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https://www.readbyqxmd.com/read/28546497/complete-genome-sequence-of-the-autotrophic-acetogen-clostridium-formicaceticum-dsm-92-t-using-nanopore-and-illumina-sequencing-data
#1
Michael M Karl, Anja Poehlein, Frank R Bengelsdorf, Rolf Daniel, Peter Dürre
Here, we report the closed genome sequence of Clostridium formicaceticum, an Rnf- and cytochrome-containing autotrophic acetogen that is able to convert carbon monoxide to acetate using the Wood-Ljungdahl pathway. The genome consists of a circular chromosome (4.59 Mb).
May 25, 2017: Genome Announcements
https://www.readbyqxmd.com/read/28541662/in-operando-quantification-of-three-dimensional-water-distribution-in-nanoporous-carbon-based-layers-in-polymer-electrolyte-membrane-fuel-cells
#2
Saad Alrwashdeh, Ingo Manke, Henning Markötter, Merle Klages, Martin Göbel, Jan Haußmann, Joachim Scholta, John Banhart
Understanding the function of nanoporous materials employed in polymer electrolyte membrane fuel cells (PEMFCs) is crucial to improve their performance, durability and cost efficiency. Up to now, the water distribution in the nm-sized pore structures was hardly accessible during operation of the cells. Here we demonstrate that phase contrast synchrotron X-ray tomography allows for an in-operando quantification of the three-dimensional water distribution within the nm-sized pores of carbon-based micro porous layers (MPLs)...
May 25, 2017: ACS Nano
https://www.readbyqxmd.com/read/28540942/comparison-of-high-pressure-and-nanoscale-confinement-effects-on-crystallization-of-the-molecular-glass-forming-liquid-dimethyl-phthalate
#3
K Adrjanowicz, G Szklarz, K Koperwas, M Paluch
High pressure and nanoscopic confinement are two different strategies commonly employed to modify the physicochemical properties of various materials. Both strategies act mostly by changing the molecular packing. In this work, we performed a comparative study on the effect of compression and confined geometry on crystallization of a molecular liquid. Dielectric spectroscopy was employed to investigate the crystallization of the van der Waals liquid, dimethyl phthalate, in nanoporous alumina of different pore sizes as well as on increased pressure (up to 200 MPa)...
May 25, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28540377/lightweight-and-efficient-microwave-absorbing-materials-based-on-walnut-shell-derived-nano-porous-carbon
#4
Xu Qiu, Lixi Wang, Hongli Zhu, Yongkang Guan, Qitu Zhang
Lightweight microwave absorbing materials have drawn tremendous attention. Herein, nano-porous biomass carbon materials have been prepared by carbonization with a subsequent potassium hydroxide activation of walnut shells and the microwave absorption properties have also been investigated. The obtained samples have large specific surface areas with numerous micropores and nanopores. The sample activated at 600 °C with a specific surface area of 736.2 m(2) g(-1) exhibits the most enhanced microwave absorption performance...
May 25, 2017: Nanoscale
https://www.readbyqxmd.com/read/28538739/multiplex-pcr-method-for-minion-and-illumina-sequencing-of-zika-and-other-virus-genomes-directly-from-clinical-samples
#5
Joshua Quick, Nathan D Grubaugh, Steven T Pullan, Ingra M Claro, Andrew D Smith, Karthik Gangavarapu, Glenn Oliveira, Refugio Robles-Sikisaka, Thomas F Rogers, Nathan A Beutler, Dennis R Burton, Lia Laura Lewis-Ximenez, Jaqueline Goes de Jesus, Marta Giovanetti, Sarah C Hill, Allison Black, Trevor Bedford, Miles W Carroll, Marcio Nunes, Luiz Carlos Alcantara, Ester C Sabino, Sally A Baylis, Nuno R Faria, Matthew Loose, Jared T Simpson, Oliver G Pybus, Kristian G Andersen, Nicholas J Loman
Genome sequencing has become a powerful tool for studying emerging infectious diseases; however, genome sequencing directly from clinical samples (i.e., without isolation and culture) remains challenging for viruses such as Zika, for which metagenomic sequencing methods may generate insufficient numbers of viral reads. Here we present a protocol for generating coding-sequence-complete genomes, comprising an online primer design tool, a novel multiplex PCR enrichment protocol, optimized library preparation methods for the portable MinION sequencer (Oxford Nanopore Technologies) and the Illumina range of instruments, and a bioinformatics pipeline for generating consensus sequences...
