keyword
MENU ▼
Read by QxMD icon Read
search

Soil microbiology

keyword
https://www.readbyqxmd.com/read/28801105/rectal-swab-screening-assays-of-public-health-importance-in-molecular-diagnostics-sample-adequacy-control
#1
Sanja Glisovic, Shaun Eintracht, Yves Longtin, Matthew Oughton, Ivan Brukner
Rectal swabs are routinely used by public health authorities to screen for multi-drug resistant enteric bacteria including vancomycin-resistant enterococci (VRE) and carbapenem-resistant enterobacteriaceae (CRE). Screening sensitivity can be influenced by the quality of the swabbing, whether performed by the patient (self-swabbing) or a healthcare practitioner. One common exclusion criterion for rectal swabs is absence of "visible soiling" from fecal matter. In our institution, this criterion excludes almost 10% of rectal swabs received in the microbiology laboratory...
August 8, 2017: Journal of Infection and Public Health
https://www.readbyqxmd.com/read/28782997/pathogen-decontamination-of-food-crop-soil-a-review
#2
Joshua B Gurtler
The purpose of this review is to delineate means of decontaminating soil. This information might be used to mitigate soil-associated risks of foodborne pathogens. The majority of the research in the published literature involves inactivation of plant pathogens in soil, i.e., those pathogens harmful to fruit and vegetable production and ornamental plants. Very little has been published regarding the inactivation of foodborne human pathogens in crop soil. Nevertheless, because decontamination techniques for plant pathogens might also be useful methods for eliminating foodborne pathogens, this review also includes inactivation of plant pathogens, with appropriate discussion and comparisons, in the hopes that these methods may one day be validated against foodborne pathogens...
September 2017: Journal of Food Protection
https://www.readbyqxmd.com/read/28776041/hiding-in-plain-sight-mining-bacterial-species-records-for-phenotypic-trait-information
#3
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/28766823/isolation-of-bacteriophages-from-air-using-vacuum-filtration-technique-an-improved-and-novel-method
#4
Bhagyashree Magare, Aparna Nair, Krishna Khairnar
AIM: Development of a simple and economical air sampler for isolation and enrichment of bacteriophages from air samples. METHODS AND RESULTS: A vacuum filtration unit with simple modifications was used for isolation of bacteriophages from air sampled in the lavatory. Air was sampled at the rate of 62 L/min by bubbling into Mcllvaine buffer for 30 minutes, which was used as bacteriophage solution for enrichment and plaque assessment against individual hosts. Alternatively, the aforementioned phage solution was enriched using a host consortium before plaque assessment...
August 2, 2017: Journal of Applied Microbiology
https://www.readbyqxmd.com/read/28729688/improved-genome-recovery-and-integrated-cell-size-analyses-of-individual-uncultured-microbial-cells-and-viral-particles
#5
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/28718021/evidence-for-photolytic-and-microbial-degradation-processes-in-the-dissipation-of-leptospermone-a-natural-%C3%AE-triketone-herbicide
#6
Sana Romdhane, Marion Devers-Lamrani, Fabrice Martin-Laurent, Amani Ben Jrad, Delphine Raviglione, Marie-Virginie Salvia, Pascale Besse-Hoggan, Franck E Dayan, Cédric Bertrand, Lise Barthelmebs
Bioherbicides appear as an ecofriendly alternative to synthetic herbicides, generally used for weed management, because they are supposed to have low side on human health and ecosystems. In this context, our work aims to study abiotic (i.e., photolysis) and biotic (i.e,. biodegradation) processes involved in the fate of leptospermone, a natural β-triketone herbicide, by combining chemical and microbiological approaches. Under controlled conditions, the photolysis of leptospermone was sensitive to pH. Leptospermone has a half-life of 72 h under simulated solar light irradiations...
July 17, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/28707243/research-trends-and-hotspots-related-to-ammonia-oxidation-based-on-bibliometric-analysis
#7
Maosheng Zheng, Hui-Zhen Fu, Yuh-Shan Ho
Ammonia oxidation is the rate-limiting and central step in global biogeochemistry cycle of nitrogen. A bibliometric analysis based on 4314 articles extracted from Science Citation Index Expanded database was carried out to provide insights into publication performances and research trends of ammonia oxidation in the period 1991-2014. These articles were originated from a wide range of 602 journals and 95 Web of Science Categories, among which Applied and Environmental Microbiology and Environmental Sciences took the leading position, respectively...
July 13, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/28697385/quantitative-contamination-assessment-of-escherichia-coli-in-baby-spinach-primary-production-in-spain-effects-of-weather-conditions-and-agricultural-practices
#8
Ana Allende, Irene Castro-Ibáñez, Roland Lindqvist, María Isabel Gil, Mieke Uyttendaele, Liesbeth Jacxsens
A quantitative microbial contamination model of Escherichia coli during primary production of baby spinach was developed. The model included only systematic contamination routes (e.g. soil and irrigation water) and it was used to evaluate the potential impact of weather conditions, agricultural practices as well as bacterial fitness in soil on the E. coli levels present in the crop at harvest. The model can be used to estimate E. coli contamination of baby spinach via irrigation water, via soil splashing due to irrigation water or rain events, and also including the inactivation of E...
