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https://www.readbyqxmd.com/read/29151217/covariance-nmr-processing-and-analysis-for-protein-assignment
#1
Bradley J Harden, Dominique P Frueh
During NMR resonance assignment it is often necessary to relate nuclei to one another indirectly, through their common correlations to other nuclei. Covariance NMR has emerged as a powerful technique to correlate such nuclei without relying on error-prone peak peaking. However, false-positive artifacts in covariance spectra have impeded a general application to proteins. We recently introduced pre- and postprocessing steps to reduce the prevalence of artifacts in covariance spectra, allowing for the calculation of a variety of 4D covariance maps obtained from diverse combinations of pairs of 3D spectra, and we have employed them to assign backbone and sidechain resonances in two large and challenging proteins...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29151213/probing-the-atomic-structure-of-transient-protein-contacts-by-paramagnetic-relaxation-enhancement-solution-nmr
#2
Vincenzo Venditti, Nicolas L Fawzi
Important biological processes, including enzyme catalysis, signaling, and protein folding, proceed through lowly populated (<5%) states that elude structural characterization by conventional techniques. Here, we describe the steps required for visualization of these sparsely populated conformations and transient protein-protein interactions using paramagnetic relaxation enhancement solution NMR. We describe experimental design, sample preparation, data acquisition and processing, and the basics of data analysis of structural ensembles...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29151208/strategies-for-efficient-sample-preparation-for-dynamic-nuclear-polarization-solid-state-nmr-of-biological-macromolecules
#3
Boris Itin, Ivan V Sergeyev
Solid-state NMR (SSNMR) is a powerful tool for the elucidation of structure and dynamics in biological macromolecules. Over the years, SSNMR spectroscopists have developed an array of techniques enabling the measurement of internuclear correlations, distances, and torsional angles; these have been applied to the study of a number of biological systems that are difficult to study by X-ray crystallography and solution NMR, including key biological targets such as membrane proteins and amyloid fibrils. Applications of SSNMR to other topic areas, including materials science, pharmaceuticals, and small molecules, have also flourished in recent years...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29151202/nmr-of-macromolecular-assemblies-and-machines-at-1-ghz-and-beyond-new-transformative-opportunities-for-molecular-structural-biology
#4
Caitlin M Quinn, Mingzhang Wang, Tatyana Polenova
As a result of profound gains in sensitivity and resolution afforded by ultrahigh magnetic fields, transformative applications in the fields of structural biology and materials science are being realized. The development of dual low temperature superconducting (LTS)/high-temperature superconducting (HTS) magnets has enabled the achievement of magnetic fields above 1 GHz (23.5 T), which will open doors to an unprecedented new range of applications. In this contribution, we discuss the promise of ultrahigh field magnetic resonance...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29151190/elucidation-of-functional-chemical-groups-responsible-of-compost-phytotoxicity-using-solid-state-13-c-nmr-spectroscopy-under-different-initial-c-n-ratios
#5
Khalid Azim, Youssef Faissal, Brahim Soudi, Claude Perissol, Sevastianos Roussos, Imane Thami Alami
More than 1 million tons of fresh organic wastes is produced in the Souss-Massa region in Morocco. Tomato organic residues represent more than 25% of the total organic wastes and are deposited in uncontrolled landfills. Thus, composting can represent a valuable and pertinent solution to this environmental problem. The objectives of this experiment are to identify the potential functional groups responsible for compost phytotoxicity and to determine the optimum initial carbon to nitrogen ratio (C/N) for maximum recovery of tomato residues...
November 19, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/29151081/association-between-standard-laboratory-and-functional-tests-of-coagulation-in-dilutional-coagulopathy-an-in-vitro-study
#6
L J Krzych, P F Czempik
Standard laboratory tests (SLTs) of coagulation are in common use in clinical practice. We aimed to determine the association between SLTs and functional tests of coagulation in blood samples diluted with balanced crystalloid and colloid solutions in an ex vivo setting. The study group comprised 32 healthy young male volunteers. Whole blood samples were diluted at a 4:1 ratio with balanced crystalloid (Plasmalyte®) and two balanced colloids, 6% hydroxyethyl starch 130/0.4 (Volulyte®) and succinylated gelatin (Geloplasma®)...
