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https://www.readbyqxmd.com/read/28542229/thermodynamic-framework-to-assess-low-abundance-dna-mutation-detection-by-hybridization
#1
Hanny Willems, An Jacobs, Wahyu Wijaya Hadiwikarta, Tom Venken, Dirk Valkenborg, Nadine Van Roy, Jo Vandesompele, Jef Hooyberghs
The knowledge of genomic DNA variations in patient samples has a high and increasing value for human diagnostics in its broadest sense. Although many methods and sensors to detect or quantify these variations are available or under development, the number of underlying physico-chemical detection principles is limited. One of these principles is the hybridization of sample target DNA versus nucleic acid probes. We introduce a novel thermodynamics approach and develop a framework to exploit the specific detection capabilities of nucleic acid hybridization, using generic principles applicable to any platform...
2017: PloS One
https://www.readbyqxmd.com/read/28541928/temperature-probing-and-emission-color-tuning-by-morphology-and-size-control-of-upconverting-%C3%AE-nayb0-67gd0-30f4-tm0-015-ho0-015-nanoparticles
#2
Emille M Rodrigues, Diogo A Gálico, Italo O Mazali, Fernando A Sigoli
The chemical composition, shape and size of upconverting nanoparticles are known to have a great influence on their spectroscopic properties, such as the emission color and the emission intensity variation as a function of temperature. This work shows the color tuning and the thermal sensitivity of NaYb0.67Gd0.30F4:Tm0.015:Ho0.015 nanoparticles synthesized by two different approaches of the same synthetic method showing the influence of size and morphology, 250 nm hexagonal-plated and 30 nm spheroidal nanoparticles, on the visible upconversion color under NIR irradiation...
May 25, 2017: Methods and Applications in Fluorescence
https://www.readbyqxmd.com/read/28541225/stability-of-enzymatic-biosensors-for-wearable-applications
#3
Apurva Sonawane, Pandiaraj Manickam, Shekhar Bhansali
Technological evolution in wearable sensors is accounting for major growth and transformation in multitude of industries ranging from healthcare to computing & informatics to communication and biomedical sciences. The major driver for this transformation is the new-found ability to continuously monitor and analyze the patients' physiology in patients' natural setting. Numerous wearable sensors are already on the market and are summarized. Most of the current technologies have focused on electro-physiological, electro-mechanical or acoustic measurements...
May 19, 2017: IEEE Reviews in Biomedical Engineering
https://www.readbyqxmd.com/read/28540729/dye-bio-mof-1-composite-as-a-dual-emitting-platform-for-enhanced-detection-of-a-wide-range-of-explosive-molecules
#4
Chen Wang, Li Tian, Wei Zhu, Shiqiang Wang, Peng Wang, Yun Liang, Wanlin Zhang, Hongwei Zhao, Guangtao Li
By incorporating a cationic dye within metal-organic framework (MOF) through ion-exchange process, a responsive dye@bio-MOF-1 composite has been synthesized, serving as a dual-emitting platform for enhanced detection of different kinds of nitro-explosives, especially the nitroalkanes, nitramines and nitrate esters. The dye@bio-MOF-1 composite was constructed with free amines on their well-defined cavities, which is essential for the capture of explosives into their confined nanospace. It was observed that the encapsulation of explosives into the constructed dye@bio-MOF-1 composite could dramatically alter the luminescent properties of the dyes as well as the MOF skeletons owing to the size exclusivity and confinement-induced effect...
May 25, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28538655/thermochemical-humidity-detection-in-harsh-or-non-steady-environments
#5
Devon Bridgeman, Francis Tsow, Xiaojun Xian, Qinan Chang, Yongming Liu, Erica Forzani
We present a new method of chemical quantification utilizing thermal analysis for the detection of relative humidity. By measuring the temperature change of a hydrophilically-modified temperature sensing element vs. a hydrophobically-modified reference element, the total heat from chemical interactions in the sensing element can be measured and used to calculate a change in relative humidity. We have probed the concept by assuming constant temperature streams, and having constant reference humidity (~0% in this case)...
