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https://www.readbyqxmd.com/read/28239773/high-resolution-solid-state-nmr-spectroscopy-of-the-yersinia-pestis-outer-membrane-protein-ail-in-lipid-membranes
#1
Yong Yao, Samit Kumar Dutta, Sang Ho Park, Ratan Rai, L Miya Fujimoto, Andrey A Bobkov, Stanley J Opella, Francesca M Marassi
The outer membrane protein Ail (Adhesion invasion locus) is one of the most abundant proteins on the cell surface of Yersinia pestis during human infection. Its functions are expressed through interactions with a variety of human host proteins, and are essential for microbial virulence. Structures of Ail have been determined by X-ray diffraction and solution NMR spectroscopy, but those samples contained detergents that interfere with functionality, thus, precluding analysis of the structural basis for Ail's biological activity...
February 26, 2017: Journal of Biomolecular NMR
https://www.readbyqxmd.com/read/28239414/a-novel-small-rna-coar-regulates-coenzyme-a-biosynthesis-and-tolerance-of-synechocystis-sp-pcc6803-to-1-butanol-possibly-via-promoter-directed-transcriptional-silencing
#2
Tao Sun, Guangsheng Pei, Jiangxin Wang, Lei Chen, Weiwen Zhang
BACKGROUND: Microbial small RNAs (sRNAs) have been proposed as valuable regulatory elements for optimizing cellular metabolism for industrial purposes. However, little information is currently available on functional relevance of sRNAs to biofuels tolerance in cyanobacteria. RESULTS: Here, we described the identification and functional characterization of a novel 124 nt sRNA Ncl1460 involved in tolerance to biofuel 1-butanol in Synechocystis sp. PCC 6803. The expression of Ncl1460 was verified by blotting assay and its length was determined through 3' RACE...
2017: Biotechnology for Biofuels
https://www.readbyqxmd.com/read/28238104/microbial-carcinogenic-toxins-and-dietary-anti-cancer-protectants
#3
REVIEW
Trevor W Stone, L Gail Darlington
Several toxins are known which account for the ability of some bacteria to initiate or promote carcinogenesis. These ideas are summarised and evidence is discussed for more specific mechanisms involving chymotrypsin and the bacterial chymotryptic enzyme subtilisin. Subtilisin and Bacillus subtilis are present in the gut and environment and both are used commercially in agriculture, livestock rearing and meat processing. The enzymes deplete cells of tumour suppressors such as deleted in colorectal cancer (DCC) and neogenin, so their potential presence in the food chain might represent an important link between diet and cancer...
February 25, 2017: Cellular and Molecular Life Sciences: CMLS
https://www.readbyqxmd.com/read/28235716/genomic-dissection-of-host-microbe-and-microbe-microbe-interactions-for-advanced-plant-breeding
#4
REVIEW
Samuel Kroll, Matthew T Agler, Eric Kemen
Agriculture faces many emerging challenges to sustainability, including limited nutrient resources, losses from diseases caused by current and emerging pathogens and environmental degradation. Microorganisms have great importance for plant growth and performance, including the potential to increase yields, nutrient uptake and pathogen resistance. An urgent need is therefore to understand and engineer plants and their associated microbial communities. Recent massive genomic sequencing of host plants and associated microbes offers resources to identify novel mechanisms of communal assembly mediated by the host...
February 21, 2017: Current Opinion in Plant Biology
https://www.readbyqxmd.com/read/28235661/hollow-fiber-membrane-bioreactor-affects-microbial-community-and-morphology-of-the-damo-and-anammox-co-culture-system
#5
Liang Fu, Jing Ding, Yong-Ze Lu, Zhao-Wei Ding, Ya-Nan Bai, Raymond J Zeng
Denitrifying anaerobic methane oxidation (DAMO) and Anammox co-culture system was investigated in hollow fiber membrane bioreactor (HfMBR) for the change of microbial community morphology and proportion. NO3(-)-N and NH4(+)-N removal rates reached 85.33 and 37.95mg/L/d on 193d. The inoculum microorganisms were flocs and the proportion of DAMO archaea, DAMO bacteria and Anammox bacteria was 11.0, 24.2 and 0.4%, respectively, but it changed to 74.3, 11.8, 5.6% in HfMBR, respectively. Interestingly, microorganisms formed biofilms on fibers surface and the biofilms included two layers: inner layer was thin and dominated by DAMO bacteria and Anammox bacteria; while the outer layer was thick made up of granules with 100-200μm diameter and dominated by DAMO archaea...