August 2017: Journal of Physiology and Pharmacology: An Official Journal of the Polish Physiological Society
https://www.readbyqxmd.com/read/29150956/sewage-sludge-biochars-management-ecotoxicity-mobility-of-heavy-metals-and-soil-microbial-biomass
#7
Monika Mierzwa-Hersztek, Krzysztof Gondek, Agnieszka Klimkowicz-Pawlas, Agnieszka Baran, Tomasz Bajda
Production of biochar from sewage sludge may be a promising solution for sewage sludge management and improvement of soil properties, including carbon dioxide sequestration. The aim of the study was to compare the effects of biochars derived from different sewage sludges on soil physicochemical and biological properties, ecotoxicity and plant yield. Three biochars (produced at a temperature of 300 °C) were applied into sandy acid soil in doses of 0.5%, 1% and 2% (w/w). Depending on the kind and dose, the application of sewage sludge biochars into the soil caused diverse effects on the parameters of soil biological activity (microbial biomass, soil respiration, and value of metabolic quotient)...
November 18, 2017: Environmental Toxicology and Chemistry
https://www.readbyqxmd.com/read/29150845/effect-of-sorbitol-on-the-pharmacokinetic-profile-of-lamivudine-oral-solution-in-adults-an-open-label-randomized-study
#8
Kimberly Adkison, Allen Wolstenholme, Yu Lou, Zhiping Zhang, Amy Eld, Teodora Perger, Harald Vangerow, Katy Hayward, Mark Shaefer, Cynthia McCoig
In children aged ≤4 years, the relative bioavailability of lamivudine oral solution was 37% lower than that of a tablet formulation. An open-label, 4-way crossover study was conducted in healthy adults to evaluate the effect of sorbitol, a common liquid excipient, on the pharmacokinetics of lamivudine oral solution (ClinicalTrials.gov identifier, NCT02634073). Sixteen subjects were randomized to 1 of 4 sequences consisting of 4 doses of lamivudine 300 mg (10 mg/mL) alone or with sorbitol 3.2, 10.2, or 13...
November 18, 2017: Clinical Pharmacology and Therapeutics
https://www.readbyqxmd.com/read/29150842/the-effect-of-6-hydroxyethyl-starch-130-0-4-on-acute-kidney-injury-in-paediatric-cardiac-surgery-a-prospective-randomised-trial
#9
H-W Oh, J-H Lee, H-C Kim, E-H Kim, I-K Song, H-S Kim, J-T Kim
We have evaluated the effect of a colloid solution on acute kidney injury in paediatric cardiac surgery. A total of 195 patients were ramdomly divided into an hydroxyethyl starch group and a control group. In the starch group, 6% hydroxyethyl starch 130/0.4 (Volulyte(®) ) was used as the primary fluid for volume resuscitation but was limited to 30 ml.kg(-1) . In the control group, only crystalloid fluid was used during the peri-operative period. The incidence of acute kidney injury, peri-operative transfusion, clinical outcomes and laboratory data were compared...
November 17, 2017: Anaesthesia
https://www.readbyqxmd.com/read/29150793/high-efficient-liquid-exfoliation-of-boron-nitride-nanosheets-using-aqueous-solution-of-alkanolamine
#10
Bangwen Zhang, Qian Wu, Huitao Yu, Chaoke Bulin, He Sun, Ruihong Li, Xin Ge, Ruiguang Xing
As one of the simple and efficient routes to access two-dimensional materials, liquid exfoliation has received considerable interest in recent years. Here, we reported on high-efficient liquid exfoliation of hexagonal boron nitride nanosheets (BNNSs) using monoethanolamine (MEA) aqueous solution. The resulting BNNSs were evaluated in terms of the yield and structure characterizations. The results show that the MEA solution can exfoliate BNNSs more efficiently than the currently known solvents and a high yield up to 42% is obtained by ultrasonic exfoliation in MEA-30 wt% H2O solution...
November 17, 2017: Nanoscale Research Letters
https://www.readbyqxmd.com/read/29150641/repurposing-of-the-anti-malaria-drug-chloroquine-for-zika-virus-treatment-and-prophylaxis
#11
Sergey A Shiryaev, Pinar Mesci, Antonella Pinto, Isabella Fernandes, Nicholas Sheets, Sujan Shresta, Chen Farhy, Chun-Teng Huang, Alex Y Strongin, Alysson R Muotri, Alexey V Terskikh
One of the major challenges of the current Zika virus (ZIKV) epidemic is to prevent congenital foetal abnormalities, including microcephaly, following ZIKV infection of pregnant women. Given the urgent need for ZIKV prophylaxis and treatment, repurposing of approved drugs appears to be a viable and immediate solution. We demonstrate that the common anti-malaria drug chloroquine (CQ) extends the lifespan of ZIKV-infected interferon signalling-deficient AG129 mice. However, the severity of ZIKV infection in these mice precludes the study of foetal (vertical) viral transmission...