May 24, 2017: Sensors
https://www.readbyqxmd.com/read/28537636/electromagnetic-field-coupling-characteristics-in-graphene-plasmonic-oligomers-from-isolated-to-collective-modes
#6
Junbo Ren, Weibin Qiu, Houbo Chen, Pingping Qiu, Zhili Lin, Jia-Xian Wang, Qiang Kan, Jiao-Qing Pan
In this paper, we propose a plasmonic tetramer composed of coupled graphene nanodisks. The transformation from the isolated to the collective modes of the proposed structure is investigated by analysing the whispering-gallery modes and extinction spectra with various inter-nanodisk gap distances. In addition, the effect of introducing a central nanodisk into the tetramer on the extinction spectra is explored, which leads to Fano resonance. Furthermore, the refractive index sensing properties of the proposed graphene plasmonic oligomer have been demonstrated...
May 24, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28536196/physicochemical-code-for-quinary-protein-interactions-in-escherichia-coli
#7
Xin Mu, Seongil Choi, Lisa Lang, David Mowray, Nikolay V Dokholyan, Jens Danielsson, Mikael Oliveberg
How proteins sense and navigate the cellular interior to find their functional partners remains poorly understood. An intriguing aspect of this search is that it relies on diffusive encounters with the crowded cellular background, made up of protein surfaces that are largely nonconserved. The question is then if/how this protein search is amenable to selection and biological control. To shed light on this issue, we examined the motions of three evolutionary divergent proteins in the Escherichia coli cytoplasm by in-cell NMR...
May 23, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28535882/versatile-fabrication-of-paper-based-microfluidic-devices-with-high-chemical-resistance-using-scholar-glue-and-magnetic-masks
#8
Thiago M G Cardoso, Fabrício R de Souza, Paulo T Garcia, Denilson Rabelo, Charles S Henry, Wendell K T Coltro
Simple methods have been developed for fabricating microfluidic paper-based analytical devices (μPADs) but few of these devices can be used with organic solvents and/or aqueous solutions containing surfactants. This study describes a simple fabrication strategy for μPADs that uses readily available scholar glue to create the hydrophobic flow barriers that are resistant to surfactants and organic solvents. Microfluidic structures were defined by magnetic masks designed with either neodymium magnets or magnetic sheets to define the patter, and structures were created by spraying an aqueous solution of glue on the paper surface...
June 29, 2017: Analytica Chimica Acta
https://www.readbyqxmd.com/read/28535807/identification-of-putative-olfactory-g-protein-coupled-receptors-in-crown-of-thorns-starfish-acanthaster-planci
#9
Rebecca E Roberts, Cherie A Motti, Kenneth W Baughman, Noriyuki Satoh, Michael R Hall, Scott F Cummins
BACKGROUND: In marine organisms, and in particular for benthic invertebrates including echinoderms, olfaction is a dominant sense with chemosensation being a critical signalling process. Until recently natural product chemistry was the primary investigative approach to elucidate the nature of chemical signals but advances in genomics and transcriptomics over the last decade have facilitated breakthroughs in understanding not only the chemistry but also the molecular mechanisms underpinning chemosensation in aquatic environments...
May 23, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28534901/realisation-and-optical-engineering-of-linear-variable-bandpass-filters-in-nanoporous-anodic-alumina-photonic-crystals
#10
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/28534897/seed-mediated-co-reduction-in-a-large-lattice-mismatch-system-synthesis-of-pd-cu-nanostructures
#11
Meredith R Kunz, Sophia M McClain, Dennis P Chen, Kallum M Koczkur, Rebecca G Weiner, Sara E Skrabalak
Metal nanoparticles (NPs) are of interest for applications in catalysis, electronics, chemical sensing, and more. Their utility is dictated by their composition and physical parameters such as particle size, particle shape, and overall architecture (e.g., hollow vs. solid). Interestingly, the addition of a second metal to create bimetallic NPs adds multifunctionality, with new emergent properties common. However, synthesizing structurally defined bimetallic NPs remains a great challenge. One synthetic pathway to architecturally controlled bimetallic NPs is seed-mediated co-reduction (SMCR) in which two metal precursors are simultaneously co-reduced to deposit metal onto shape-controlled metal seeds, which direct the overgrowth...
