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environmental microbiology

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https://www.readbyqxmd.com/read/28337568/hospital-microbial-surface-colonization-revealed-during-monitoring-of-klebsiella-spp-pseudomonas-aeruginosa-and-non-tuberculous-mycobacteria
#1
Pedro Geadas Farias, Fernando Gama, Diogo Reis, Susana Alarico, Nuno Empadinhas, José Carlos Martins, Ana Figueiredo de Almeida, Paula Vasconcelos Morais
Hospital environmental conditions, human occupancy, and the characteristics of the equipment influence the survival of microbial communities and raise a concern with regard to nosocomial infections. The objective of the present work was to use the monitoring of Pseudomonas aeruginosa, Klebsiella spp. and non-tuberculous mycobacteria as a strategy to improve knowledge on microbial colonization of non-critical equipment and surfaces, in a tertiary hospital from Central Portugal. A 3-month microbiological survey was performed in a district teaching hospital...
March 23, 2017: Antonie Van Leeuwenhoek
https://www.readbyqxmd.com/read/28337073/real-time-dna-sequencing-in-the-antarctic-dry-valleys-using-the-oxford-nanopore-sequencer
#2
Sarah S Johnson, Elena Zaikova, David S Goerlitz, Yu Bai, Scott W Tighe
The ability to sequence DNA outside of the laboratory setting has enabled novel research questions to be addressed in the field in diverse areas, ranging from environmental microbiology to viral epidemics. Here, we demonstrate the application of offline DNA sequencing of environmental samples using a hand-held nanopore sequencer in a remote field location: the McMurdo Dry Valleys, Antarctica. Sequencing was performed using a MK1B MinION sequencer from Oxford Nanopore Technologies (ONT; Oxford, United Kingdom) that was equipped with software to operate without internet connectivity...
March 22, 2017: Journal of Biomolecular Techniques: JBT
https://www.readbyqxmd.com/read/28336165/suspicious-outbreak-of-ventilator-associated-pneumonia-caused-by-burkholderia-cepacia-in-a-surgical-intensive-care-unit
#3
LiPing Guo, Gang Li, Jian Wang, Xia Zhao, Shupeng Wang, Li Zhai, Hongbin Jia, Bin Cao
BACKGROUND: We reviewed Burkholderia cepacia infections in a hospital from 2013-2016 to report a suspicious outbreak that occurred in a surgical intensive care unit in 2015, and to outline the infection control measures adopted thereafter. METHODS: Review of the health care-associated infection data regarding B cepacia via the surveillance system, hospital information system, electronic medical records, and laboratory information system together with the outbreak investigation was managed by the health care-associated infection control team...
March 20, 2017: American Journal of Infection Control
https://www.readbyqxmd.com/read/28334283/the-microbiology-of-oil-sands-tailings-past-present-future
#4
Julia M Foght, Lisa M Gieg, Tariq Siddique
Surface mining of enormous oil sands deposits in northeastern Alberta, Canada since 1967 has contributed greatly to Canada's economy but has also received negative international attention due largely to environmental concerns and challenges. Not only have microbes profoundly affected the composition and behaviour of this petroleum resource over geological time, they currently influence the management of semi-solid tailings in oil sands tailing ponds (OSTP) and tailings reclamation. Historically, microbial impacts on OSTP were generally discounted but next-generation sequencing and biogeochemical studies have revealed unexpectedly diverse indigenous communities and expanded our fundamental understanding of anaerobic microbial functions...
March 9, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28334157/overview-of-freshwater-microbial-eukaryotes-diversity-a-first-analysis-of-publicly-available-metabarcoding-data
#5
Didier Debroas, Isabelle Domaizon, Jean-Francois Humbert, Ludwig Jardillier, Cécile Lepère, Anne Oudart, Najwa Taïb
Although they are widespread, diverse, and involved in biogeochemical cycles, microbial eukaryotes attract less attention than their prokaryotic counterparts in environmental microbiology. In this study, we used publicly available 18S barcoding data to define biases that may limit such analyses and to gain an overview of the planktonic microbial eukaryotic diversity in freshwater ecosystems. The richness of the microbial eukaryotes was estimated to 100,798 operational taxonomic units (OTUs) delineating 1267 clusters or phylogenetic units (PUs i...
March 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28326066/beneficial-microorganisms-for-corals-bmc-proposed-mechanisms-for-coral-health-and-resilience
#6
REVIEW
Raquel S Peixoto, Phillipe M Rosado, Deborah Catharine de Assis Leite, Alexandre S Rosado, David G Bourne
The symbiotic association between the coral animal and its endosymbiotic dinoflagellate partner Symbiodinium is central to the success of corals. However, an array of other microorganisms associated with coral (i.e., Bacteria, Archaea, Fungi, and viruses) have a complex and intricate role in maintaining homeostasis between corals and Symbiodinium. Corals are sensitive to shifts in the surrounding environmental conditions. One of the most widely reported responses of coral to stressful environmental conditions is bleaching...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28323243/proteomics-of-facs-sorted-heterogeneous-corynebacterium-glutamicum-populations
#7
Andreas Harst, Stefan P Albaum, Tanja Bojarzyn, Christian Trötschel, Ansgar Poetsch
The metabolic status of individual cells in microbial cultures can differ, being relevant for biotechnology, environmental and medical microbiology. However, it is hardly understood in molecular detail due to limitations of current analytical tools. Here, we demonstrate that FACS in combination with proteomics can be used to sort and analyze cell populations based on their metabolic state. A previously established GFP reporter system was used to detect and sort single Corynebacterium glutamicum cells based on the concentration of branched chain amino acids (BCAA) using FACS...
