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https://www.readbyqxmd.com/read/28742856/fit-for-genomic-and-proteomic-purposes-sampling-the-fitness-of-nucleic-acid-and-protein-derivatives-from-formalin-fixed-paraffin-embedded-tissue
#1
Anna Yakovleva, Jordan L Plieskatt, Sarah Jensen, Razan Humeida, Jonathan Lang, Guangzhao Li, Paige Bracci, Sylvia Silver, Jeffrey Michael Bethony
The demand for nucleic acid and protein derivatives from formalin-fixed paraffin-embedded (FFPE) tissue has greatly increased due to advances in extraction and purification methods, making these derivatives available for numerous genomic and proteomic platforms. Previously, DNA, RNA, microRNA (miRNA), or protein derived from FFPE tissue blocks were considered "unfit" for such platforms, as the process of tissue immobilization by FFPE resulted in cross-linked, fragmented, and chemically modified macromolecules...
2017: PloS One
https://www.readbyqxmd.com/read/28741622/in-vivo-detection-of-cpp-115-target-engagement-in-human-brain
#2
Andrew P Prescot, Steven R Miller, Gary Ingenito, Rebekah S Huber, Douglas G Kondo, Perry F Renshaw
CPP-115, a next-generation γ-amino butyric acid (GABA)-aminotransferase (AT) inhibitor, shows comparable pharmacokinetics, improved safety and tolerability, and a more favorable toxicity profile when compared to vigabatrin. The pharmacodynamic characteristics of CPP-115 remain to be evaluated. The present study employed state-of-the-art proton magnetic resonance spectroscopy techniques to measure changes in brain GABA+ (the composite resonance of GABA, homocarnosine, and macromolecules) concentrations in healthy subjects receiving oral daily doses of CPP-115 or placebo...
July 25, 2017: Neuropsychopharmacology: Official Publication of the American College of Neuropsychopharmacology
https://www.readbyqxmd.com/read/28741346/occurrence-state-and-molecular-structure-analysis-of-extracellular-proteins-with-implications-to-the-dewaterability-of-waste-activated-sludge
#3
Boran Wu, Bing-Jie Ni, Kristine Horvat, Liyan Song, Xiaoli Chai, Xiaohu Dai, Devinder Mahajan
The occurrence state and molecular structure of extracellular proteins were analyzed to reveal the influencing factors on the water-holding capacities of protein-like substances in waste activated sludge (WAS). The gelation process of extracellular proteins verified that advanced oxidation processes (AOPs) for WAS dewaterability improvement eliminated the water affinity of extracellular proteins and prevented these macromolecules to form stable colloidal aggregation. Isobaric tags for relative and absolute quantitation proteomics identified that most of extracellular proteins were originally derived from intracellular part and the proteins originally located at extracellular part were mainly membrane-associated...
July 25, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28737383/alternatives-to-noesy-presat-and-cpmg-presat-for-nmr-based-metabolomics
#4
Adrien Le Guennec, Fariba Tayyari, Arthur S Edison
NMR metabolomics are primarily conducted with 1D NOESY presat for water suppression and CPMG presat as a T2 filter to remove macromolecule signals. Others pulse sequences exist for these two objectives but are not often used in metabolomics studies, because they are less robust or unknown to the NMR metabolomics community. However, recent improvements on alternative pulse sequences provide attractive alternatives to 1D NOESY presat and CPMG presat. We focus this perspective on PURGE, a water suppression technique, and PROJECT presat, a T2 filter...
July 24, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28737000/chemoprofile-and-functional-diversity-of-fungal-and-bacterial-endophytes-and-role-of-ecofactors-a-review
#5
REVIEW
Aiyatullah Shah, Qazi Parvaiz Hassan, Saleem Mushtaq, Aabid Manzoor Shah, Aehtesham Hussain
Endophytes represent a hidden world within plants. Almost all plants that are studied harbor one or more endophytes, which help their host to survive against pathogens and changing adverse environmental conditions. Fungal and bacterial endophytes with distinct ecological niches show important biological activities and ecological functions. Their unique physiological and biochemical characteristics lead to the production of niche specific secondary metabolites that may have pharmacological potential. Identification of specific secondary metabolites in adverse environment can also help us in understanding mechanisms of host tolerance against stress condition such as biological invasions, salt, drought, temperature...
