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https://www.readbyqxmd.com/read/28735316/biochar-rhizosphere-interactions-a-review
#1
Sławomir Głuszek, Lidia Sas Paszt, Beata Sumorok, Ryszard Kozera
Biochar is a solid material of biological origin obtained from the biomass carbonization, designed as a mean to reduce greenhouse gases emission and carbon sequestration in soils for a long time. Biochar has a wide spectrum of practical utilization and is applied as a promising soil improver or fertilizer in agriculture, or as a medium for soil or water remediation. Preparations of biochar increase plant growth and yielding when applied into soil and also improve plant growth conditions, mainly bio, physical and chemical properties of soil...
July 6, 2017: Polish Journal of Microbiology
https://www.readbyqxmd.com/read/28734738/evaluation-of-the-biotechnological-potential-of-bacterioplankton-from-niter%C3%A3-i-coast-rj
#2
Marcelly Miranda Aybal Jayme, Rebeca Oliveira Castro, Carlos André Mandarino Silva, Mariana Muniz Silva, Flávia Lima do Carmo, Fábio Vieira de Araujo
Production of antibiotics and enzymes by microorganisms is well recognized for its economic benefits. Searching potentially exploitable microorganisms, strains of heterotrophic bacteria were isolated from marine and estuarine waters in Niterói-RJ, Brazil, and tested for the production of enzymes and antimicrobial substances. From the 76 isolated colonies, 09.21% showed antimicrobial potential, 63.16% showed enzymatic activity for at least one of the substrates tested and 91% showed multidrug resistance. Strains that presented the better results were identified by sequencing...
July 19, 2017: Comptes Rendus Biologies
https://www.readbyqxmd.com/read/28731472/high-abundance-and-expression-of-transposases-in-bacteria-from-the-baltic-sea
#3
Theoden Vigil-Stenman, Karolina Ininbergs, Birgitta Bergman, Martin Ekman
Transposases are mobile genetic elements suggested to have an important role in bacterial genome plasticity and host adaptation but their transcriptional activity in natural bacterial communities is largely unexplored. Here we analyzed metagenomes and -transcriptomes of size fractionated (0.1-0.8, 0.8-3.0 and 3.0-200 μm) bacterial communities from the brackish Baltic Sea, and adjacent marine waters. The Baltic Sea transposase levels, up to 1.7% of bacterial genes and 2% of bacterial transcripts, were considerably higher than in marine waters and similar to levels reported for extreme environments...
July 21, 2017: ISME Journal
https://www.readbyqxmd.com/read/28729854/microbiome-of-trichodesmium-colonies-from-the-north-pacific-subtropical-gyre
#4
Mary R Gradoville, Byron C Crump, Ricardo M Letelier, Matthew J Church, Angelicque E White
Filamentous diazotrophic Cyanobacteria of the genus Trichodesmium, often found in colonial form, provide an important source of new nitrogen to tropical and subtropical marine ecosystems. Colonies are composed of several clades of Trichodesmium in association with a diverse community of bacterial and eukaryotic epibionts. We used high-throughput 16S rRNA and nifH gene sequencing, carbon (C) and dinitrogen (N2) fixation assays, and metagenomics to describe the diversity and functional potential of the microbiome associated with Trichodesmium colonies collected from the North Pacific Subtropical Gyre (NPSG)...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28728909/assessing-impacts-of-dna-extraction-methods-on-next-generation-sequencing-of-water-and-wastewater-samples
#5
Connie Walden, Franck Carbonero, Wen Zhang
Next Generation Sequencing (NGS) is increasingly affordable and easier to perform. However, standard protocols prior to the sequencing step are only available for few selected sample types. Here we investigated the impact of DNA extraction methods on the consistency of NGS results. Four commercial DNA extraction kits (QIAamp DNA Mini Kit, QIAamp DNA Stool Mini Kit, MO BIO Power Water Kit, and MO BIO Power Soil DNA Isolation Kit) were used on sample sources including lake water and wastewater, and sample types including planktonic and biofilm bacteria communities...
July 17, 2017: Journal of Microbiological Methods
https://www.readbyqxmd.com/read/28728566/genomic-fingerprints-of-escherichia-coli-strains-isolated-from-surface-water-in-alborz-province-iran
#6
Reza Ranjbar, Parichehr Pezeshknejad, Faham Khamesipour, Kiumars Amini, Roohollah Kheiri
BACKGROUND: Consistent use of suitable diagnostic methods is essential to evaluate the genomic diversity of E. coli strains. Advance of efficient methods to discriminate the causes of E. coli in aquatic environments is important. This study aimed to describe the strain diversity of an E. coli population retrieved from surface water. METHODS: One hundred water samples were drawn within a period of 1 year, from May 2012 to May 2013, and E. coli bacteria have been isolated from water samples...
