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https://www.readbyqxmd.com/read/28743182/crosstalk-and-interplay-between-the-ubiquitin-proteasome-system-and-autophagy
#1
Chang Hoon Ji, Yong Tae Kwon
Proteolysis in eukaryotic cells is mainly mediated by the ubiquitin (Ub)-proteasome system (UPS) and the autophagylysosome system (hereafter autophagy). The UPS is a selective proteolytic system in which substrates are recognized and tagged with ubiquitin for processive degradation by the proteasome. Autophagy is a bulk degradative system that uses lysosomal hydrolases to degrade proteins as well as various other cellular constituents. Since the inception of their discoveries, the UPS and autophagy were thought to be independent of each other in components, action mechanisms, and substrate selectivity...
July 24, 2017: Molecules and Cells
https://www.readbyqxmd.com/read/28742439/damab-2-anti-human-dgk%C3%AE-monoclonal-antibody-for-immunocytochemistry
#2
Tomoyuki Nakano, Satoshi Ogasawara, Toshiaki Tanaka, Yasukazu Hozumi, Satoru Mizuno, Eri Satoh, Fumio Sakane, Naoki Okada, Akinobu Taketomi, Ryusuke Honma, Takuro Nakamura, Noriko Saidoh, Miyuki Yanaka, Shunsuke Itai, Saori Handa, Yao-Wen Chang, Shinji Yamada, Mika K Kaneko, Yukinari Kato, Kaoru Goto
Diacylglycerol kinase (DGK) is responsible for the enzymatic conversion of diacylglycerol to phosphatidic acid. Since both diacylglycerol and phosphatidic acid serve as signaling molecules, DGK is regarded as a hub between diacylglycerol-mediated and phosphatidic acid-mediated signaling. One of the 10 DGK isozymes, DGKα, is shown to be involved in T cell function. Transfection studies using tagged expression vectors revealed that DGKα localizes to the cytoplasm and nucleus and translocates to the plasma membrane in response to T cell receptor stimulation...
July 25, 2017: Monoclonal Antibodies in Immunodiagnosis and Immunotherapy
https://www.readbyqxmd.com/read/28742344/insights-into-the-molybdenum-copper-heterometallic-cluster-assembly-in-the-orange-protein-probing-intermolecular-interactions-with-an-artificial-metal-binding-atcun-tag
#3
Biplab K Maiti, Rui M Almeida, Luisa B Maia, Isabel Moura, José J G Moura
Orange protein (ORP) is a small bacterial protein, of unknown function, that contains a unique molybdenum/copper heterometallic cluster, [S2Mo(VI)S2Cu(I)S2Mo(VI)S2](3-) (Mo/Cu), non-covalently bound. The native cluster can be reconstituted in a protein-assisted mode by the addition of Cu(II) plus tetrathiomolybdate to apo-ORP under controlled conditions. In the work described herein, we artificially inserted the ATCUN ("amino terminus Cu and Ni") motif in the Desulfovibrio gigas ORP (Ala1Ser2His3 followed by the native amino acid residues; modified protein abbreviated as ORP*) to increase our understanding of the Mo/Cu cluster assembly in ORP...
July 25, 2017: Inorganic Chemistry
https://www.readbyqxmd.com/read/28742213/derivatization-agents-for-electrochemical-detection-in-amino-acid-peptide-and-protein-separations-the-hidden-electrochemistry
#4
REVIEW
Tania Sierra, Agustin G Crevillen, Alberto Escarpa
In proteomics and clinical analysis, LIF and MS are the most used detectors coupled to separation techniques. MS offers good sensitivity and analyte identification ability but, as counterbalance, it is expensive and it needed background electrolytes compatible with mass spectrometers. LIF detection offers the highest sensitivity but, in general, proteins, peptides and amino acids are not fluorescents so it is necessary the use of fluorescence tags. This fact hindered the potential sensitivity of LIF detection due to the difficulty of labeling analytes at extremely low concentrations...