June 2017: Nature Protocols
https://www.readbyqxmd.com/read/28538092/discriminating-residue-substitutions-in-a-single-protein-molecule-using-a-sub-nanopore
#6
Zhuxin Dong, Eamonn Kennedy, Mohammad Hokmabadi, Gregory Timp
It is now possible to create, in a thin inorganic membrane, a single, sub-nanometer-diameter pore, i.e. a sub-nanopore, about the size of an amino acid residue. To explore the prospects for sequencing protein with it, measurements of the force and current were performed as two denatured histones, which differed by four amino acid residue substitutions, were impelled systematically through the sub-nanopore one-at-a-time using an atomic force microscope. The force measurements revealed that once the denatured protein, stabilized by sodium dodecyl sulfate (SDS), translocated through the sub-nanopore, a disproportionately large force was required to pull it back...
May 24, 2017: ACS Nano
https://www.readbyqxmd.com/read/28535342/diffusion-under-confinement-hydrodynamic-finite-size-effects-in-simulation
#7
Pauline Simonnin, Benoit Noetinger, Carlos Nieto Draghi, Virginie Marry, Benjamin Rotenberg
We investigate finite-size effects on diffusion in confined fluids using molecular dynamics simulations and hydrodynamic calculations. Specifically, we consider a Lennard-Jones fluid in slit pores without slip at the interface and show that the use of periodic boundary conditions in the directions along the surfaces results in dramatic finite-size effects, in addition to that of the physically relevant confining length. As in the simulation of bulk fluids, these effects arise from spurious hydrodynamic interactions between periodic images and from the constraint of total momentum conservation...
May 23, 2017: Journal of Chemical Theory and Computation
https://www.readbyqxmd.com/read/28535052/programming-ionic-pore-accessibility-in-zwitterionic-polymer-modified-nanopores
#8
Laura Silies, Annette Andrieu-Brunsen
Creating switchable and gradually tunable pores or channels that display transport control similar to biological pores remains a major challenge in nanotechnology. It requires the generation and manipulation of complex charge situations at the nanoscale and the understanding of how confinement influences chemistry and transport. Here, two different pore sizes, ∼100 nm and less than 10 nm, functionalized with varying amounts of responsive zwitterionic polycarboxybetaine methyl acrylate (PCBMA) give fascinating insight into the confinement controlled ionic transport of pores functionalized with pH-dependent zwitterionic polymers...
May 23, 2017: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/28534901/realisation-and-optical-engineering-of-linear-variable-bandpass-filters-in-nanoporous-anodic-alumina-photonic-crystals
#9
Sukarno, Cheryl Suwen Law, Abel Santos
We present the first realisation of linear variable bandpass filters in nanoporous anodic alumina (NAA-LVBPFs) photonic crystal structures. NAA gradient-index filters (NAA-GIFs) are produced by sinusoidal pulse anodisation and used as photonic crystal platforms to generate NAA-LVBPFs. The anodisation period of NAA-GIFs is modified from 650 to 850 s to systematically tune the characteristic photonic stopband of these photonic crystals across the UV-visible-NIR spectrum. Then, the nanoporous structure of NAA-GIFs is gradually widened along the surface under controlled conditions by wet chemical etching using a dip coating approach aiming to create NAA-LVBPFs with finely engineered optical properties...
May 23, 2017: Nanoscale
https://www.readbyqxmd.com/read/28534628/exafs-ab-initio-molecular-dynamics-and-nicis-spectroscopy-studies-on-an-organic-dye-model-at-the-dye-sensitized-solar-cell-photoelectrode-interface
#10
Peng Liu, Viktor Johansson, Herri Trilaksana, Jan Rosdahl, Gunther G Andersson, Lars Kloo
The organization of dye molecules in the dye layer adsorbed on the semiconductor substrate in dye-sensitized solar cell has been studied using a combination of theoretical methods and experimental techniques. The model system is based on the simple D--A dye L0, which has been chemically modified to replace the acceptor group -CN by -Br (L0Br) in order to offer better X-ray contrast. Experimental EXAFS data based on the Br K-edge backscattering show no obvious difference between dye-sensitised titania powder and titania film samples, thus allowing model systems to be based on powder slurrys...