February 14, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28230084/highly-potent-antimicrobial-peptides-from-n-terminal-membrane-binding-region-of-e-coli-mreb
#6
Karabi Saikia, Yalavarthi Durga Sravani, Vibin Ramakrishnan, Nitin Chaudhary
Microbial pathogenesis is a serious health concern. The threat escalates as the existing conventional antimicrobials are losing their efficacy against the evolving pathogens. Peptides hold promise to be developed into next-generation antibiotics. Antimicrobial peptides adopt amphipathic structures that could selectively bind to and disrupt the microbial membranes. Interaction of proteins with membranes is central to all living systems and we reasoned that the membrane-binding domains in microbial proteins could be developed into efficient antimicrobials...
February 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28230078/unravelling-the-metabolic-impact-of-sbs-associated-microbial-dysbiosis-insights-from-the-piglet-short-bowel-syndrome-model
#7
Prue M Pereira-Fantini, Sean G Byars, James Pitt, Susan Lapthorne, Fiona Fouhy, Paul D Cotter, Julie E Bines
Liver disease is a major source of morbidity and mortality in children with short bowel syndrome (SBS). SBS-associated microbial dysbiosis has recently been implicated in the development of SBS-associated liver disease (SBS-ALD), however the pathological implications of this association have not been explored. In this study high-throughput sequencing of colonic content from the well-validated piglet SBS-ALD model was examined to determine alterations in microbial communities, and concurrent metabolic alterations identified in urine samples via targeted mass spectrometry approaches (GC-MS, LC-MS, FIA-MS) further uncovered impacts of microbial disturbance on metabolic outcomes in SBS-ALD...
February 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28230052/unraveling-the-processes-shaping-mammalian-gut-microbiomes-over-evolutionary-time
#8
Mathieu Groussin, Florent Mazel, Jon G Sanders, Chris S Smillie, Sébastien Lavergne, Wilfried Thuiller, Eric J Alm
Whether mammal-microbiome interactions are persistent and specific over evolutionary time is controversial. Here we show that host phylogeny and major dietary shifts have affected the distribution of different gut bacterial lineages and did so on vastly different bacterial phylogenetic resolutions. Diet mostly influences the acquisition of ancient and large microbial lineages. Conversely, correlation with host phylogeny is mostly seen among more recently diverged bacterial lineages, consistent with processes operating at similar timescales to host evolution...
February 23, 2017: Nature Communications
https://www.readbyqxmd.com/read/28229287/role-of-neurochemicals-in-the-interaction-between-the-microbiota-and-the-immune-and-the-nervous-system-of-the-host-organism
#9
Alexander V Oleskin, Boris A Shenderov, Vladimir S Rogovsky
This work is concerned with the role of evolutionary conserved substances, neurotransmitters, and neurohormones, within the complex framework of the microbial consortium-immune system-nervous system axis in the human or animal organism. Although the operation of each of these systems per se is relatively well understood, their combined effects on the host organism still await further research. Drawing on recent research on host-produced and microbial low-molecular-weight neurochemicals such as biogenic amines, amino acids, and short-chain fatty acids (SCFAs), we suggest that these mediators form a part of a universal neurochemical "language...
February 22, 2017: Probiotics and Antimicrobial Proteins
https://www.readbyqxmd.com/read/28228284/respiratory-syncytial-virus-infects-regulatory-b-cells-in-human-neonates-via-chemokine-receptor-cx3cr1-and-promotes-lung-disease-severity
#10
Dania Zhivaki, Sébastien Lemoine, Annick Lim, Ahsen Morva, Pierre-Olivier Vidalain, Liliane Schandene, Nicoletta Casartelli, Marie-Anne Rameix-Welti, Pierre-Louis Hervé, Edith Dériaud, Benoit Beitz, Maryline Ripaux-Lefevre, Jordi Miatello, Brigitte Lemercier, Valerie Lorin, Delphyne Descamps, Jenna Fix, Jean-François Eléouët, Sabine Riffault, Olivier Schwartz, Fabrice Porcheray, Françoise Mascart, Hugo Mouquet, Xiaoming Zhang, Pierre Tissières, Richard Lo-Man
Respiratory syncytial virus (RSV) is the major cause of lower respiratory tract infections in infants and is characterized by pulmonary infiltration of B cells in fatal cases. We analyzed the B cell compartment in human newborns and identified a population of neonatal regulatory B lymphocytes (nBreg cells) that produced interleukin 10 (IL-10) in response to RSV infection. The polyreactive B cell receptor of nBreg cells interacted with RSV protein F and induced upregulation of chemokine receptor CX3CR1. CX3CR1 interacted with RSV glycoprotein G, leading to nBreg cell infection and IL-10 production that dampened T helper 1 (Th1) cytokine production...