November 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29150519/biological-containment-of-genetically-modified-bacillus-subtilis
#12
Siamand Hosseini, Alex Curilovs, Simon M Cutting
Genetic manipulation of bacterial spores of the genus Bacillus has shown potential for vaccination and for delivery of drugs or enzymes. Remarkably, proteins displayed on the spore surface retain activity and generally are not degraded. The heat stability of spores coupled with their desiccation resistance makes them suitable for delivery to humans or to animals by the oral route. Despite these attributes one regulatory obstacle has remained regarding the fate of recombinant spores shed into the environment as viable spores...
November 17, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29150502/hyperthermophilic-carbamate-kinase-stability-and-anabolic-in-vitro-activity-at-alkaline-ph
#13
James E Hennessy, Melissa J Latter, Somayeh Fazelinejad, Amy Philbrook, Daniel M Bartkus, Hye-Kyung Kim, Hideki Onagi, John G Oakeshott, Colin Scott, Apostolos Alissandratos, Christopher J Easton
Carbamate kinases catalyze the conversion of carbamate to carbamoyl phosphate, which is readily transformed into other compounds. Carbamate forms spontaneously from ammonia and carbon dioxide in aqueous solutions, so the kinases have potential for sequestrative utilization of the latter compounds. Here, we compare seven carbamate kinases from mesophilic, thermophilic and hyperthermophilic sources. In addition to the known enzymes from Enterococcus faecalis and Pyrococcus furiosus, the previously unreported enzymes from the hyperthermophiles Thermococcus sibiricus and Thermococcus barophilus, the thermophiles Fervidobacterium nodosum and Thermosipho melanesiensis, and the mesophile Clostridium tetani, were all expressed recombinantly, each in high yield...
November 17, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29150435/biochemical-characterization-of-ints3-and-c9orf80-two-subunits-of-hnabp1-2-heterotrimeric-complex-in-nucleic-acid-binding
#14
Venkatasubramanian Vidhyasagar, Yujiong He, Manhong Guo, Tanu Talwar, Ravi Shankar Singh, Manisha Yadav, George Katselis, Franco J Vizeacoumar, Erique Lukong, Yuliang Wu
Human Nucleic Acid Binding Protein 1 and 2 (hNABP1 and hNABP2, also known as hSSB2 and hSSB1) form two separate and independent complexes with two identical proteins, integrator complex subunit 3 (INTS3) and C9ORF80. We and other groups have demonstrated that hNABP1 and 2 are single stranded (ss) DNA and RNA binding proteins, and function in DNA repair; however, the function of INTS3 and C9OFR80 remains elusive. In this study, we purified recombinant proteins INTS3 and C9ORF80 to near homogeneity. Both proteins exist as a monomer in solution, however C9ORF80 exhibits anomalous behavior on SDS-PAGE and gel filtration because of 48% random coil present in the protein...
November 17, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/29150269/potential-role-of-the-virchow-robin-space-in-the-pathogenesis-of-bacterial-meningitis
#15
Patrick Chan, Denis J Meerdink, James A Uchizono
Meningitis is an infectious disease commonly arising from a bacterial etiology. The rapid progression of morbidity and mortality due to bacterial meningitis requires critical and imminent time-dependent clinical intervention. Although it is unambiguously clear that bacteria must infiltrate the cerebrospinal fluid, the sequence of events in the pathogenesis of bacterial meningitis has not been fully elucidated. Most reviews of the pathogenesis of bacterial meningitis do not specify the anatomical location of bacteria following BBB traversal...