June 27, 2017: International Journal of Food Microbiology
https://www.readbyqxmd.com/read/28693949/composting-of-food-wastes-status-and-challenges
#9
REVIEW
Alejandra Cerda, Adriana Artola, Xavier Font, Raquel Barrena, Teresa Gea, Antoni Sánchez
This review analyses the main challenges of the process of food waste composting and examines the crucial aspects related to the quality of the produced compost. Although recent advances have been made in crucial aspects of the process, such composting microbiology, improvements are needed in process monitoring. Therefore, specific problems related to food waste composting, such as the presence of impurities, are thoroughly analysed in this study. In addition, environmental impacts related to food waste composting, such as emissions of greenhouse gases and odours, are discussed...
June 26, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28684789/soil-bacterial-quantification-approaches-coupling-with-relative-abundances-reflecting-the-changes-of-taxa
#10
Zhaojing Zhang, Yuanyuan Qu, Shuzhen Li, Kai Feng, Shang Wang, Weiwei Cai, Yuting Liang, Hui Li, Meiying Xu, Huaqun Yin, Ye Deng
Understanding the abundance change of certain bacterial taxa is quite important for the study of soil microbiology. However, the observed differences of relative abundances by high-throughput techniques may not accurately reflect those of the actual taxon abundances. This study investigated whether soil microbial abundances coupling with microbial quantities can be more informative in describing the microbial population distribution under different locations. We analyzed relative abundances of the major species in soil microbial communities from Beijing and Tibet grasslands by using 16 S rRNA high-throughput sequencing technique, and quantified the absolute bacterial cell numbers directly or indirectly by multiple culture-independent measurements, including adenosine tri-phosphate (ATP), flow cytometry (FCM), quantitative real-time PCR (qPCR), phospholipid fatty acids (PLFA) and microbial biomass Carbon (MBC)...
July 6, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28658756/unusual-severe-extra-intestinal-manifestations-of-a-common-enteric-pathogen-aeromonas-spp
#11
Barnini Banerjee, Mridula Madiyal, Lingadakai Ramchandra, Chiranjay Mukhopadhyay, Rahul Garg, Kiran Chawla
INTRODUCTION: Aeromonas spp. are halophilic, Gram-negative bacilli. They are widely distributed in the soil and aquatic environment and have been associated with various extra-intestinal infections, such as skin and soft-tissue infections, meningitis, bacteraemia etc. The most common species associated with extra-intestinal infection is Aeromonas hydrophila. AIM: To get the overview of clinical presentations, underlying predisposing factors associated with the extra-intestinal infections caused by Aeromonas species and their antimicrobial susceptibility pattern...
May 2017: Journal of Clinical and Diagnostic Research: JCDR
https://www.readbyqxmd.com/read/28657887/lessons-from-the-environmental-antibiotic-resistome
#12
Matthew Surette, Gerard D Wright
Antibiotic resistance is a global public health issue of growing proportions. All antibiotics are susceptible to resistance. The evidence is now clear that the environment is the single largest source and reservoir of resistance. Soil, aquatic, atmospheric, animal- associated, and built ecosystems are home to microbes that harbor antibiotic resistance elements and the means to mobilize them. The diversity and abundance of resistance in the environment is consistent with the ancient origins of antibiotics and a variety of studies support a long natural history of associated resistance...
June 28, 2017: Annual Review of Microbiology
https://www.readbyqxmd.com/read/28651076/application-of-water-assisted-ultraviolet-light-in-combination-of-chlorine-and-hydrogen-peroxide-to-inactivate-salmonella-on-fresh-produce
#13
Shuanghuan Guo, Runze Huang, Haiqiang Chen
With the demand for fresh produce increases in recent decades, concerns for microbiological safety of fresh produce are also raised. To identify effective ultraviolet (UV) light treatment for fresh produce decontamination, we first determined the effect of three forms of UV treatment, dry UV (samples were treated by UV directly), wet UV (samples were dipped in water briefly and then exposed to UV), and water-assisted UV (samples were treated by UV while being immersed in agitated water) on inactivation of Salmonella inoculated on tomatoes and fresh-cut lettuce...
June 19, 2017: International Journal of Food Microbiology
https://www.readbyqxmd.com/read/28633523/effect-of-pseudomonas-fluorescens-on-buried-steel-pipeline-corrosion
#14
Amy J Spark, David W Law, Liam P Ward, Ivan S Cole, Adam S Best
Buried steel infrastructure can be a source of iron ions for bacterial species, leading to microbiologically influenced corrosion (MIC). Localized corrosion of pipelines due to MIC is one of the key failure mechanisms of buried steel pipelines. In order to better understand the mechanisms of localized corrosion in soil, semisolid agar has been developed as an analogue for soil. Here, Pseudomonas fluorescens has been introduced to the system to understand how bacteria interact with steel. Through electrochemical testing including open circuit potentials, potentiodynamic scans, anodic potential holds, and electrochemical impedance spectroscopy it has been shown that P...