May 23, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28534490/quantifying-similarity-of-pore-geometry-in-nanoporous-materials
#11
Yongjin Lee, Senja D Barthel, Paweł Dłotko, S Mohamad Moosavi, Kathryn Hess, Berend Smit
In most applications of nanoporous materials the pore structure is as important as the chemical composition as a determinant of performance. For example, one can alter performance in applications like carbon capture or methane storage by orders of magnitude by only modifying the pore structure. For these applications it is therefore important to identify the optimal pore geometry and use this information to find similar materials. However, the mathematical language and tools to identify materials with similar pore structures, but different composition, has been lacking...
May 23, 2017: Nature Communications
https://www.readbyqxmd.com/read/28532103/sensitive-impedimetric-dna-biosensor-based-on-nb-v-codoped-tio2-for-breast-cancer-susceptible-gene-detection
#12
Yu Wang, Xianwei Huang, He Li, Linlang Guo
In this paper, a novel (Nb,V) codoped TiO2 (NVTO) nanoparticle was synthesized, and a novel electrochemical DNA biosensor based on NVTO was first developed for detection of breast cancer susceptible gene detection. The proposed DNA biosensors were fabricated by immobilization of the probe DNA on a nanoporous CHIT-NVTO thin film deposited on an ITO-coated glass plate. The prepared NVTO composite film was characterized by XRD, SEM and FTIR. The results indicated that the synergistic effect of CHIT-NVTO nanocomposite can increase the electroactive surface area and the loading amounts of ssDNA...
August 1, 2017: Materials Science & Engineering. C, Materials for Biological Applications
https://www.readbyqxmd.com/read/28531878/effect-of-hierarchical-pore-structure-on-alp-expression-of-mc3t3-e1-cells-on-bioglass-films
#13
Cuixia Yu, Junjun Zhuang, Lingqing Dong, Kui Cheng, Wenjian Weng
Hierarchical porous bioglass films on the tantalum were designed to enhance osteointegration of metallic implants. The films were prepared by a sol-gel method using P123 as the mesopore template and polystyrene microsphere as the nanopore template. The films with 5.4nm mesopores and 100nm nanopores (MBG-100) elicited an obviously elongated morphology of the cultured MC3T3-E1 cells, as a result, a higher alkaline phosphatase level was expressed. It is suggested that the nanopores play an important role in regulating cellular behavior by initial protein adsorption through nanopore curvatures...
May 8, 2017: Colloids and Surfaces. B, Biointerfaces
https://www.readbyqxmd.com/read/28530800/label-free-multiplexed-single-molecule-analysis-of-protein-dna-complexes-with-nanopores
#14
Garbiñe Celaya, Judit Perales-Calvo, Arturo Muga, Fernando Moro, David Rodriguez-Larrea
Protein interactions with specific DNA sequences are crucial in the control of gene expression and the regulation of replication. Single-molecule methods offer excellent capabilities to unravel the mechanism and kinetics of these interactions. Here we develop a nanopore approach where a target DNA sequence is contained in a hairpin followed by a ssDNA. This system allows DNA-protein complexes to be distinguished from bare DNA molecules as they are pulled through a single nanopore detector, providing both equilibrium and kinetic information...
May 22, 2017: ACS Nano
https://www.readbyqxmd.com/read/28527338/facile-mass-production-of-nanoporous-sno2-nanosheets-as-anode-materials-for-high-performance-lithium-ion-batteries
#15
Wenli Wei, Pengcheng Du, Dong Liu, Hongxing Wang, Peng Liu
Facile one-step ultrasonic-assisted chemical precipitation strategy has been developed for the mass production of SnO2 nanomaterials with different morphologies. As anode material for lithium-ion batteries, the nanoporous SnO2 nanosheets exhibited an extremely high initial specific capacity of 2231mAh/g in comparison with 1242mAh/g of the SnO2 microcrystals and 1244mAh/g of the nanoporous SnO2 nanoflowers. Meanwhile the nanoporous SnO2 nanosheet electrode displayed a specific capacity of 688mAh/g after 60 cycles at 0...