July 25, 2017: Electrophoresis
https://www.readbyqxmd.com/read/28742133/a-putative-atp-gtp-binding-protein-affects-leishmania-mexicana-growth-in-insect-vectors-and-vertebrate-hosts
#5
Aygul Ishemgulova, Natalya Kraeva, Jana Hlaváčová, Sara L Zimmer, Anzhelika Butenko, Lucie Podešvová, Tereza Leštinová, Julius Lukeš, Alexei Kostygov, Jan Votýpka, Petr Volf, Vyacheslav Yurchenko
BACKGROUND: Leishmania virulence factors responsible for the complicated epidemiology of the various leishmaniases remain mainly unidentified. This study is a characterization of a gene previously identified as upregulated in two of three overlapping datasets containing putative factors important for Leishmania's ability to establish mammalian intracellular infection and to colonize the gut of an insect vector. METHODOLOGY/PRINCIPAL FINDINGS: The investigated gene encodes ATP/GTP binding motif-containing protein related to Leishmania development 1 (ALD1), a cytosolic protein that contains a cryptic ATP/GTP binding P-loop...
July 24, 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28742028/semantic-object-segmentation-in-tagged-videos-via-detection
#6
Yu Zhang, Xiaowu Chen, Jia Li, Chen Wang, Changqun Xia, Jun Li
Semantic object segmentation (SOS) is a challenging task in computer vision that aims to detect and segment all pixels of the objects within predefined semantic categories. In image-based SOS, many supervised models have been proposed and achieved impressive performances due to the rapid advances of well-annotated training images and machine learning theories. However, in video-based SOS it is often difficult to directly train a supervised model since most videos are weakly annotated by tags. To handle such tagged videos, this paper proposes a novel approach that adopts a segmentation-by-detection framework...
July 20, 2017: IEEE Transactions on Pattern Analysis and Machine Intelligence
https://www.readbyqxmd.com/read/28741701/dissecting-molecular-architecture-of-post-synaptic-density-at-excitatory-synapses-an-editorial-highlight-for-hierarchical-organization-and-genetically-separable-subfamilies-of-psd95-postsynaptic-supercomplexes-on-doi-10-1111-jnc-14056
#7
EDITORIAL
Jinjun Chen, Hui-Lin Pan
This Editorial highlights a study by Frank and colleagues (2017) in the current issue of Journal of Neurochemistry. The authors report the genetic composition and stoichiometry of endogenous subfamilies of PSD95-containing supercomplexes in the mouse brain using an innovative strategy of combining gene-tagging knock-in, targeted mutations, and quantitative biochemical assays. Their findings shed new light on our understanding of the genetic hierarchy required for the assembly of distinct supercomplex subfamilies at excitatory synapses in the brain...
July 25, 2017: Journal of Neurochemistry
https://www.readbyqxmd.com/read/28741346/occurrence-state-and-molecular-structure-analysis-of-extracellular-proteins-with-implications-to-the-dewaterability-of-waste-activated-sludge
#8
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/28741167/microvascular-ultrastructural-changes-precede-cognitive-impairment-in-the-murine-appswe-ps1de9-model-of-alzheimer-s-disease
#9
Patricia Kelly, Paul Denver, Simon C Satchell, Maximilian Ackermann, Moritz A Konerding, Christopher A Mitchell
Cerebral and systemic organ microvascular pathologies coexist with human Alzheimer's disease (AD) neuropathology. In this study, we hypothesised that both cerebral and systemic microvascular pathologies exist in 4- to 5-month-old male APPswe/PS1dE9 (APP/PS1) transgenic mice prior to the onset of cognitive impairment. To assess this we examined recognition memory in both wild-type and APP/PS1 mice using the object recognition task (ORT; n = 11 per group) and counted thioflavin-S-positive plaques in brain (n = 6 per group)...
July 25, 2017: Angiogenesis
https://www.readbyqxmd.com/read/28740407/comparison-of-a-mouse-and-a-novel-human-scfv-snap-auristatin-f-drug-conjugate-with-potent-activity-against-egfr-overexpressing-human-solid-tumor-cells
#10
Mira Woitok, Diana Klose, Stefano Di Fiore, Wolfgang Richter, Christoph Stein, Gerrit Gresch, Elena Grieger, Stefan Barth, Rainer Fischer, Katharina Kolberg, Judith Niesen
Antibody-drug conjugates (ADCs) can deliver toxins to specific targets such as tumor cells. They have shown promise in preclinical/clinical development but feature stoichiometrically undefined chemical linkages, and those based on full-size antibodies achieve only limited tumor penetration. SNAP-tag technology can overcome these challenges by conjugating benzylguanine-modified toxins to single-chain fragment variables (scFvs) with 1:1 stoichiometry while preserving antigen binding. Two (human and mouse) scFv-SNAP fusion proteins recognizing the epidermal growth factor receptor (EGFR) were expressed in HEK 293T cells...
