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https://www.readbyqxmd.com/read/29192905/microbial-life-on-a-sand-grain-from-bulk-sediment-to-single-grains
#1
David Probandt, Thilo Eickhorst, Andreas Ellrott, Rudolf Amann, Katrin Knittel
Globally, marine surface sediments constitute a habitat for estimated 1.7 × 1028 prokaryotes. For benthic microbial community analysis, usually, several grams of sediment are processed. In this study, we made the step from bulk sediments to single sand grains to address the microbial community directly in its micro-habitat: the individual bacterial diversity on 17 sand grains was analyzed by 16S ribosomal RNA gene sequencing and visualized on sand grains using catalyzed reporter deposition fluorescence in situ hybridization...
December 1, 2017: ISME Journal
https://www.readbyqxmd.com/read/29192904/specific-substrate-driven-changes-in-human-faecal-microbiota-composition-contrast-with-functional-redundancy-in-short-chain-fatty-acid-production
#2
Nicole Reichardt, Maren Vollmer, Grietje Holtrop, Freda M Farquharson, Daniel Wefers, Mirko Bunzel, Sylvia H Duncan, Janice E Drew, Lynda M Williams, Graeme Milligan, Thomas Preston, Douglas Morrison, Harry J Flint, Petra Louis
The diet provides carbohydrates that are non-digestible in the upper gut and are major carbon and energy sources for the microbial community in the lower intestine, supporting a complex metabolic network. Fermentation produces the short-chain fatty acids (SCFAs) acetate, propionate and butyrate, which have health-promoting effects for the human host. Here we investigated microbial community changes and SCFA production during in vitro batch incubations of 15 different non-digestible carbohydrates, at two initial pH values with faecal microbiota from three different human donors...
December 1, 2017: ISME Journal
https://www.readbyqxmd.com/read/29192903/rare-symbionts-may-contribute-to-the-resilience-of-coral-algal-assemblages
#3
Maren Ziegler, Víctor M Eguíluz, Carlos M Duarte, Christian R Voolstra
The association between corals and photosynthetic dinoflagellates (Symbiodinium spp.) is the key to the success of reef ecosystems in highly oligotrophic environments, but it is also their Achilles' heel due to its vulnerability to local stressors and the effects of climate change. Research during the last two decades has shaped a view that coral host-Symbiodinium pairings are diverse, but largely exclusive. Deep sequencing has now revealed the existence of a rare diversity of cryptic Symbiodinium assemblages within the coral holobiont, in addition to one or a few abundant algal members...
December 1, 2017: ISME Journal
https://www.readbyqxmd.com/read/29171840/what-intrinsic-and-extrinsic-factors-explain-the-stoichiometric-diversity-of-aquatic-heterotrophic-bacteria
#4
Casey M Godwin, James B Cotner
The elemental content of microbial communities is dependent upon the physiology of constituent populations, yet ecological stoichiometry has made slow progress toward identifying predictors of how species and strains change the elemental content of their biomass in response to the stoichiometry of elements in resources. We asked whether the elemental content of aquatic bacteria, especially flexibility in elemental content, could be predicted by their phylogeny, maximum growth rate or lake productivity. We examined 137 isolates using chemostats and found that strains differed substantially in how the carbon:nitrogen:phosphorus ratios (C:N:P) in their biomass responded to P-sufficient and P-limiting conditions...
November 24, 2017: ISME Journal
https://www.readbyqxmd.com/read/29161766/identification-of-alpha-gal-sensitivity-in-patients-with-a-diagnosis-of-idiopathic-anaphylaxis
#5
Melody C Carter, Karina N Ruiz-Esteves, Lisa Workman, Philip Lieberman, Thomas A E Platts-Mills, Dean D Metcalfe
IgE antibodies (Ab) specific to galactose-α-1,3-galactose (alpha-gal) are responsible for a delayed form of anaphylaxis that occurs 3 to 6 hours after red meat ingestion. In a unique prospective study of seventy participants referred with a diagnosis of idiopathic anaphylaxis (IA), six (9%) were found to have IgE to alpha-gal. Upon institution of a diet free of red meat, all patients had no further episodes of anaphylaxis. Two of these individuals had indolent systemic mastocytosis (ISM). Those with ISM had more severe clinical reactions but lower specific IgE to alpha-gal and higher serum tryptase levels, reflective of the mast cell burden...
