the predominant bacteria in agricultural soils...
July 20, 2017: Nature Communications
https://www.readbyqxmd.com/read/28727324/bacillus-thuringiensis-an-annotated-selection-of-world-wide-web-sites-relevant-to-the-topics-in-environmental-microbiology
#15
Lawrence P Wackett
No abstract text is available yet for this article.
August 2017: Environmental Microbiology Reports
https://www.readbyqxmd.com/read/28727290/web-alert-radiation-and-desiccation-resistant-bacteria-an-annotated-selection-of-world-wide-web-sites-relevant-to-the-topics-in-environmental-microbiology
#16
Lawrence P Wackett
No abstract text is available yet for this article.
July 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28725217/metagenomics-the-next-culture-independent-game-changer
#17
REVIEW
Jessica D Forbes, Natalie C Knox, Jennifer Ronholm, Franco Pagotto, Aleisha Reimer
A trend towards the abandonment of obtaining pure culture isolates in frontline laboratories is at a crossroads with the ability of public health agencies to perform their basic mandate of foodborne disease surveillance and response. The implementation of culture-independent diagnostic tests (CIDTs) including nucleic acid and antigen-based assays for acute gastroenteritis is leaving public health agencies without laboratory evidence to link clinical cases to each other and to food or environmental substances...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28722599/assessment-of-fecal-exposure-pathways-in-low-income-urban-neighborhoods-in-accra-ghana-rationale-design-methods-and-key-findings-of-the-sanipath-study
#18
Katharine Robb, Clair Null, Peter Teunis, Habib Yakubu, George Armah, Christine L Moe
Rapid urbanization has contributed to an urban sanitation crisis in low-income countries. Residents in low-income, urban neighborhoods often have poor sanitation infrastructure and services and may experience frequent exposure to fecal contamination through a range of pathways. There are little data to prioritize strategies to decrease exposure to fecal contamination in these complex and highly contaminated environments, and public health priorities are rarely considered when planning urban sanitation investments...
July 17, 2017: American Journal of Tropical Medicine and Hygiene
https://www.readbyqxmd.com/read/28721211/microbial-metal-resistance-and-metabolism-across-dynamic-landscapes-high-throughput-environmental-microbiology
#19
REVIEW
Hans Carlson, Adam Deutschbauer, John Coates
Multidimensional gradients of inorganic compounds influence microbial activity in diverse pristine and anthropogenically perturbed environments. Here, we suggest that high-throughput cultivation and genetics can be systematically applied to generate quantitative models linking gene function, microbial community activity, and geochemical parameters. Metal resistance determinants represent a uniquely universal set of parameters around which to study and evaluate microbial fitness because they represent a record of the environment in which all microbial life evolved...
2017: F1000Research
https://www.readbyqxmd.com/read/28711981/universal-direct-pcr-amplification-system-a-time-and-cost-effective-tool-for-high-throughput-applications
#20
Anis Ben-Amar, Souheib Oueslati, Ahmed Mliki
Taking into account the limits of current genotyping methodologies, we have established a versatile direct PCR method on intact microtissue samples without prior DNA isolation. A simple and standard protocol was developed and validated on a wide range of living organisms including bacterial and fungal strains, plant species and human samples. This allows reliable amplification of target genomic DNA fragment directly from source material using minimal amount of tissue which makes DNA purification irrelevant for a number of biological applications...
August 2017: 3 Biotech
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