July 20, 2017: BMC Research Notes
https://www.readbyqxmd.com/read/28715471/habitat-and-indigenous-gut-microbes-contribute-to-the-plasticity-of-gut-microbiome-in-oriental-river-prawn-during-rapid-environmental-change
#7
Cheng-Yu Chen, Po-Cheng Chen, Francis Cheng-Hsuan Weng, Grace Tzun-Wen Shaw, Daryi Wang
Growing evidence points out that the capacity of organisms to acclimate or adapt to new habitat conditions basically depends on their phenomic plasticity attributes, of which their gut commensal microbiota might be an essential impact factor. Especially in aquatic organisms, which are in direct and continual contact with the aquatic environment, the complex and dynamic microbiota have significant effects on health and development. However, an understanding of the relative contribution of internal sorting (host genetic) and colonization (environmental) processes is still unclear...
2017: PloS One
https://www.readbyqxmd.com/read/28709106/microcosms-for-evaluating-microbial-indicator-persistence-and-mobilization-in-fluvial-sediments-during-rainfall-events
#8
Julia Martín-Díaz, Cristina García-Aljaro, Míriam Pascual-Benito, Belén Galofré, Anicet R Blanch, Francisco Lucena
Mediterranean rivers, which are subject to long, dry periods and heavy rainfall events, could be particularly useful for understanding future climate scenarios. This study generated microcosms that mimicked riverbank sediment resuspension into the water of a typical Mediterranean river as a consequence of heavy rainfall. The mobilization and inactivation of six fecal pollution indicators and microbial source tracking markers were evaluated. The T90 values in the sediments were: 4 days for sorbitol-fermenting Bifidobacterium, 11 days for culturable E...
July 9, 2017: Water Research
https://www.readbyqxmd.com/read/28708321/dynamics-of-culturable-mesophilic-bacterial-communities-of-three-fresh-herbs-and-their-production-environment
#9
Maria-Theresia Gekenidis, Diane Gossin, Mathias Schmelcher, Ulrich Schöner, Mitja N P Remus-Emsermann, David Drissner
AIM: Investigate dynamics of culturable mesophilic bacteria and selected food contaminating bacteria from three herbs and their production environment. METHODS AND RESULTS: Marjoram, basil, and thyme were investigated during one growing season by sampling plants, organic fertilizers, soil, irrigation water, and marketed products. Mesophilic bacteria and selected food contaminating bacteria (Escherichia coli, Enterococcus spp., Bacillus cereus group) were cultured and identified by MALDI biotyping...
July 14, 2017: Journal of Applied Microbiology
https://www.readbyqxmd.com/read/28702012/community-composition-of-nitrous-oxide-consuming-bacteria-in-the-oxygen-minimum-zone-of-the-eastern-tropical-south-pacific
#10
Xin Sun, Amal Jayakumar, Bess B Ward
The ozone-depleting and greenhouse gas, nitrous oxide (N2O), is mainly consumed by the microbially mediated anaerobic process, denitrification. N2O consumption is the last step in canonical denitrification, and is also the least O2 tolerant step. Community composition of total and active N2O consuming bacteria was analyzed based on total (DNA) and transcriptionally active (RNA) nitrous oxide reductase (nosZ) genes using a functional gene microarray. The total and active nosZ communities were dominated by a limited number of nosZ archetypes, affiliated with bacteria from marine, soil and marsh environments...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28690600/differential-growth-of-francisella-tularensis-which-alters-expression-of-virulence-factors-dominant-antigens-and-surface-carbohydrate-synthases-governs-the-apparent-virulence-of-ft-schus4-to-immunized-animals
#11
Kristen M Holland, Sarah J Rosa, Kolbrun Kristjansdottir, Donald Wolfgeher, Brian J Franz, Tiffany M Zarrella, Sudeep Kumar, Raju Sunagar, Anju Singh, Chandra S Bakshi, Prachi Namjoshi, Eileen M Barry, Timothy J Sellati, Stephen J Kron, Edmund J Gosselin, Douglas S Reed, Karsten R O Hazlett
