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https://www.readbyqxmd.com/read/29339803/carbohydrates-protect-protein-against-abiotic-fragmentation-by-soil-minerals
#1
Patrick N Reardon, Eric D Walter, Carrie L Marean-Reardon, Chad W Lawrence, Markus Kleber, Nancy M Washton
The degradation and turnover of soil organic matter is an important part of global carbon cycling and of particular importance with respect to attempts to predict the response of ecosystems to global climate change. Thus, it is important to mechanistically understand the processes by which organic matter can be degraded in the soil environment, including contact with reactive or catalytic mineral surfaces. We have characterized the outcome of the interaction of two minerals, birnessite and kaolinite, with two disaccharides, cellobiose and trehalose...
January 16, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29339058/carboxylic-group-riched-graphene-oxide-based-disposable-electrochemical-immunosensor-for-cancer-biomarker-detection
#2
Sajid Rauf, Geetesh K Mishra, Jahanzaib Azhar, Rupesh K Mishra, K Yugender Goud, Muhammad Azhar Hayat Nawaz, Jean Louis Marty, Akhtar Hayat
In this work, we have developed for the first time a carboxylic group riched graphene oxide based disposable electrochemical immunosensor for cancer biomarker detection using methylene blue (MB). The developed immunosensor is highly sensitive for detection of biomarker Mucin1 (MUC1) in human serum samples. Development of this disposable electrochemical immunosensor was premeditated by applying specific monoclonal antibodies against MUC1. In this method, we explored highly conductive surface of carboxylic group (-COOH-) rich graphene oxide (GO) on screen-printed carbon electrodes (SPCE)...
January 12, 2018: Analytical Biochemistry
https://www.readbyqxmd.com/read/29338715/landscape-genomics-natural-selection-drives-the-evolution-of-mitogenome-in-penguins
#3
Barbara Ramos, Daniel González-Acuña, David E Loyola, Warren E Johnson, Patricia G Parker, Melanie Massaro, Gisele P M Dantas, Marcelo D Miranda, Juliana A Vianna
BACKGROUND: Mitochondria play a key role in the balance of energy and heat production, and therefore the mitochondrial genome is under natural selection by environmental temperature and food availability, since starvation can generate more efficient coupling of energy production. However, selection over mitochondrial DNA (mtDNA) genes has usually been evaluated at the population level. We sequenced by NGS 12 mitogenomes and with four published genomes, assessed genetic variation in ten penguin species distributed from the equator to Antarctica...
January 16, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29336151/ultra-robust-biochips-with-metal-organic-framework-coating-for-point-of-care-diagnosis
#4
Congzhou Wang, Lu Wang, Sirimuvva Tadepalli, Jeremiah J Morrissey, Evan D Kharasch, Rajesh R Naik, Srikanth Singamaneni
Most biosensors relying on antibodies as recognition elements fail in harsh environment conditions such as elevated temperatures, organic solvents or proteases because of antibody denaturation, and require strict storage conditions with defined shelf-life, thus limiting their applications in point-of-care and resource-limited settings. Here, a metal-organic framework (MOF) encapsulation is utilized to preserve the biofunctionality of antibodies conjugated to nanotransducers. This study investigates several parameters of MOF coating (including growth time, surface morphology, thickness and precursor concentrations) that determine the preservation efficacy against different protein denaturing conditions in both dry and wet environments...
January 16, 2018: ACS Sensors
https://www.readbyqxmd.com/read/29335298/crystal-structure-of-ispf-from-bacillus-subtilis-and-absence-of-protein-complex-assembly-among-ispd-ispe-ispf-enzymes-in-the-mep-pathway
#5
Zhongchuan Liu, Yun Jin, Weifeng Liu, Yong Tao, Ganggang Wang
2-C-methyl-d-erythritol 2, 4-cyclodiphosphate synthase (IspF) is a key enzyme in the 2-C-Methyl-d-erythritol-4-phosphate (MEP) pathway of isoprenoid biosynthesis. This enzyme catalyzes the 4-diphosphocytidyl-2-C-methyl-d-erythritol 2-phosphate (CDPME2P) to 2-C-methyl-d-erythritol 2, 4-cyclodiphosphate (MEcDP) with concomitant release of cytidine 5'-diphospate (cytosine monophosphate) (CMP). Bacillus subtilis is a potential host cell for the production of isoprenoids, but few studies are performed on the key enzymes of MEP pathway in B...