May 23, 2017: Nanoscale
https://www.readbyqxmd.com/read/28532026/high-performance-hydrogen-sensor-based-on-mn-implanted-zno-nanowires-array-fabricated-on-ito-substrate
#12
A Renitta, K Vijayalakshmi
In the present research, we propose a novel approach for the detection of hydrogen gas using Mn implanted ZnO nanowires fabricated onto ITO coated glass substrate by chemical spray pyrolysis deposition. The effect of Mn concentration on the structural, optical and morphological properties of ZnO films were investigated. X-ray diffraction studies showed that the Mn implanted ZnO films were grown as a polycrystalline hexagonal wurtzite phase without any impurities. The (101) peak position of ZnO-Mn films was shifted towards a lower angle with increasing Mn concentration...
August 1, 2017: Materials Science & Engineering. C, Materials for Biological Applications
https://www.readbyqxmd.com/read/28528123/quantitative-biology-of-hydrogen-peroxide-signaling
#13
REVIEW
Fernando Antunes, Paula Matos Brito
Hydrogen peroxide (H2O2) controls signaling pathways in cells by oxidative modulation of the activity of redox sensitive proteins denominated redox switches. Here, quantitative biology concepts are applied to review how H2O2 fulfills a key role in information transmission. Equations described lay the foundation of H2O2 signaling, give new insights on H2O2 signaling mechanisms, and help to learn new information from common redox signaling experiments. A key characteristic of H2O2 signaling is that the ratio between reduction and oxidation of redox switches determines the range of H2O2 concentrations to which they respond...
May 8, 2017: Redox Biology
https://www.readbyqxmd.com/read/28527323/revealing-the-ability-of-a-novel-polysaccharide-bioflocculant-in-bioremediation-of-heavy-metals-sensed-in-a-vibrio-bioluminescence-reporter-assay
#14
Arya Sajayan, G Seghal Kiran, S Priyadharshini, Navya Poulose, Joseph Selvin
A bioflocculant-producing bacterial strain, designated MSI021, was isolated from the marine sponge Dendrilla nigra and demonstrated 94% flocculation activity in a kaolin clay suspension. MSI021 was identified as Bacillus cereus based on phylogenetic affiliation and biochemical characteristics. The purified extra-cellular bioflocculant was chemically elucidated as a polysaccharide molecule. The polysaccharide bioflocculant was stable under both acidic and alkaline conditions (pH 2.0-10.0) and temperatures up to 100 °C...
May 17, 2017: Environmental Pollution
https://www.readbyqxmd.com/read/28525854/sensitive-sulfide-ion-detection-by-optofluidic-catalytic-laser-using-horseradish-peroxidase-hrp-enzyme
#15
Chaoyang Gong, Yuan Gong, Maung Kyaw Khaing Oo, Yu Wu, Yunjiang Rao, Xiaotian Tan, Xudong Fan
We report an optofluidic catalytic laser for sensitive sulfide ion detection. In the catalytic reaction, horseradish peroxidase (HRP) enzyme is used for catalyzing the non-fluorescent substrate, 10-Acetyl-3,7-dihydroxyphenox-azine (ADHP), to produce highly fluorescent resorufin, which was used as gain medium for lasing. Using sulfide ions as inhibitors, the catalytic reaction slows down, resulting in a delay in the lasing onset time, which is used as the sensing signal. The sensing mechanism of the catalytic laser is theoretically analyzed and the performance is experimentally characterized...
May 12, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28524182/cell-sized-mechanosensitive-and-biosensing-compartment-programmed-with-dna
#16
Sagardip Majumder, Jonathan Garamella, Ying-Lin Wang, Maxwell DeNies, Vincent Noireaux, Allen P Liu
The bottom-up construction of cell-sized compartments programmed with DNA that are capable of sensing the chemical and physical environment remains challenging in synthetic cell engineering. Here, we construct mechanosensitive liposomes with biosensing capability by expressing the E. coli channel MscL and a calcium biosensor using cell-free expression.