The gram-negative bacterium Francisella tularensis (Ft) is both a potential biological weapon and a naturally occurring microbe that survives in arthropods, fresh water amoeba, and mammals with distinct phenotypes in various environments. Previously, we used a number of measurements to characterize Ft grown in Brain-Heart Infusion (BHI) broth as (1) more similar to infection-derived bacteria, and (2) slightly more virulent in naïve animals, compared to Ft grown in Mueller Hinton Broth (MHB). In these studies we observed that the free amino acids in MHB repress expression of select Ft virulence factors by an unknown mechanism...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28689129/the-potential-implications-of-reclaimed-wastewater-reuse-for-irrigation-on-the-agricultural-environment-the-knowns-and-unknowns-of-the-fate-of-antibiotics-and-antibiotic-resistant-bacteria%C3%A2-and-resistance-genes-a-review
#12
REVIEW
Anastasis Christou, Ana Agüera, Josep Maria Bayona, Eddie Cytryn, Vasileios Fotopoulos, Dimitra Lambropoulou, Célia M Manaia, Costas Michael, Mike Revitt, Peter Schröder, Despo Fatta-Kassinos
The use of reclaimed wastewater (RWW) for the irrigation of crops may result in the continuous exposure of the agricultural environment to antibiotics, antibiotic resistant bacteria (ARB) and antibiotic resistance genes (ARGs). In recent years, certain evidence indicate that antibiotics and resistance genes may become disseminated in agricultural soils as a result of the amendment with manure and biosolids and irrigation with RWW. Antibiotic residues and other contaminants may undergo sorption/desorption and transformation processes (both biotic and abiotic), and have the potential to affect the soil microbiota...
July 3, 2017: Water Research
https://www.readbyqxmd.com/read/28687650/parallel-evolution-of-two-clades-of-a-major-atlantic-endemic-vibrio-parahaemolyticus-pathogen-lineage-by-independent-acquisition-of-related-pathogenicity-islands
#13
Feng Xu, Narjol Gonzalez-Escalona, Kevin P Drees, Robert P Sebra, Vaughn S Cooper, Stephen H Jones, Cheryl A Whistler
Shellfish-transmitted Vibrio parahaemolyticus infections have recently increased from locations with historically low disease incidence, such as the Northeast United States (US). This change coincided with a bacterial population shift towards human pathogenic variants occurring in part through the introduction of several Pacific native lineages (ST36, ST43 and ST636) to near-shore areas off the Atlantic coast of the Northeast US. Concomitantly, ST631 emerged as a major endemic pathogen. Phylogenetic trees of clinical and environmental isolates indicated that two clades diverged from a common ST631 ancestor, and in each of these clades, a human pathogenic variant evolved independently through acquisition of distinct Vibrio pathogenicity islands (VPaI)...
July 7, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28686435/animal-feces-contribute-to-domestic-fecal-contamination-evidence-from-e-coli-measured-in-water-hands-food-flies-and-soil-in-bangladesh
#14
Ayse Ercumen, Amy J Pickering, Laura H Kwong, Benjamin F Arnold, Sarker Masud Parvez, Mahfuja Alam, Debashis Sen, Sharmin Islam, Craig Kullmann, Claire Chase, Rokeya Ahmed, Leanne Unicomb, Stephen P Luby, John M Colford
Fecal-oral pathogens are transmitted through complex, environmentally mediated pathways. Sanitation interventions that isolate human feces from the environment may reduce transmission but have shown limited impact on environmental contamination. We conducted a study in rural Bangladesh to (1) quantify domestic fecal contamination in settings with high on-site sanitation coverage; (2) determine how domestic animals affect fecal contamination; and (3) assess how each environmental pathway affects others. We collected water, hand rinse, food, soil, and fly samples from 608 households...
July 20, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28683156/emission-strength-of-airborne-pathogens-during-toilet-flushing
#15
A C K Lai, T F Tan, W S Li, D K M Ip
The flushing of toilets generates contaminated aerosols, the transmission of which may cause the spread of disease, particularly in the immunocompromised or the elderly. This study investigated the emission strength of three types of airborne bacteria, namely, Staphylococcus epidermidis, Escherichia coli and Pseudomonas alcaligenes, during toilet flushing in a custom-built toilet under a controlled environment. Flushing was activated by a flushometer operated at two pressure levels, 400 kPa (high pressure [HP]) and 200 kPa (low pressure [LP]), and by a water cistern tank placed 95 cm (high tank [HT]) and 46 cm (low tank [LT]) above the toilet seat...