July 12, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28631154/soil-derived-organic-particles-and-their-effects-on-the-community-of-culturable-microorganisms
#15
Lukáš Bystrianský, Marcel Štofik, Milan Gryndler
Soil microbial community interacts with a range of particulate material in the soil, consisting of both inorganic and organic compounds with different levels of water solubility. Though sparingly water-soluble and insoluble organic compounds in the soil may affect living organisms, they are difficult to introduce into microbiological media. Their biological activity (i.e., their effect on soil microorganisms) thus has been almost neglected in most of the cultivation assays. To fill this gap, we propose the use of fine organic particles prepared from soil organic matter that are introduced into a laboratory medium where microbial community is cultivated...
June 19, 2017: Folia Microbiologica
https://www.readbyqxmd.com/read/28600590/do-multi-year-applications-of-bacillus-thuringiensis-subsp-israelensis-for-control-of-mosquito-larvae-affect-the-abundance-of-b-cereus-group-populations-in-riparian-wetland-soils
#16
Salome Schneider, Tania Tajrin, Jan O Lundström, Niels B Hendriksen, Petter Melin, Ingvar Sundh
Bacillus thuringiensis subsp. israelensis (Bti) is a soil-borne bacterium affiliated to the Bacillus cereus group (Bcg) and has been used in biocontrol products against nematoceran larvae for several decades. However, knowledge is limited on whether long-term Bti application can affect the structure of indigenous communities of Bcg and the overall abundance of Bti. Using species- and group-specific quantitative PCR assays, we measured the Bcg- and Bti-abundances in riparian wetlands in the River Dalälven floodplains of central Sweden...
June 10, 2017: Microbial Ecology
https://www.readbyqxmd.com/read/28589386/navigating-the-jungles-of-tropical-infectious-gastrointestinal-pathology-a-pattern-based-approach-to-the-endoscopic-biopsy
#17
Tomas Slavik, Gregory Y Lauwers
International travels and global human migration have had the unforeseen consequence of increasing the exposure of histopathologists in developed countries to the pathology of tropical infectious disease. The gastrointestinal tract (GIT) is often the primary site of infection due to the faecal-oral route of transmission and the high risk of exposure to contaminated water, food or soil when travelling to these regions. Whilst current microbiologic techniques are far more sensitive than histology in detecting infectious pathogens, the histopathologist nonetheless retains a pivotal role in diagnosing tropical GIT disease...
June 6, 2017: Virchows Archiv: An International Journal of Pathology
https://www.readbyqxmd.com/read/28583948/lysinibacillus-fusiformis-m5-induces-increased-complexity-in-bacillus-subtilis-168-colony-biofilms-via-hypoxanthine
#18
Ramses Gallegos-Monterrosa, Stefanie Kankel, Sebastian Götze, Robert Barnett, Pierre Stallforth, Ákos T Kovács
In recent years, biofilms have become a central subject of research in the fields of microbiology, medicine, agriculture, or systems biology amongst others. The sociomicrobiology of multispecies biofilms, however, is still poorly understood. Here, we report a screening system that allowed us to identify soil bacteria, which induce architectural changes in biofilm colonies when cocultured with B. subtilis We identified the soil bacterium Lysinibacillus fusiformis M5 as inducer of wrinkle-formation in B. subtilis colonies mediated by a diffusible signaling molecule...
June 5, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28570970/altered-humin-compositions-under-organic-and-inorganic-fertilization-on-an-intensively-cultivated-sandy-loam-soil
#19
Jisheng Xu, Bingzi Zhao, Wenying Chu, Jingdong Mao, Dan C Olk, Xiuli Xin, Jiabao Zhang
Humin is the most recalcitrant fraction of soil organic matter (SOM). However, little is known about quantitative structural information on humin and the roles of soil mircoorganisms involved in the humin formation. We applied advanced solid-state (13)C nuclear magnetic resonance (NMR) spectroscopy to provide deep insights into humin structural changes in response to long-term balanced fertilization on a Calcaric Fluvisol in the North China plain. The relationships between humin structure and microbiological properties such as microbial biomass, microbial quotient (qmic) and metabolic quotient (qCO2) were also studied...
December 1, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28555166/is-it-necessary-to-specifically-define-the-cause-of-surgically-treated-biliary-tract-infections-a-rare-case-of-raoultella-planticola-cholecystitis-and-literature-review
#20
Suat Can Ulukent, İnanc Samil Sarici, Nuri Alper Sahbaz, Yigit Mehmet Ozgun, Ozlem Akca, Kamuran Sanlı
Raoultella planticola is an aquatic and soil organism that does not notoriously cause invasive infections in humans. Infections in the literature are limited only in case reports. We present a very rare case of R. planticola cholecystitis. A 71-year-old female patient with abdominal pain was diagnosed with acute cholecystitis. Patient received intravenous antibiotic treatment, but the treatment failed and the patient underwent an open cholecystectomy. The final pathological result was gangrenous cholecystitis complicated with R...
2017: Case Reports in Infectious Diseases
keyword
keyword
118911
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"