May 19, 2017: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/28523911/cup-shaped-nanoantenna-arrays-for-zeptoliter-volume-biochemistry-and-plasmonic-sensing-in-the-visible-wavelengths-range
#17
Rokas Drevinskas, Tomas Rakickas, Algirdas Selskis, Lorenzo Rosa, Ramunas Valiokas
Although three-dimensional shaping of metallic nanostructures is an important strategy for control and manipulation of localized surface plasmon resonance (LSPR), its implementation in high-throughput, on-chip fabrication of plasmonic devices remains to be challenging. Here we demonstrate nanocontact-based large area fabrication of a novel, LSPR-active Au architecture consisting of periodic arrays of reduced symmetry nanoantennas having sub-50 nm, out-of-plane features. Namely, by combining nanosphere and molecular self-assembly processes we have patterned evaporated polycrystalline Au films for chemical etching of nanocups with controlled aspect ratios (an outer diameter d=100 nm, void volumes of 18 or 39 zeptoliters)...
May 19, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28523910/dense-layer-of-bacteriophages-ordered-in-alternating-electric-field-and-immobilized-by-surface-chemical-modification-as-sensing-element-for-bacteria-detection
#18
Łukasz Richter, Krzysztof Bielec, Adam Lesniewski, Marcin Łoś, Jan Paczesny, Robert Holyst
Faster and more sensitive environmental monitoring should be developed to face the worldwide problem of bacterial infections. To remedy this issue we demonstrate bacteria sensing element, which utilizes dense and ordered layers of bacteriophages specific for given bacteria strain. We combine 1) chemical modification of the surface to increase the surface coverage of bacteriophages 2) with alternating electric field to greatly increase the number of properly oriented bacteriophages at the surface. Usually in sensing elements a random orientation of bacteriophages results in steric hindrances, which cause that no more than few percent of all receptors is available...
May 19, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28522561/immediate-and-delayed-potentiating-effects-of-tumor-necrosis-factor-alpha-on-trpv1-sensitivity-of-rat-vagal-pulmonary-sensory-neurons
#19
Chun-Chun Hsu, You Shuei Lin, Ruei-Lung Lin, Lu-Yuan Lee
We studied acute effects of tumor necrosis factor-alpha (TNFα) on the sensitivity of isolated rat vagal pulmonary sensory neurons. Our results showed: 1) A brief pretreatment with a low dose of TNFα (1.44 nM, 9 min) enhanced the sensitivity of transient receptor potential vanilloid type 1 (TRPV1) receptors in these neurons in two distinct phases: the inward current evoked by capsaicin was amplified (∆=247%) immediately following the TNFα pretreatment, which gradually declined toward control and then increased again reaching another peak (∆=384%) after 60-90 min...
May 18, 2017: American Journal of Physiology. Lung Cellular and Molecular Physiology
https://www.readbyqxmd.com/read/28522094/continuous-positive-air-pressure-improves-orthonasal-olfactory-function-of-patients-with-obstructive-sleep-apnea
#20
Ute Walliczek-Dworschak, Werner Cassel, Luisa Mittendorf, Robert Pellegrino, Ulrich Koehler, Christian Güldner, Philipp Otto Georg Dworschak, Olaf Hildebrandt, Hanna Daniel, Thomas Günzel, Afshin Teymoortash, Thomas Hummel
OBJECTIVE: Recent studies have suggested that patients with obstructive sleep apnea (OSA) might be affected by olfactory impairment. However, more evidence is needed on the effect that OSA has on the chemical senses (olfaction and gustatory) of these patients, and whether continuous positive airway pressure (CPAP) treatment might help to reverse possible impairment. METHODS: A prospective study was conducted with 44 OSA patients (17 female and 27 male, mean age 54 ± 9...
June 2017: Sleep Medicine
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