May 9, 2017: Journal of Colloid and Interface Science
https://www.readbyqxmd.com/read/28524916/facile-fabrication-of-highly-controllable-gating-systems-based-on-the-combination-of-inverse-opal-structure-and-dynamic-covalent-chemistry
#16
Chen Wang, Haowei Yang, Li Tian, Shiqiang Wang, Ning Gao, Wanlin Zhang, Peng Wang, Xianpeng Yin, Guangtao Li
A three-dimensional (3D) inverse opal with periodic and porous structures has shown great potential for applications not only in optics and optoelectronics, but also in functional membranes. In this work, the benzaldehyde group was initially introduced into a 3D nanoporous inverse opal, serving as a platform for fabricating functional membranes. By employing the dynamic covalent approach, a highly controllable gating system was facilely fabricated to achieve modulable and reversible transport features. It was found that the physical/chemical properties and pore size of the gating system could easily be regulated through post-modification with amines...
May 19, 2017: Nanoscale
https://www.readbyqxmd.com/read/28524689/facile-anhydrous-proton-transport-on-hydroxyl-functionalized-graphane
#17
Abhishek Bagusetty, Pabitra Choudhury, Wisssam A Saidi, Bridget Derksen, Elizabeth Gatto, J Karl Johnson
Graphane functionalized with hydroxyl groups is shown to rapidly conduct protons under anhydrous conditions through a contiguous network of hydrogen bonds. Density functional theory calculations predict remarkably low barriers to diffusion of protons along a 1D chain of surface hydroxyls. Diffusion is controlled by the local rotation of hydroxyl groups, a mechanism that is very different from that found in 1D water wires in confined nanopores or in bulk water. The proton mean square displacement in the 1D chain was observed to follow Fickian diffusion rather than the expected single-file mobility...
May 5, 2017: Physical Review Letters
https://www.readbyqxmd.com/read/28524266/single-molecule-and-ensemble-diffusivities-in-individual-nanopores-with-spatially-dependent-mobility
#18
Julia Rybka, Jörg Kärger, Ulrich Tallarek
We investigate single-molecule and ensemble diffusivities in a silica nanopore with chemically modified surface by molecular dynamics simulations. Solutes with graded polarity (nonpolar ethylbenzene and moderately polar benzyl alcohol) are equilibrated with a 40:60 (v/v) water/acetonitrile solvent in a 10 nm pore, whose surface has been rendered hydrophobic by modification with alkyl chains. Simulations enable a detailed sampling of spatially dependent solvent and solute mobilities, which originate in a micro-heterogeneity induced by the surface modification...
May 19, 2017: Chemphyschem: a European Journal of Chemical Physics and Physical Chemistry
https://www.readbyqxmd.com/read/28524241/fabrication-techniques-enabling-ultrathin-nanostructured-membranes-for-separations
#19
REVIEW
Marcela Mireles Ramirez, Thomas R Gaborski
The fabrication of nanostructured materials is an area of continuous improvement and innovative techniques that fulfill the demand of many fields of research and development. The continuously decreasing size of the smallest patternable feature has expanded the catalog of methods enabling the fabrication of nanostructured materials. Several of these nanofabrication techniques have sprouted from applications requiring nanoporous membranes such as molecular separations, cell culture, and plasmonics. This review summarizes methods that successfully produce through-pores in ultrathin films exhibiting an approximate pore size to thickness ratio of one, which has been shown to be beneficial due to high permeability and improved separation potential...
May 19, 2017: Electrophoresis
https://www.readbyqxmd.com/read/28522866/femtosecond-laser-fabrication-of-anatase-tio2-micro-nanostructures-with-chemical-oxidation-and-annealing
#20
Ting Huang, Jinlong Lu, Xin Zhang, Rongshi Xiao, Wuxiong Yang, Qiang Wu
The fabrication of nanoporous anatase TiO2 on a microstructured Ti base is achieved through an innovative hybrid fabrication method involving femtosecond laser ablation coupled with H2O2 oxidation and annealing. The anatase TiO2 micro-nanostructures have superior photocatalytic degradation of methyl orange due to enhanced light harvesting capacity and surface area. The photodegradation efficiency increases by a maximum of 80% compared to the nanoporous anatase TiO2 fabricated through H2O2 oxidation and annealing only (without femtosecond laser ablation)...
May 18, 2017: Scientific Reports
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