February 21, 2017: Immunity
https://www.readbyqxmd.com/read/28225587/compms2miner-an-automatable-metabolite-identification-visualization-and-data-sharing-r-package-for-high-resolution-lc-ms-datasets
#11
William Matthew Bell Edmands, Lauren M Petrick, Dinesh Kumar Barupal, Augustin Scalbert, Mark Wilson, Jeffrey Wickliffe, Stephen M Rappaport
A long-standing challenge of untargeted metabolomic profiling by ultrahigh performance liquid chromatography-high resolution mass spectrometry (UHPLC-HRMS) is efficient transition from unknown mass spectral features to confident metabolite annotations. The compMS2Miner (Comprehensive MS2 Miner) package was developed in the R language to facilitate rapid, comprehensive feature annotation using a peak-picker-output and MS2 data files as inputs. The number of MS2 spectra that can be collected during a metabolomic profiling experiment far outweigh the amount of time required for pain-staking manual interpretation, therefore a degree of software workflow autonomy is required for broad-scale metabolite annotation...
February 22, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28225132/an-unexpected-use-of-ferrocene-a-scanning-electrochemical-microscopy-study-of-a-toll-like-receptor-array-and-its-interaction-with-e-coli
#12
Zhe She, Kristin Topping, Bin Dong, Mohtashim H Shamsi, Heinz-Bernhard Kraatz
Imaging of toll-like receptor microarrays was achieved using scanning electrochemical microscopy with the successful integration of two ferrocene derivatives in order to enhance the background contrast. This investigation has resulted in the novel fabrication of a tuneable, multiplex, broad-spectrum bacterial sensor for the interrogation of conserved microbial stimuli.
February 22, 2017: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/28223966/geological-and-geochemical-controls-on-subsurface-microbial-life-in-the-samail-ophiolite-oman
#13
Kaitlin R Rempfert, Hannah M Miller, Nicolas Bompard, Daniel Nothaft, Juerg M Matter, Peter Kelemen, Noah Fierer, Alexis S Templeton
Microbial abundance and diversity in deep subsurface environments is dependent upon the availability of energy and carbon. However, supplies of oxidants and reductants capable of sustaining life within mafic and ultramafic continental aquifers undergoing low-temperature water-rock reaction are relatively unknown. We conducted an extensive analysis of the geochemistry and microbial communities recovered from fluids sampled from boreholes hosted in peridotite and gabbro in the Tayin block of the Samail Ophiolite in the Sultanate of Oman...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28223076/leaching-of-rare-earth-elements-from-fluorescent-powder-using-the-tea-fungus-kombucha
#14
Stefanie Hopfe, Katrin Flemming, Falk Lehmann, Robert Möckel, Sabine Kutschke, Katrin Pollmann
In most modern technologies such as flat screens, highly effective magnets and lasers, as well as luminescence phosphors, Rare Earth Elements (REE) are used. Unfortunately no environmentally friendly recycling process exists so far. In comparison to other elements the interaction of microorganisms with REE has been studied to a less extent. However, as REE are ubiquitously present in nature it can be assumed that microorganisms play an important role in the biogeochemistry of REE. This study investigates the potential of organic acid-producing microbes for extracting REE from industrial waste...