November 21, 2017: Allergy
https://www.readbyqxmd.com/read/29160864/clonal-expansion-behind-a-marine-diatom-bloom
#6
Maria Valeria Ruggiero, Domenico D'Alelio, Maria Immacolata Ferrante, Mariano Santoro, Laura Vitale, Gabriele Procaccini, Marina Montresor
Genetic diversity is what selection acts on, thus shaping the adaptive potential of populations. We studied micro-evolutionary patterns of the key planktonic diatom Pseudo-nitzschia multistriata at a long-term sampling site over 2 consecutive years by genotyping isolates with 22 microsatellite markers. We show that both sex and vegetative growth interplay in shaping intraspecific diversity. We document a brief but massive demographic and clonal expansion driven by strains of the same mating type. The analysis of an extended data set (6 years) indicates that the genetic fingerprint of P...
November 21, 2017: ISME Journal
https://www.readbyqxmd.com/read/29156275/agricultural-susceptibility-to-monsoon-variability-a-district-level-analysis-of-maharashtra-india
#7
Deepika Swami, Prashant Dave, Devanathan Parthasarathy
Indian Summer Monsoon (ISM) variability has always been a feature affecting Indian agriculture. However, nature of this variability is varying in the backdrop of climate change, and as a consequence, agriculture is getting significantly affected and subsequently threatening food security. To address the climate variability, most of the studies conducted so far have focused on a coarse scale such as Central India or Western Ghats. However, finer scale analysis for identification and quantification of the link between agriculture vulnerability and climate variables has not yet been attempted in a comprehensive manner...
November 17, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/29151610/photochemistry-of-coronene-in-cosmic-water-ice-analogs-at-different-concentrations
#8
A L F de Barros, A L Mattioda, A Ricca, G Cruz, L J Allamandola
This work presents the photochemistry of ultraviolet (UV) irradiated coronene in water ices at 15 K, studied using mid-infrared Fourier transform (FTIR) spectroscopy for C24H12:H2O at concentrations of (1:50), (1:150), (1:200), (1:300) and (1:400). Previous UV irradiation studies of anthracene:H2O, pyrene:H2O and benzo[ghi]perylene:H2O ices at 15 K have shown that aromatic alcohols and ketones, as well as CO2 and H2CO are formed at very low temperatures. Like-wise, here, in addition to the coronene cation, hydroxy-, keto-, and protonated coronene (coronene-H(+)) are formed...
October 20, 2017: Astrophysical Journal
https://www.readbyqxmd.com/read/29151608/the-eso-diffuse-interstellar-bands-large-exploration-survey-edibles-i-project-description-survey-sample-and-quality-assessment
#9
Nick L J Cox, Jan Cami, Amin Farhang, Jonathan Smoker, Ana Monreal-Ibero, Rosine Lallement, Peter J Sarre, Charlotte C M Marshall, Keith T Smith, Christopher J Evans, Pierre Royer, Harold Linnartz, Martin A Cordiner, Christine Joblin, Jacco Th van Loon, Bernard H Foing, Neil H Bhatt, Emeric Bron, Meriem Elyajouri, Alex de Koter, Pascale Ehrenfreund, Atefeh Javadi, Lex Kaper, Habib G Khosroshadi, Mike Laverick, Franck Le Petit, Giacomo Mulas, Evelyne Roueff, Farid Salama, Marco Spaans
The carriers of the diffuse interstellar bands (DIBs) are largely unidentified molecules ubiquitously present in the interstellar medium (ISM). After decades of study, two strong and possibly three weak near-infrared DIBs have recently been attributed to the [Formula: see text] fullerene based on observational and laboratory measurements. There is great promise for the identification of the over 400 other known DIBs, as this result could provide chemical hints towards other possible carriers. In an effort to systematically study the properties of the DIB carriers, we have initiated a new large-scale observational survey: the ESO Diffuse Interstellar Bands Large Exploration Survey (EDIBLES)...
October 2017: Astronomy and Astrophysics
https://www.readbyqxmd.com/read/29151159/enhanced-catalytic-efficiency-and-enantioselectivity-of-epoxide-hydrolase-from-agrobacterium-radiobacter-ad1-by-iterative-saturation-mutagenesis-for-r-epichlorohydrin-synthesis
#10
Shu-Ping Zou, Yu-Guo Zheng, Qun Wu, Zhi-Cai Wang, Ya-Ping Xue, Zhi-Qiang Liu
Enantioselective hydrolysis of epoxides by epoxide hydrolase (EH) is one of the most attractive approaches for the synthesis of chiral epoxides. So far, attempts to develop an efficient epoxide hydrolase -mediated biotransformation have been limited by either the low activity or insufficient enantioselectivity of epoxide hydrolase. In this study, iterative saturation mutagenesis (ISM) of epoxide hydrolase from Agrobacterium radiobacter AD1 (ArEH) was performed for efficient production of (R)-epichlorohydrin...