2017: OncoTargets and Therapy
https://www.readbyqxmd.com/read/28739245/management-of-mass-casualties-using-doctor-helicopters-and-doctor-cars
#11
Hiromichi Ohsaka, Kouhei Ishikawa, Kazuhiko Omori, Kei Jitsuiki, Toshihiko Yoshizawa, Youichi Yanagawa
At approximately 10 o'clock in September 2015, a minibus carrying 18 people accidentally slid backwards because of a malfunctioning brake system while climbing a steep incline on Togasayama Mountain, colliding with a van (Toyota HiAce wagon) carrying 11 people that was situated behind the minibus. Togasayama Mountain is located 1 hour by car and 10 minutes by helicopter from our hospital. The minibus slid off a roadside cliff at a height of 0.5 m and rolled over after colliding with the van. There were 7 victims with yellow tags and 22 with green tags...
July 2017: Air Medical Journal
https://www.readbyqxmd.com/read/28739161/automated-face-recognition-of-rhesus-macaques
#12
Claire L Witham
BACKGROUND: Rhesus macaques are widely used in biomedical research. Automated behavior monitoring can be useful in various studies (including neuroscience), as well as having applications to animal welfare but current technology lags behind that developed for other species. One difficulty facing developers is the reliable identification of individual macaques within a group especially as pair- and group-housing of macaques becomes standard. Current published methods require either implantation or wearing of a tracking device...
July 21, 2017: Journal of Neuroscience Methods
https://www.readbyqxmd.com/read/28738898/silicanin-1-is-a-conserved-diatom-membrane-protein-involved-in-silica-biomineralization
#13
Alexander Kotzsch, Philip Gröger, Damian Pawolski, Paul H H Bomans, Nico A J M Sommerdijk, Michael Schlierf, Nils Kröger
BACKGROUND: Biological mineral formation (biomineralization) proceeds in specialized compartments often bounded by a lipid bilayer membrane. Currently, the role of membranes in biomineralization is hardly understood. RESULTS: Investigating biomineralization of SiO2 (silica) in diatoms we identified Silicanin-1 (Sin1) as a conserved diatom membrane protein present in silica deposition vesicles (SDVs) of Thalassiosira pseudonana. Fluorescence microscopy of GFP-tagged Sin1 enabled, for the first time, to follow the intracellular locations of a biomineralization protein during silica biogenesis in vivo...
July 24, 2017: BMC Biology
https://www.readbyqxmd.com/read/28738228/streptavidin-hydrogel-prepared-by-sortase-a-assisted-click-chemistry-for-enzyme-immobilization-on-an-electrode
#14
Takuya Matsumoto, Yuki Isogawa, Tsutomu Tanaka, Akihiko Kondo
A tetrameric streptavidin (SA)-appended LPETG tag was site-specifically linked to azido-containing tri-glycine via sortase A catalysis and the resulting azido-modified SA (SA-N3) was retained in the biotin-binding pocket. SA-N3 was polymerized with dibenzylcyclooctyne-modified branched poly(ethyleneglycol) (DBCO-PEG) using azido-modified branched PEG (N3-PEG) as a spacer via copper-free click chemistry. The resulting SA-based hydrogel exhibited gel-like mechanical properties and could immobilize biotin-modified molecules through biotin-SA affinity...
July 19, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28737925/lipid-bilayer-gated-mesoporous-silica-nanocarriers-for-tumor-targeted-delivery-of-zoledronic-acid-in-vivo
#15
Diti Desai, Jixi Zhang, Jouko Sandholm, Jaakko Lehtimäki, Tove Grönroos, Johanna Tuomela, Jessica M Rosenholm
Zoledronic acid (ZOL) is a nitrogen-containing bisphosphonate used for the treatment of bone diseases and calcium metabolism. Anticancer activity of ZOL has been established, but its extraskeletal effects are limited due to its rapid uptake and accumulation to bone hydroxyapatite. In this work, we report on the development of tethered lipid bilayer-gated mesoporous silica nanocarriers (MSNs) for the incorporation, retention and intracellular delivery of ZOL. The in vitro anticancer activity of ZOL-loaded nanocarriers was evaluated by cell viability assay and live-cell imaging...