March 17, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28321788/characteristics-of-aerococcus-viridans-isolated-from-bovine-subclinical-mastitis-and-its-effect-on-milk-scc-yield-and-composition
#8
Meng Sun, Jian Gao, Tariq Ali, Dan Yu, Shiyao Zhang, Saeed U Khan, Séamus Fanning, Bo Han
Aerococcus viridians (A. viridans), an environmental Gram-positive bacterium, has been documented to be associated with bovine mastitis. However, its exact role in bovine mastitis and the changes it brings about in milk characteristics are not yet known. The objectives of the current study were to describe the antibiotic resistance of A. viridans from bovine mastitis as well as the correlation between existence of this pathogen in udders and the somatic cell counts (SCC), daily milk yield, and composition of individual cow...
March 20, 2017: Tropical Animal Health and Production
https://www.readbyqxmd.com/read/28296273/cyclic-di-gmp-signaling-meets-extracellular-polysaccharide-synthesis-in-bacillus-subtilis
#9
Jan Kampf, Jörg Stülke
In order to resist harmful environmental conditions, many bacteria form multicellular aggregates called biofilms. In these biofilms, they protect themselves in a self-produced matrix consisting of extracellular polysaccharides, proteins, and DNA. In many bacteria, biofilm formation is stimulated in the presence of the second messenger cyclic di-GMP. In this issue of Environmental Microbiology Reports, Bedrunka and Graumann have studied matrix production by the proteins encoded in the Bacillus subtilis ydaJKLMN operon...
March 13, 2017: Environmental Microbiology Reports
https://www.readbyqxmd.com/read/28296199/antibiotics-in-the-environment-an-annotated-selection-of-world-wide-web-sites-relevant-to-the-topics-in-environmental-microbiology
#10
Lawrence P Wackett
No abstract text is available yet for this article.
March 13, 2017: Environmental Microbiology Reports
https://www.readbyqxmd.com/read/28290555/microbial-communities-of-aquatic-environments-on-heard-island-characterized-by-pyrotag-sequencing-and-environmental-data
#11
Michelle A Allen, Ricardo Cavicchioli
Heard Island in the Southern Ocean is a biological hotspot that is suffering the effects of climate change. Significant glacier retreat has generated proglacial lagoons, some of which are open to the ocean. We used pyrotag sequencing of SSU rRNA genes and environmental data to characterize microorganisms from two pools adjacent to animal breeding areas, two glacial lagoons and Atlas Cove (marine site). The more abundant taxa included Actinobacteria, Bacteroidetes and Proteobacteria, ciliates and picoflagellates (e...
March 14, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28290316/food-losses-shelf-life-extension-and-environmental-impact-of-a-packaged-cheesecake-a-life-cycle-assessment
#12
Michele Mario Gutierrez, Marta Meleddu, Antonio Piga
Packaging is associated with a high environmental impact. This is also the case in the food industry despite packaging being necessary for maintaining food quality, safety assurance and preventing food waste. The aim of the present study was to identify improvements in food packaging solutions able to minimize environmental externalities while maximizing the economic sustainability. To this end, the life cycle assessment (LCA) methodology was applied to evaluate the environmental performance of new packaging solutions...
January 2017: Food Research International
https://www.readbyqxmd.com/read/28265761/risk-factors-of-non-tuberculous-mycobacterial-lymphadenitis-in-children-a-case-control-study
#13
Patricia W Garcia-Marcos, Mercedes Plaza-Fornieles, Ana Menasalvas-Ruiz, Ramon Ruiz-Pruneda, Pedro Paredes-Reyes, Santiago Alfayate Miguelez
The aim of the present study is to clarify the association between environmental exposures and non-tuberculous mycobacterial (NTM) lymphadenitis, during the last decade, in a population of children. In children up to 14 years of age in a pediatric tertiary hospital, all cases of NTM lymphadenopathy with a specific microbiological diagnosis, from January 2004 to January 2015, were reviewed. This is a case-control study (1:5 proportion), in which the prevalence of environmental factors between cases and controls was compared by means of a multivariate logistic regression analysis...