January 15, 2018: Bioscience Reports
https://www.readbyqxmd.com/read/29331333/influences-of-conformations-of-peptides-on-stereoinversions-and-or-isomerizations-of-aspartic-acid-residues
#6
Akifumi Oda, Tomoki Nakayoshi, Shuichi Fukuyoshi, Eiji Kurimoto, Ohgi Takahashi
Recently, non-enzymatic stereoinversions of aspartic acid (Asp) residues in proteins and peptides have been reported. Here, we performed replica exchange molecular dynamics (REMD) simulations of model peptides (exon 6, 26A-1, and 26A-2) extracted from elastin to investigate their structural features, thereby revealing the factor that influences stereoinversions. For REMD trajectories, we calculated distances between carboxyl carbon in Asp and amide nitrogen in the (n + 1) residue (C-N distances). Because bond formation between carbon and nitrogen is indispensable to the formation of a succinimide intermediate the distance between them seems to play an important role in stereoinversion...
January 10, 2018: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29330459/a-novel-ultra-stable-monomeric-green-fluorescent-protein-for-direct-volumetric-imaging-of-whole-organs-using-clarity
#7
Daniel J Scott, Natalie J Gunn, Kelvin J Yong, Verena C Wimmer, Nicholas A Veldhuis, Leesa M Challis, Mouna Haidar, Steven Petrou, Ross A D Bathgate, Michael D W Griffin
Recent advances in thick tissue clearing are enabling high resolution, volumetric fluorescence imaging of complex cellular networks. Fluorescent proteins (FPs) such as GFP, however, can be inactivated by the denaturing chemicals used to remove lipids in some tissue clearing methods. Here, we solved the crystal structure of a recently engineered ultra-stable GFP (usGFP) and propose that the two stabilising mutations, Q69L and N164Y, act to improve hydrophobic packing in the core of the protein and facilitate hydrogen bonding networks at the surface, respectively...
January 12, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29329973/altered-gene-expression-in-tree-shrew-retina-and-retinal-pigment-epithelium-produced-by-short-periods-of-minus-lens-wear
#8
Li He, Michael R Frost, John T Siegwart, Thomas T Norton
Hyperopic refractive error is detected by retinal neurons, which generate GO signals through a direct emmetropization signaling cascade: retinal pigment epithelium (RPE) into choroid and then into sclera, thereby increasing axial elongation. To examine signaling early in this cascade, we measured gene expression in the retina and RPE after short exposure to hyperopia produced by minus-lens wear. Gene expression in each tissue was compared with gene expression in combined retina + RPE. Starting 24 days after normal eye opening, three groups of juvenile tree shrews (n = 7 each) wore a monocular -5 D lens...
January 9, 2018: Experimental Eye Research
https://www.readbyqxmd.com/read/29329878/course-dose-and-stage-dependent-toxic-effects-of-prenatal-dexamethasone-exposure-on-fetal-articular-cartilage-development
#9
Ze Chen, Zhe Zhao, Yunzepeng Li, Xingyu Zhang, Bin Li, Liaobin Chen, Hui Wang
Dexamethasone, a synthetic long-acting glucocorticoid, is routinely used for treating mothers at risk for preterm delivery. However, intrauterine overexposure to glucocorticoids induces low birth weight and cartilage dysplasia in offspring. Also, the "critical window" and safe dose of this treatment are largely unknown. This study investigated the course-, dose-, and stage-dependent toxic effects and the possible mechanisms of prenatal dexamethasone exposure (PDE) on fetal development and articular cartilage development...
January 9, 2018: Toxicology Letters
https://www.readbyqxmd.com/read/29329537/the-hiv-1-accessory-proteins-nef-and-vpu-downregulate-total-and-cell-surface-cd28-in-cd4-t-cells
#10
Emily N Pawlak, Brennan S Dirk, Rajesh Abraham Jacob, Aaron L Johnson, Jimmy D Dikeakos
BACKGROUND: The HIV-1 accessory proteins Nef and Vpu alter cell surface levels of multiple host proteins to modify the immune response and increase viral persistence. Nef and Vpu can downregulate cell surface levels of the co-stimulatory molecule CD28, however the mechanism of this function has not been completely elucidated. RESULTS: Here, we provide evidence that Nef and Vpu decrease cell surface and total cellular levels of CD28. Moreover, using inhibitors we implicate the cellular degradation machinery in the downregulation of CD28...