November 2017: Medical Hypotheses
https://www.readbyqxmd.com/read/29150254/subcellular-distribution-and-biotransformation-of-phenanthrene-in-pakchoi-after-inoculation-with-endophytic-pseudomonas-sp-as-probed-using-hrms-coupled-with-isotope-labeling
#16
Kai Sun, Mussie Y Habteselassie, Juan Liu, Shunyao Li, Yanzheng Gao
Contamination of food-crops with polycyclic aromatic hydrocarbons (PAHs) poses a grave concern to food safety, especially when PAHs are internalized. We have demonstrated in our previous study that inoculation of crop with a phenanthrene-degrading endophytic Pseudomonas sp. Ph6-gfp could overcome this problem. Here, the subcellular distribution and biotransformation mechanism of phenanthrene in pakchoi (Brassica chinensis L.) seedlings with inoculation of Ph6-gfp were further investigated both in vitro and in vivo...
November 14, 2017: Environmental Pollution
https://www.readbyqxmd.com/read/29150248/cryopreservation-at-75%C3%A2-c-of-agaricus-subrufescens-on-wheat-grains-with-sucrose
#17
Lienine Luiz Zaghi Júnior, Ana Daniela Lopes, Fábio Aparecido Cordeiro, Itaruã Machri Colla, Míria Benetati Delgado Bertéli, Juliana Silveira do Valle, Giani Andrea Linde, Nelson Barros Colauto
Agaricus subrufescens is a basidiomycete which is studied because of its medicinal and gastronomic importance; however, less attention has been paid to its preservation. This study aimed to evaluate the effect of sucrose addition to substrate and cryotube on the viability of Agaricus subrufescens cryopreserved at -20°C and at -75°C for one and two years. Zero, 10% or 20% sucrose was added to potato dextrose agar or wheat grain. The mycelia were cryopreserved in the absence of cryoprotectant or with sucrose solutions at 15%, 30% or 45%...
October 13, 2017: Brazilian Journal of Microbiology: [publication of the Brazilian Society for Microbiology]
https://www.readbyqxmd.com/read/29150176/studies-on-in-vitro-hypoglycemic-effects-of-root-bark-of-caesalpinia-bonducella
#18
F J Sayyed, G H Wadkar
OBJECTIVE: The present investigation was undertaken to assess the hypoglycemic potential of ethanolic (ECB) and aqueous extracts (ACB) of root bark of Caesalpinia bonducella using various in vitro techniques. METHOD: The ethanolic and aqueous extracts of root bark of C. bonducella were studied for their effects on glucose adsorption capacity, in vitro glucose diffusion, in-vitro amylolysis kinetics and glucose transport across membrane of yeast cells. RESULT: It was observed that the extracts under study adsorbed glucose and the adsorption of glucose increased remarkably with an increase in glucose concentration...
November 14, 2017: Annales Pharmaceutiques Françaises
https://www.readbyqxmd.com/read/29150150/biocompatible-hollow-polymeric-particles-produced-by-a-mild-solvent-and-template-free-strategy
#19
Eustolia Rodríguez-Velázquez, Pablo Taboada, Manuel Alatorre-Meda
Macroscopic hollow polymeric particles are attractive materials for various applications such as surgery, food industry, agriculture, etc. However, protocols reporting their synthesis have hitherto made use of organic solvents and/or sacrificial templates, compromising the encapsulation of different bioactive compounds and the process yield. Here, millimeter-size, hollow polymeric particles were synthesized, for the first time, in a solvent- and template free manner onto superhydrophobic surfaces (SHS). The particles were produced upon assembly and double superficial crosslinking of liquid droplets of DNA and methacrylamide chitosan aqueous solutions (CH:MA), leading to liquid-core particles with a hardened hydrogel shell...
November 14, 2017: Colloids and Surfaces. B, Biointerfaces
https://www.readbyqxmd.com/read/29150138/new-hybrid-adsorbent-based-on-porphyrin-functionalized-silica-for-heavy-metals-removal-synthesis-characterization-isotherms-kinetics-and-thermodynamics-studies
#20
Smaail Radi, Chahrazad El Abiad, Nuno M M Moura, Maria A F Faustino, M Graça P M S Neves
The pollution of water resources due to the disposal of toxic heavy metals has been a growing global concern for the last decades. For this purpose, the search for effective and economic material based adsorbents is required, due to the efficiency of the process. In this work, a novel inorganic-organic hybrid material based on silica chemically modified with a porphyrin (SiNTPP), with a high metal removal efficiency, was developed. The new material was characterized using a set of suitable techniques such as (13)C NMR of the solid state, elemental analysis, FTIR, nitrogen adsorption-desorption isotherm, BET surface area, BJH pore sizes and scanning electron microscopy (SEM)...
November 7, 2017: Journal of Hazardous Materials
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