July 24, 2017: Journal of Basic Microbiology
https://www.readbyqxmd.com/read/28736792/double-injected-human-stem-cells-enhance-rehabilitation-in-tbi-mice-via-modulation-of-survival-and-inflammation
#6
Chul Kim, Ji-Min Park, TaeHo Kong, Seungmin Lee, Ki-Weon Seo, Yuri Choi, Young Sook Song, Jisook Moon
Traumatic brain injury (TBI), a complicated form of brain damage, is a major cause of mortality in adults. Following mechanical and structural primary insults, a battery of secondary insults, including neurotransmitter-mediated cytotoxicity, dysregulation of calcium and macromolecule homeostasis, and increased oxidative stress, exacerbate brain injury and functional deficits. Although stem cell therapy is considered to be an alternative treatment for brain injuries, such as TBI and stroke, many obstacles remain...
July 24, 2017: Molecular Neurobiology
https://www.readbyqxmd.com/read/28735891/versatile-nature-of-hetero-chitosan-based-derivatives-as-biodegradable-adsorbent-for-heavy-metal-ions-a-review
#7
REVIEW
Mudasir Ahmad, Kaiser Manzoor, Saiqa Ikram
The polyfunctional chitosan can act as the biological macromolecule ligand not only for the adsorption and the recovery of metal ions from an aqueous media, but also for the fabrication of novel adsorbents which shows selectivity and better adsorption properties. The unmodified chitosan itself, a single cationic polysaccharide, has hydroxyl and amine groups carrying complex properties with the metal ions. In addition, the selectivity of metal ions, the adsorption efficiency and adsorption capacity of the adsorbent can be modified chemically...
July 20, 2017: International Journal of Biological Macromolecules
https://www.readbyqxmd.com/read/28735452/characterization-of-polymeric-substance-classes-in-cereal-based-beverages-using-asymmetrical-flow-field-flow-fractionation-with-a-multi-detection-system
#8
Georg Krebs, Thomas Becker, Martina Gastl
Cereal-based beverages contain a complex mixture of various polymeric macromolecules including polysaccharides, peptides, and polyphenols. The molar mass of polymers and their degradation products affect different technological and especially sensory parameters of beverages. Asymmetrical flow field-flow fractionation (AF4) coupled with multi-angle light scattering (MALS) and refractive index detection (dRI) or UV detection (UV) is a technique for structure and molar mass distribution analysis of macromolecules commonly used for pure compound solutions...
July 22, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28735400/zymographic-method-for-distinguishing-different-classes-of-superoxide-dismutases-in-plants
#9
Ashwini R Jamdhade, Ramanjulu Sunkar, Vandana K Hivrale
In plants, especially in chloroplasts, superoxide radical is generated when an electron is transferred to dimolecular O2 due to decreased activity of Photosystem I. The superoxide (O2(-)) radical accumulation is more rampant in plants exposed to abiotic stresses due to oxidation of photosystem components. Excessive superoxide radical accumulation will lead to oxidative damage to the cellular macromolecules. The ubiquitous superoxide dismutases (SODs) represent critical enzymatic antioxidant system present in cells, which can catalyze the disproportion of superoxide (O2(-)) radical rapidly into hydrogen peroxide (H2O2) and molecular oxygen...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28735182/fluidized-bed-fenton-coupled-with-ceramic-membrane-separation-for-advanced-treatment-of-flax-wastewater
#10
Dong Fan, Lili Ding, Hui Huang, Mengtian Chen, Hongqiang Ren
Fluidized-bed Fenton coupled with ceramic membrane separation to treat the flax secondary effluent was investigated. The operating variables, including initial pH, dosage of H2O2 and Fe(0), air flow rate, TMP and pore size, were optimized. The distributions of DOMs in the treatment process were analyzed. Under the optimum condition (600mgL(-1)H2O2, 1.4gL(-1) Fe(0), pH=3, 300Lh(-1) air flow rate and 15psi TMP), the highest TOC and color removal efficiencies were 84% and 94% in the coupled reactor with 100nm ceramic membrane, reducing 39% of total iron with similar removal efficiency compared with Fluidized-bed Fenton...