January 12, 2018: Retrovirology
https://www.readbyqxmd.com/read/29327436/effect-of-patterned-electrospun-hierarchical-structures-on-alignment-and-differentiation-of-mesenchymal-stem-cells-biomimicking-bone
#11
Sharanya Sankar, Manohar Kakunuri, Sindhuja D E, Chandra S Sharma, Subha N Rath
Considering the complex hierarchical structure of bone, biomimicking the micro and nano level features should be an integral part of scaffold fabrication for successful bone regeneration. We aim to biomimic the micro- and nano-structure of bone and study the effect of physical cues on cell alignment, proliferation and differentiation. To achieve this, we have divided the scaffolds into groups: electrospun SU-8 nanofibers, electrospun SU-8 nanofibers with UV treatment and micropatterned (20 μm sized ridges and grooves) SU-8 nanofibers by photolithography with UV treatment...
January 11, 2018: Journal of Tissue Engineering and Regenerative Medicine
https://www.readbyqxmd.com/read/29327271/-paraneoplastic-neurological-syndromes-a-current-summary
#12
REVIEW
D De Simoni, R Höftberger
BACKGROUND: Paraneoplastic neurological syndromes (PNNS) are remote effects of a tumor and mediated by an altered immune reaction. In the last ten years, the spectrum of PNNS has changed profoundly with the discovery of a new category of neurological diseases that are associated with antibodies against surface or synaptic antigens. In contrast to classical PNNS, patients with surface receptor autoimmunity are often highly responsive to immunotherapy. OBJECTIVES: This article provides an update on the most relevant PNNS, focusing on specific syndromes associated with antibodies against classical onconeuronal antigens as well as surface and synaptic proteins...
January 11, 2018: Der Internist
https://www.readbyqxmd.com/read/29326083/ligandomics-a-paradigm-shift-in-biological-drug-discovery
#13
REVIEW
Wei Li, Iok-Hou Pang, Mario Thiego F Pacheco, Hong Tian
As productivity of pharmaceutical research and development (R&D) for small-molecule drugs declines, the trend in drug discovery strategies is shifting towards biologics, which predominantly target secreted or cell surface proteins. Receptors and ligands are the most-valuable drug targets. In contrast to conventional approaches of discovering one ligand at a time, the emerging technology of ligandomics can systematically map disease-selective cellular ligands in the absence of molecular probes. Biologics targeting these ligands with disease selectivity have the advantages of high efficacy, minimal adverse effects, wide therapeutic indices, and low safety-related attrition rates...
January 8, 2018: Drug Discovery Today
https://www.readbyqxmd.com/read/29326019/isolation-of-a-peptide-containing-d-amino-acid-residues-that-inhibits-the-%C3%AE-helix-mediated-p53-mdm2-interaction-from-a-one-bead-one-compound-library
#14
Jumpei Morimoto, Yuki Hosono, Shinsuke Sando
α-Helix-mediated protein-protein interactions (PPIs) are important targets in biological research and drug development. Peptides containing d-amino acid residues are attractive molecules for inhibiting α-helix-mediated PPIs because of their wide surface area and high protease resistance. In this study, a peptide library was constructed using a one-bead one-compound format designed to isolate left-handed α-helical peptides, which are promising molecules as inhibitors of α-helix-mediated PPIs. Screening of the library against an α-helix-mediated PPI between MDM2 and p53 yielded an inhibitor of the PPI...
January 2, 2018: Bioorganic & Medicinal Chemistry Letters
https://www.readbyqxmd.com/read/29325202/interfacial-mineral-fusion-and-tubule-entanglement-as-a-means-to-harden-a-bone-augmentation-material
#15
Erik A B Hughes, Sophie C Cox, Megan E Cooke, Owen G Davies, Richard L Williams, Thomas J Hall, Liam M Grover
A new bone augmenting material is reported, which is formed from calcium-loaded hydrogel-based spheres. On immersion of these spheres in a physiological medium, they become surrounded with a sheath of precipitate, which ruptures due to a build-up in osmotic pressure. This results in the formation of mineral tubes that protrude from the sphere surface. When brought into close contact with one another, these spheres become fused through the entanglement and subsequent interstitial mineralization of the mineral tubules...