July 6, 2017: Indoor Air
https://www.readbyqxmd.com/read/28680420/functional-gene-diversity-and-metabolic-potential-of-the-microbial-community-in-an-estuary-shelf-environment
#16
Yu Wang, Rui Zhang, Zhili He, Joy D Van Nostrand, Qiang Zheng, Jizhong Zhou, Nianzhi Jiao
Microbes play crucial roles in various biogeochemical processes in the ocean, including carbon (C), nitrogen (N), and phosphorus (P) cycling. Functional gene diversity and the structure of the microbial community determines its metabolic potential and therefore its ecological function in the marine ecosystem. However, little is known about the functional gene composition and metabolic potential of bacterioplankton in estuary areas. The East China Sea (ECS) is a dynamic marginal ecosystem in the western Pacific Ocean that is mainly affected by input from the Changjiang River and the Kuroshio Current...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28677326/microbial-community-analysis-of-the-hypersaline-water-of-the-dead-sea-using-high-throughput-amplicon-sequencing
#17
Jacob H Jacob, Emad I Hussein, Muhamad Ali K Shakhatreh, Christopher T Cornelison
Amplicon sequencing using next-generation technology (bTEFAP(®) ) has been utilized in describing the diversity of Dead Sea microbiota. The investigated area is a well-known salt lake in the western part of Jordan found in the lowest geographical location in the world (more than 420 m below sea level) and characterized by extreme salinity (approximately, 34%) in addition to other extreme conditions (low pH, unique ionic composition different from sea water). DNA was extracted from Dead Sea water. A total of 314,310 small subunit RNA (SSU rRNA) sequences were parsed, and 288,452 sequences were then clustered...
July 5, 2017: MicrobiologyOpen
https://www.readbyqxmd.com/read/28666419/effectiveness-of-atp-bioluminescence-assay-for-presumptive-identification-of-microorganisms-in-hospital-water-sources
#18
Máira Gazzola Arroyo, Adriano Menis Ferreira, Oleci Pereira Frota, Marcelo Alessandro Rigotti, Denise de Andrade, Natalia Seron Brizzotti, Jacqueline Tanury Macruz Peresi, Elza Maria Castilho, Margarete Teresa Gottardo de Almeida
BACKGROUND: Laboratory analysis of organisms in water include arduous methods, such as the multiple tube and membrane filter. The ATP bioluminescence system, proposes a new way of measuring cellular material in water by measuring adenosine triphosphate (ATP) levels, which are expressed in relative light units (RLU). The ATP bioluminescence assay has been increasingly used to assess the microbiological safety of the hospital environment. However, there are few studies investigating the use of this methodology to evaluate the microbiological quality of water...
June 30, 2017: BMC Infectious Diseases
https://www.readbyqxmd.com/read/28658391/escherichia-coli-is-not-a-suitable-fecal-indicator-to-assess-water-fecal-contamination-by-otters
#19
M Oliveira, D Freire, N M Pedroso
The detection of pathogenic microorganisms in aquatic environments is extremely relevant in terms of public health. As these laboratorial methodologies are usually difficult, expensive and time-consuming, they are frequently replaced by the assessment of fecal indicator bacteria, such as Escherichia coli. This study aimed to assess the presence of E. coli in fecal samples from Neotropical otters, to evaluate its potential as fecal indicator to be applied to the determination of water microbiological quality in areas where otters' populations are high...
June 26, 2017: Brazilian Journal of Biology, Revista Brasleira de Biologia
https://www.readbyqxmd.com/read/28649637/the-adaptation-of-escherichia-coli-cells-grown-in-simulated-microgravity-for-an-extended-period-is-both-phenotypic-and-genomic
#20
Madhan R Tirumalai, Fathi Karouia, Quyen Tran, Victor G Stepanov, Rebekah J Bruce, C Mark Ott, Duane L Pierson, George E Fox
Microorganisms impact spaceflight in a variety of ways. They play a positive role in biological systems, such as waste water treatment but can be problematic through buildups of biofilms that can affect advanced life support. Of special concern is the possibility that during extended missions, the microgravity environment will provide positive selection for undesirable genomic changes. Such changes could affect microbial antibiotic sensitivity and possibly pathogenicity. To evaluate this possibility, Escherichia coli (lac plus) cells were grown for over 1000 generations on Luria Broth medium under low-shear modeled microgravity conditions in a high aspect rotating vessel...
2017: NPJ Microgravity
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