May 31, 2017: Journal of Hazardous Materials
https://www.readbyqxmd.com/read/28734060/effects-of-eddy-currents-on-selective-spectral-editing-experiments-at-3t
#11
Georg Oeltzschner, Karim Snoussi, Nicolaas A Puts, Mark Mikkelsen, Ashley D Harris, Subechhya Pradhan, Kyrana Tsapkini, Michael Schär, Peter B Barker, Richard A E Edden
PURPOSE: To investigate frequency-offset effects in edited magnetic resonance spectroscopy (MRS) experiments arising from B0 eddy currents. MATERIALS AND METHODS: Macromolecule-suppressed (MM-suppressed) γ-aminobutyric acid (GABA)-edited experiments were performed at 3T. Saturation-offset series of MEGA-PRESS experiments were performed in phantoms, in order to investigate different aspects of the relationship between the effective editing frequencies and eddy currents associated with gradient pulses in the sequence...
July 22, 2017: Journal of Magnetic Resonance Imaging: JMRI
https://www.readbyqxmd.com/read/28733116/a-bright-future-for-serial-femtosecond-crystallography-with-xfels
#12
REVIEW
Linda C Johansson, Benjamin Stauch, Andrii Ishchenko, Vadim Cherezov
X-ray free electron lasers (XFELs) have the potential to revolutionize macromolecular structural biology due to the unique combination of spatial coherence, extreme peak brilliance, and short duration of X-ray pulses. A recently emerged serial femtosecond (fs) crystallography (SFX) approach using XFEL radiation overcomes some of the biggest hurdles of traditional crystallography related to radiation damage through the diffraction-before-destruction principle. Intense fs XFEL pulses enable high-resolution room-temperature structure determination of difficult-to-crystallize biological macromolecules, while simultaneously opening a new era of time-resolved structural studies...
July 18, 2017: Trends in Biochemical Sciences
https://www.readbyqxmd.com/read/28733002/aggregation-kinetics-of-single-walled-carbon-nanotubes-influenced-by-the-frequency-of-ultrasound-irradiation-in-the-aquatic-environment
#13
Chang Min Park, Yasir A J Al-Hamadani, Jiyong Heo, Namguk Her, Kyoung Hoon Chu, Min Jang, Sangho Lee, Yeomin Yoon
The colloidal stability of single-walled carbon nanotubes (SWNTs) sonicated at three different ultrasonication (US) frequencies (28, 580, and 1000kHz) were investigated under environmentally relevant conditions. In particular, correlations between surface chemistry, electrokinetic potential, interaction energy, and the aggregation kinetics of the aqueous SWNTs were studied. We observed that H2O2 production is negatively correlated with the yield of hydroxylation and carboxylation of SWNTs, which was dependent on the generation of ultrasonic energy by cavity collapse during US process...
November 2017: Ultrasonics Sonochemistry
https://www.readbyqxmd.com/read/28732846/physicochemical-study-of-mixed-systems-composed-by-bovine-caseinate-and-the-galactomannan-from-gleditsia-amorphoides
#14
Débora N López, Micaela Galante, Estela M Alvarez, Patricia H Risso, Valeria Boeris
Model systems formed by sodium caseinate (NaCAS) and espina corona gum (ECG) were studied. There was no evidence of attractive interactions between NaCAS and ECG macromolecules. Aqueous mixtures of NaCAS and ECG phase-separate segregatively over a wide range of concentrations. According to the images obtained by confocal laser scanning microscopy, NaCAS particles form larger protein aggregates when ECG is present in the system. An increase in the hydrodynamic diameter of NaCAS particles, as a result of ECG addition, was also observed by light scattering in diluted systems...
October 1, 2017: Carbohydrate Polymers
https://www.readbyqxmd.com/read/28732161/an-elegant-ph-responsive-nanovehicle-for-drug-delivery-based-on-triazine-dendrimer-modified-magnetic-nanoparticles
#15
Amir Landarani-Isfahani, Majid Moghadam, Shima Mohammadi, Maryam Royvaran, Naimeh Moshtael-Arani, Saghar Rezaei, Shahram Tangestaninejad, Valiollah Mirkhani, Iraj Mohammadpoor-Baltork
Owing to properties of magnetic nanoparticles and elegant three-dimensional macromolecule architectural features, dendrimeric structures have been investigated as nanoscale drug delivery systems. In this paper, a novel magnetic nanocarrier, generation two (G2) triazine dendrimer modified Fe3O4@SiO2 magnetic nanoparticles (MNP-G2), was designed, fabricated and characterized by Fourier transform infrared (FT-IR), thermal gravimetric analysis (TGA), vibrating sample magnetometer (VSM), field emission scanning electron microscopy (FE-SEM), transmission electron microscopy (TEM) and dynamic light scattering (DLS)...