January 11, 2018: Advanced Healthcare Materials
https://www.readbyqxmd.com/read/29323190/angiopoietins-bind-thrombomodulin-and-inhibit-its-function-as-a-thrombin-cofactor
#16
Christopher Daly, Xiaozhong Qian, Carla Castanaro, Elizabeth Pasnikowski, Xiabo Jiang, Benjamin R Thomson, Susan E Quaggin, Nicholas Papadopoulos, Yang Wei, John S Rudge, Gavin Thurston, George D Yancopoulos, Samuel Davis
Angiopoietin-1 (Ang1) and Angiopoietin-2 (Ang2) are ligands for Tie2, an endothelial-specific receptor tyrosine kinase that is an essential regulator of angiogenesis. Here we report the identification, via expression cloning, of thrombomodulin (TM) as another receptor for Ang1 and Ang2. Thrombomodulin is an endothelial cell surface molecule that plays an essential role as a coagulation inhibitor via its function as a cofactor in the thrombin-mediated activation of protein C, an anticoagulant protein, as well as thrombin-activatable fibrinolysis inhibitor (TAFI)...
January 11, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29319318/dominant-albumin-surface-interactions-under-independent-control-of-surface-charge-and-wettability
#17
Shanshan Guo, Dicky Pranantyo, En-Tang Kang, Xian Jun Loh, Xiaoying Zhu, Dominik Jańczewski, Koon-Gee Neoh
Understanding protein adsorption behaviors on solid surfaces constitutes an important step towards development of efficacious and biocompatible medical devices. Both surface charge and wettability have been shown to influence protein adsorption attributes including the kinetics, quantities, deformation and reversibility. However, determining the dominant interaction in these surface-induced phenomena is challenging due to the complexity of inter-related mechanisms at the liquid/solid interface. Herein, we reveal the dominant interfacial forces in these essential protein adsorption attributes under the influence of a combination of surface charge and wettability using a quartz crystal microbalance with dissipation monitoring (QCM-D) and atomic force microscopy (AFM)-based force spectroscopy on a series of model surfaces...
January 10, 2018: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/29313536/the-effect-of-ordered-and-partially-ordered-surface-topography-on-bone-cell-responses-a-review
#18
REVIEW
N Gui, W Xu, D E Myers, R Shukla, H P Tang, M Qian
Implant surfaces play important roles in regulating protein adsorption and determining subsequent cell responses, including cell attachment, proliferation, migration and differentiation. With rapid developments in micro- and nano-fabrication methods and additive manufacturing (3D printing) technologies, precisely controlled patterns such as partially ordered or ordered patterns can now be generated on bone implant surfaces, rather than restricted to randomly roughened surfaces. Over the last two decades, much effort has been dedicated to manipulating cell responses through surface topographical modifications...
January 9, 2018: Biomaterials Science
https://www.readbyqxmd.com/read/29311511/a-peptide-glycolipid-interaction-probed-by-retroinverso-peptide-analogues
#19
Kaori Sakurai
Cell surface glycolipids are implicated in the formation of lipid rafts and membrane microdomains, where they interact with protein receptors to mediate a variety of cellular processes such as cell-cell recognition, cell adhesion, and membrane signaling. Studies of glycolipid function at the local membrane structures have not been straightforward to date, because the locally clustered structures are labile and their protein binding affinities tend to be weak. While specific glycolipid-binding proteins have been employed as molecular probes for detecting lipid rafts, small peptides may be more suitable for probing glycolipids at the cell surface due to their small size as well as their ease of synthetic preparation and functionalization...
2018: Chemical & Pharmaceutical Bulletin
https://www.readbyqxmd.com/read/29311283/the-corynebacterium-diphtheriae-iron-regulated-surface-protein-hbpa-is-involved-in-the-utilization-of-the-hemoglobin-haptoglobin-complex-as-an-iron-source
#20
Lindsey R Lyman, Eric D Peng, Michael P Schmitt
Corynebacterium diphtheriae utilizes various heme-containing proteins, including hemoglobin (Hb) and the hemoglobin-haptoglobin complex (Hb-Hp), as iron sources during growth in iron-depleted environments. The ability to utilize Hb-Hp as an iron source requires the surface anchored proteins HtaA and either ChtA or ChtC. The ability to bind hemin, Hb and Hb-Hp by each of these C. diphtheriae proteins requires the previously characterized Conserved Region (CR) domain. In this study, we identified an Hb-Hp binding protein, HbpA (38...
January 8, 2018: Journal of Bacteriology
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