February 17, 2017: Waste Management
https://www.readbyqxmd.com/read/28222236/differential-sharing-and-distinct-co-occurrence-networks-among-spatially-close-bacterial-microbiota-of-bark-mosses-and-lichens%C3%A2-%C3%A2
#15
Ines Aline Aschenbrenner, Tomislav Cernava, Armin Erlacher, Gabriele Berg, Martin Grube
Knowledge of bacterial community host-specificity has increased greatly in recent years. However, the inter-microbiome relationships of unrelated but spatially close organisms remain little understood. Trunks of trees covered by epiphytes represent complex habitats with a mosaic of ecological niches. In this context, we investigated the structure, diversity and interactions of microbiota associated with lichens, mosses and the bare tree bark. Comparative analysis revealed significant differences in the habitat-associated community structures...
February 21, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28222117/two-dynamic-regimes-in-the-human-gut-microbiome
#16
Sean M Gibbons, Sean M Kearney, Chris S Smillie, Eric J Alm
The gut microbiome is a dynamic system that changes with host development, health, behavior, diet, and microbe-microbe interactions. Prior work on gut microbial time series has largely focused on autoregressive models (e.g. Lotka-Volterra). However, we show that most of the variance in microbial time series is non-autoregressive. In addition, we show how community state-clustering is flawed when it comes to characterizing within-host dynamics and that more continuous methods are required. Most organisms exhibited stable, mean-reverting behavior suggestive of fixed carrying capacities and abundant taxa were largely shared across individuals...
February 21, 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28221922/contribution-of-selective-conditions-to-microbial-competition-in-four-listeria-selective-enrichment-formulations
#17
Ashley L Keys, Anthony D Hitchins, R Derike Smiley
Microbial competition during selective enrichment negatively affects Listeria monocytogenes populations and may hinder the subsequent detection or recovery of this organism. Competition assays among 10 selected strains of Listeria and Citrobacter braakii were performed in buffered Listeria enrichment broth, 3-(N-morpholino)propanesulfonic acid-buffered Listeria enrichment broth, University of Vermont medium-modified Listeria enrichment broth, and Fraser broth. The individual contributions of each selective agent in these media were also assessed, as well as the contribution of incubation temperature...
November 2016: Journal of Food Protection
https://www.readbyqxmd.com/read/28221910/influence-of-thawing-methods-and-storage-temperatures-on-bacterial-diversity-growth-kinetics-and-biogenic-amine-development-in-atlantic-mackerel
#18
S Onyango, H Palmadottir, T Tómason, V T Marteinsson, P M K Njage, E Reynisson
Limited knowledge is currently available on the influence of fish thawing and subsequent storage conditions on bacterial growth kinetics, succession, and diversity alongside the production of biogenic amines. This study aimed to address these factors during the thawing and subsequent storage of mackerel. Thawing was either done fast in 18°C water for 2 h or slowly at 30°C overnight. Subsequent storage was at 30°C (ambient) for 36 h and 2 to 5°C (refrigerated) for 12 days. The cultivation methods used were total viable counts, hydrogen sulfide-producing bacteria, and Pseudomonas ...
November 2016: Journal of Food Protection
https://www.readbyqxmd.com/read/28220417/steady-state-and-kinetics-based-affinity-determination-in-effector-effector-target-interactions
#19
André Reinhard, Thorsten Nürnberger
Dissecting the functional basis of pathogenicity and resistance in the context of plant innate immunity benefits greatly from detailed knowledge about biomolecular interactions, as both resistance and virulence depend on specific interactions between pathogen and host biomolecules. While in vivo systems provide biological context to host-pathogen interactions, these experiments typically cannot provide quantitative biochemical characterization of biomolecular interactions. However, in many cases, the biological function does not only depend on whether an interaction occurs at all, but rather on the "intensity" of the interaction, as quantified by affinity...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28220138/de-novo-transcriptome-assembly-of-phomopsis-liquidambari-provides-insights-into-genes-associated-with-different-lifestyles-in-rice-oryza-sativa-l
#20
Jun Zhou, Xin Li, Yan Chen, Chuan-Chao Dai
The mechanisms that trigger the switch from endophytic fungi to saprophytic fungi are largely unexplored. Broad host range Phomopsis liquidambari is established in endophytic and saprophytic systems with rice (Oryza sativa L.). Endophytic P. liquidambari promotes rice growth, increasing rice yield and improving the efficiency of nitrogen fertilizer. This species's saprophytic counterpart can decompose rice litterfall, promoting litter organic matter cycling and the release of nutrients and improving the soil microbial environment...
2017: Frontiers in Plant Science
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