July 21, 2017: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/28732129/%C3%A3-1-6-glucan-synthesis-associated-genes-are-required-for-proper-spore-wall-formation-in-saccharomyces-cerevisiae
#16
Hua-Ping Pan, Ning Wang, Hiroyuki Tachikawa, Hideki Nakanishi, Xiao-Dong Gao
The yeast spore wall is an excellent model to study the assembly of an extracellular macromolecule structure. In the present study, mutants defective in ß-1,6-glucan synthesis, including kre1∆, kre6∆, kre9∆, and big1∆, were sporulated to analyze the effect of ß-1,6-glucan defects on the spore wall. Except for kre6∆, these mutant spores were sensitive to treatment with ether, suggesting that the mutations perturb the integrity of the spore wall. Morphologically, the mutant spores were indistinguishable from wild-type spores...
July 21, 2017: Yeast
https://www.readbyqxmd.com/read/28730213/magnetic-separation-its-application-in-mining-waste-purification-medicine-biochemistry-and-chemistry
#17
REVIEW
M Iranmanesh, J Hulliger
The use of strong magnetic field gradients and high magnetic fields generated by permanent magnets or superconducting coils has found applications in many fields such as mining, solid state chemistry, biochemistry and medical research. Lab scale or industrial implementations involve separation of macro- and nanoparticles, cells, proteins, and macromolecules down to small molecules and ions. Most promising are those attempts where the object to be separated is attached to a strong magnetic nanoparticle. Here, all kinds of specific affinity interactions are used to attach magnetic carrier particles to mainly objects of biological interest...
July 21, 2017: Chemical Society Reviews
https://www.readbyqxmd.com/read/28729713/tunable-uptake-release-mechanism-of-protein-microgel-particles-in-biomimicking-environment
#18
A Pepe, P Podesva, G Simone
Microgels are intra-molecular crosslinked macromolecules that can be used as vehicles to deliver and release drugs at the point-of-need in the patient's body. Here, gelatin microgels were formed from microfluidics droplets, stabilised by aldehydes and frozen into a spheroidal shape. Microgel morphology and response to external stimuli were characterised. It was found that the behaviour of the spheroidal microgels was sensitive to both pH and ionic strength and that the distribution of charges into the microgels affected the behaviour of swelling and uptake...
July 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28729656/endolysosomal-targeting-of-a-clinical-chlorin-photosensitiser-for-light-triggered-delivery-of-nano-sized-medicines
#19
Elnaz Yaghini, Ruggero Dondi, Kunal M Tewari, Marilena Loizidou, Ian M Eggleston, Alexander J MacRobert
A major problem with many promising nano-sized biotherapeutics including macromolecules is that owing to their size they are subject to cellular uptake via endocytosis, and become entrapped and then degraded within endolysosomes, which can significantly impair their therapeutic efficacy. Photochemical internalisation (PCI) is a technique for inducing cytosolic release of the entrapped agents that harnesses sub-lethal photodynamic therapy (PDT) using a photosensitiser that localises in endolysosomal membranes...
July 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28729529/a-novel-matrix-protein-pfy2-functions-as-a-crucial-macromolecule-during-shell-formation
#20
Yi Yan, Dong Yang, Xue Yang, Chuang Liu, Jun Xie, Guilan Zheng, Liping Xie, Rongqing Zhang
Biomineralization, including shell formation, is dedicatedly regulated by matrix proteins. PfY2, a matrix protein detected in the ethylene diamine tetraacetic acid (EDTA)-soluble fraction from both prismatic layer and nacreous layer, was discovered by our group using microarray. It may play dual roles during biomineralization. However, the molecular mechanism is still unclear. In this research, we studied the function of PfY2 on crystallization in vivo and in vitro, revealing that it might be a negative regulator during shell formation...
July 20, 2017: Scientific Reports
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