November 18, 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/29135971/build-your-own-soil-exploring-microfluidics-to-create-microbial-habitat-structures
#11
Kristin Aleklett, E Toby Kiers, Pelle Ohlsson, Thomas S Shimizu, Victor Ea Caldas, Edith C Hammer
Soil is likely the most complex ecosystem on earth. Despite the global importance and extraordinary diversity of soils, they have been notoriously challenging to study. We show how pioneering microfluidic techniques provide new ways of studying soil microbial ecology by allowing simulation and manipulation of chemical conditions and physical structures at the microscale in soil model habitats.The ISME Journal advance online publication, 14 November 2017; doi:10.1038/ismej.2017.184.
November 14, 2017: ISME Journal
https://www.readbyqxmd.com/read/29135970/metabolic-shift-at-the-class-level-sheds-light-on-adaptation-of-methanogens-to-oxidative-environments
#12
Zhe Lyu, Yahai Lu
Methanogens have long been considered strictly anaerobic and oxygen-sensitive microorganisms, but their ability to survive oxygen stress has also been documented. Indeed, methanogens have been found in oxidative environments, and antioxidant genes have been detected in their genomes. How methanogens adapt to oxidative environments, however, remain poorly understood. Here, we systematically predicted and annotated antioxidant features from representative genomes across six well-established methanogen orders...
November 14, 2017: ISME Journal
https://www.readbyqxmd.com/read/29130465/manipulating-the-stereoselectivity-of-the-thermostable-baeyer-villiger-monooxygenase-tmchmo-by-directed-evolution
#13
Guangyue Li, Maximilian J L J Fürst, Hamid Reza Mansouri, Anna K Ressmann, Adriana Ilie, Florian Rudroff, Marko D Mihovilovic, Marco W Fraaije, Manfred T Reetz
Baeyer-Villiger monooxygenases (BVMOs) and evolved mutants have been shown to be excellent biocatalysts in many stereoselective Baeyer-Villiger transformations, but industrial applications are rare which is partly due to the insufficient thermostability of BVMOs under operating conditions. In the present study, the substrate scope of the recently discovered thermally stable BVMO, TmCHMO from Thermocrispum municipale, was studied. This revealed that the wild-type (WT) enzyme catalyzes the oxidation of a variety of structurally different ketones with notable activity and enantioselectivity, including the desymmetrization of 4-methylcyclohexanone (99% ee, S)...
November 13, 2017: Organic & Biomolecular Chemistry
https://www.readbyqxmd.com/read/29128728/novel-synthesis-of-cyano-functionalized-mesoporous-silica-nanospheres-msn-from-coal-fly-ash-for-removal-of-toxic-metals-from-wastewater
#14
Bangda Wang, Yuexi Zhou, Lei Li, Hui Xu, Yinglong Sun, Yi Wang
Trace amounts of toxic metals are usually difficult to be purified by conventional chemical precipitation or physical adsorption in wastewater. In this study, in order to realize high-value utilization of coal fly ash for wastewater purification, a novel method was applied to prepare high-performance mesoporous silica materials from coal fly ash. In comparison with a commonly used method, characterizations revealed that the new method obtained mesoporous silica nanospheres with uniformly distributed cyano groups (denoted by MSN), while the common method only obtained irregular sponge-like microstructure (denoted by ISM)...
November 1, 2017: Journal of Hazardous Materials
https://www.readbyqxmd.com/read/29128657/gis-based-optimal-impervious-surface-map-generation-using-various-spatial-data-for-urban-nonpoint-source-management
#15
Cholyoung Lee, Kyehyun Kim, Hyuk Lee
Impervious surfaces are mainly artificial structures such as rooftops, roads, and parking lots that are covered by impenetrable materials. These surfaces are becoming the major causes of nonpoint source (NPS) pollution in urban areas. The rapid progress of urban development is increasing the total amount of impervious surfaces and NPS pollution. Therefore, many cities worldwide have adopted a stormwater utility fee (SUF) that generates funds needed to manage NPS pollution. The amount of SUF is estimated based on the impervious ratio, which is calculated by dividing the total impervious surface area by the net area of an individual land parcel...