March 6, 2017: European Journal of Pediatrics
https://www.readbyqxmd.com/read/28262753/soil-bacterial-and-fungal-diversity-differently-correlated-with-soil-biochemistry-in-alpine-grassland-ecosystems-in-response-to-environmental-changes
#14
Yong Zhang, Shikui Dong, Qingzhu Gao, Shiliang Liu, Hasbagan Ganjurjav, Xuexia Wang, Xukun Su, Xiaoyu Wu
To understand effects of soil microbes on soil biochemistry in alpine grassland ecosystems under environmental changes, we explored relationships between soil microbial diversity and soil total nitrogen, organic carbon, available nitrogen and phosphorus, soil microbial biomass and soil enzyme activities in alpine meadow, alpine steppe and cultivated grassland on the Qinghai-Tibetan plateau under three-year warming, enhanced precipitation and yak overgrazing. Soil total nitrogen, organic carbon and NH4-N were little affected by overgrazing, warming or enhanced precipitation in three types of alpine grasslands...
March 6, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28248259/a-proteomic-perspective-on-the-bacterial-adaptation-to-cold-integrating-omics-data-of-the-psychrotrophic-bacterium-exiguobacterium-antarcticum-b7
#15
REVIEW
Rafael A Baraúna, Dhara Y Freitas, Juliana C Pinheiro, Adriana R C Folador, Artur Silva
Since the publication of one of the first studies using 2D gel electrophoresis by Patrick H. O'Farrell in 1975, several other studies have used that method to evaluate cellular responses to different physicochemical variations. In environmental microbiology, bacterial adaptation to cold environments is a "hot topic" because of its application in biotechnological processes. As in other fields, gel-based and gel-free proteomic methods have been used to determine the molecular mechanisms of adaptation to cold of several psychrotrophic and psychrophilic bacterial species...
February 23, 2017: Proteomes
https://www.readbyqxmd.com/read/28240534/linking-microbial-community-environmental-variables-and-methanogenesis-in-anaerobic-biogas-digesters-of-chemically-enhanced-primary-treatment-sludge
#16
Feng Ju, Frankie Lau, Tong Zhang
Understanding the influences of biotic and abiotic factors on microbial community structure and methanogenesis are important for its engineering and ecological significance. In this study, four biogas digesters were supplied with the same inoculum and feeding sludge, but operated at different sludge retention time (7 to 16 days) and organic loading rates for 90 days to determine the relative influence of biotic and environmental factors on the microbial community assembly and methanogenic performance. Despite different operational parameters, all digester communities were dominated by Bacteroidales, Clostridiales and Thermotogales, and followed the same trend of population dynamics over time...
February 27, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28236824/indicators-of-groundwater-potential-for-nitrate-transformation-in-a-reductive-environment
#17
Marija Perović, Vesna Obradović, Srđan Kovačević, David Mitrinović, Nevena Živančev, Tanja Nenin
  Increasing nitrate concentration in many shallow aquifers has become a global environmental problem. In order to determine anoxic aquifer sensitivity to nitrate pollution and potential for nitrogen conservation, we have qualified potential nitrate transformation pathways, by conducting field tests, tracer study, physicochemical and microbiological analysis of the groundwater. Combination of in situ measuring and laboratory analysis of physicochemical properties and selected biological activity reactivity tests (BARTTM), has enabled estimation of different pathways of NO3- reduction...
January 1, 2017: Water Environment Research: a Research Publication of the Water Environment Federation
https://www.readbyqxmd.com/read/28231023/increasing-nocardia-incidence-associated-with-bronchiectasis-at-a-tertiary-care-center
#18
Michael H Woodworth, Jennifer L Saullo, Paul M Lantos, Gary M Cox, Jason E Stout
RATIONALE: Nocardia is a genus of pathogens that most commonly afflict immunocompromised hosts but may be an emerging infection among persons with bronchiectasis. OBJECTIVES: To examine the epidemiology and clinical presentation of adult patients with Nocardia and bronchiectasis relative to other patient groups. METHODS: We examined a retrospectively assembled cohort of adults at Duke University Hospital in Durham, North Carolina with at least one positive culture from a bodily fluid or tissue specimen for Nocardia between January 1996 and December 2013...
March 2017: Annals of the American Thoracic Society
https://www.readbyqxmd.com/read/28225574/the-future-of-environmental-microbiology-an-annotated-selection-of-world-wide-web-sites-relevant-to-the-topics-in-environmental-microbiology
#19
Lawrence P Wackett
No abstract text is available yet for this article.
February 2017: Environmental Microbiology Reports
https://www.readbyqxmd.com/read/28221985/role-of-food-handlers-in-norovirus-outbreaks-in-london-and-south-east-england-2013-to-2015
#20
C Rumble, S Addiman, S Balasegaram, K Chima, D Ready, J Heard, E Alexander
Outbreaks caused by norovirus infection are common and occur throughout the year. Outbreaks can be related to food outlets either through a contaminated food source or an infected food handler. Both asymptomatic and symptomatic food handlers are potentially implicated in outbreaks, but evidence of transmission is limited. To understand potential food handler transmission in outbreak scenarios, epidemiological and microbiological data on possible and confirmed norovirus outbreaks reported in London and South East England in a 2-year period were reviewed...
February 2017: Journal of Food Protection
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