November 9, 2017: Journal of Environmental Management
https://www.readbyqxmd.com/read/29125597/phage-mobility-is-a-core-determinant-of-phage-bacteria-coexistence-in-biofilms
#16
Matthew Simmons, Knut Drescher, Carey D Nadell, Vanni Bucci
Many bacteria are adapted for attaching to surfaces and for building complex communities, termed biofilms. The biofilm mode of life is predominant in bacterial ecology. So too is the exposure of bacteria to ubiquitous viral pathogens, termed bacteriophages. Although biofilm-phage encounters are likely to be common in nature, little is known about how phages might interact with biofilm-dwelling bacteria. It is also unclear how the ecological dynamics of phages and their hosts depend on the biological and physical properties of the biofilm environment...
November 10, 2017: ISME Journal
https://www.readbyqxmd.com/read/29125596/contrasting-the-relative-importance-of-species-sorting-and-dispersal-limitation-in-shaping-marine-bacterial-versus-protist-communities
#17
Wenxue Wu, Hsiao-Pei Lu, Akash Sastri, Yi-Chun Yeh, Gwo-Ching Gong, Wen-Chen Chou, Chih-Hao Hsieh
A central challenge in microbial ecology is to understand the underlying mechanisms driving community assembly, particularly in the continuum of species sorting and dispersal limitation. However, little is known about the relative importance of species sorting and dispersal limitation in shaping marine microbial communities; especially, how they are related to organism types/traits and water depth. Here, we used variation partitioning and null model analysis to compare mechanisms driving bacterial and protist metacommunity dynamics at the basin scale in the East China Sea, based on MiSeq paired-end sequencing of 16S ribosomal DNA (rDNA) and 18S rDNA, respectively, in surface, deep chlorophyll maximum and bottom layers...
November 10, 2017: ISME Journal
https://www.readbyqxmd.com/read/29119977/laboratory-spectroscopy-of-methoxymethanol-in-the-millimeter-wave-range
#18
Roman A Motiyenko, Laurent Margulès, Didier Despois, Jean-Claude Guillemin
Methoxymethanol, CH3OCH2OH is a very interesting candidate for detection in the interstellar medium since it can be formed in the recombination reaction between two radicals considered as intermediates in methanol formation: CH3O (already detected in the ISM) and CH2OH. It could also be formed by the addition of CH3O to formaldehyde (another abundant compound in the ISM) followed by abstraction of a hydrogen radical. In this study, we present the first spectroscopic characterization of methoxymethanol in the millimeter-wave range augmented by high level quantum chemical calculations...
November 9, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/29112001/a-phase-ii-study-to-evaluate-the-pharmacokinetics-safety-and-tolerability-of-risperidone-ism-multiple-intramuscular-injections-once-every-4-weeks-in-patients-with-schizophrenia
#19
Lourdes A Carabias, Jordi Llaudó, Ignacio Ayani, Javier Martínez, Robert E Litman, Ibón Gutierro
This study characterized the pharmacokinetics, safety, and tolerability of Risperidone ISM, a new long-acting intramuscular formulation, for monthly administration without oral supplementation. Patients with schizophrenia received multiple intramuscular injections of 75 mg in the gluteal or deltoid muscle at 28-day intervals. Of the 70 randomized patients, 67 received at least one dose of study medication. The mean Cmax of the active moiety was achieved 24-48 h (tmax) after each administration, regardless of injection site...
November 3, 2017: International Clinical Psychopharmacology
https://www.readbyqxmd.com/read/29109454/8000-year-monsoonal-record-from-himalaya-revealing-reinforcement-of-tropical-and-global-climate-systems-since-mid-holocene
#20
Pradeep Srivastava, Rajesh Agnihotri, Deepti Sharma, Narendra Meena, Y P Sundriyal, Anju Saxena, Ravi Bhushan, R Sawlani, Upasana S Banerji, C Sharma, P Bisht, N Rana, R Jayangondaperumal
We provide the first continuous Indian Summer Monsoon (ISM) climate record for the higher Himalayas (Kedarnath, India) by analyzing a (14)C-dated peat sequence covering the last ~8000 years, with ~50 years temporal resolution. The ISM variability inferred using various proxies reveal striking similarity with the Greenland ice core (GISP2) temperature record and rapid denitrification changes recorded in the sediments off Peru. The Kedarnath record provides compelling evidence for a reorganization of the global climate system taking place at ~5...
November 6, 2017: Scientific Reports
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