July 24, 2017: Molecular Pharmaceutics
https://www.readbyqxmd.com/read/28737922/disentangling-the-complex-vibrational-spectrum-of-the-protonated-water-trimer-h-h2o-3-with-two-color-ir-ir-photodissociation-of-the-bare-ion-and-anharmonic-vscf-vci-theory
#16
Chinh H Duong, Olga Gorlova, Nan Yang, Patrick J Kelleher, Qi Yu, Anne B McCoy, Joel M Bowman, Mark A Johnson
Vibrational spectroscopy of the protonated water trimer provides a stringent constraint on the details of the potential energy surface (PES) and vibrational dynamics governing excess proton motion far from equilibrium. Here we report the linear spectrum of the cold, bare H(+)(H2O)3 ion using a two-color, IR-IR photofragmentation technique and follow the evolution of the bands with increasing temperature. The key low energy features are insensitive to both D2-tagging and internal energy. The D2-tagged D(+)(D2O)3 spectrum is reported for the first time, and the isotope dependence of the band pattern is surprisingly complex...
July 24, 2017: Journal of Physical Chemistry Letters
https://www.readbyqxmd.com/read/28737890/a-difluoroboron-%C3%AE-diketonate-probe-shows-turn-on-near-infrared-fluorescence-specific-for-tau-fibrils
#17
Kwang-Su Park, Mi Kyoung Kim, Yujin Seo, Taewoong Ha, Kyeongha Yoo, Seung Jae Hyeon, Yu Jin Hwang, Junghee Lee, Hoon Ryu, Hyunah Choo, Youhoon Chong
Tau aggregation in neuronal cells has recently received significant attention as a robust predictor of the progression of Alzheimer's disease (AD) because of its proven correlation with the degree of cognitive impairment in AD patients. Accordingly, non-invasive imaging of tau aggregates has been highlighted as a promising diagnostic tool for AD. We have previously identified a tau-specific "turn-on" near-infrared fluorescent (NIRF) probe (1) and, in this study, structural modification was performed to optimize its physicochemical as well as fluorescence properties...
July 24, 2017: ACS Chemical Neuroscience
https://www.readbyqxmd.com/read/28736786/an-enzyme-free-flow-cytometric-bead-assay-for-the-sensitive-detection-of-micrornas-based-on-click-nucleic-acid-ligation-mediated-signal-amplification
#18
Yan Qi, Liying Qiu, Wenjiao Fan, Chenghui Liu, Zhengping Li
A versatile flow cytometric bead assay (FCBA) coupled with a completely enzyme-free signal amplification mechanism is developed for the sensitive detection of microRNAs (miRNAs). This new strategy integrates click chemistry-mediated ligation chain reaction (CLCR) with hybridization chain reaction (HCR) for enzyme-free signal amplification on magnetic beads (MBs), and a flow cytometer for the robust fluorescence readout of the MBs. Firstly, target miRNA can initiate CLCR on the surface of MBs based on the click chemical ligation between dibenzocyclooctyne (DBCO)- and azide-modified single-stranded DNA (ssDNA) probes, and the amount of ligated ssDNA sequences on the MBs will be proportional to the dosage of target miRNA...
July 24, 2017: Analyst
https://www.readbyqxmd.com/read/28736700/profiling-and-characterization-of-a-longissimus-dorsi-muscle-microrna-dataset-from-an-f2-duroc%C3%A2-%C3%A3-%C3%A2-pietrain-pig-resource-population
#19
Kaitlyn R Daza, Juan P Steibel, Deborah Velez-Irizarry, Nancy E Raney, Ronald O Bates, Catherine W Ernst
To elucidate the effects of microRNA (miRNA) regulation in skeletal muscle of adult pigs, miRNA expression profiling was performed with RNA extracted from longissimus dorsi (LD) muscle samples from 174 F2 pigs (~ 5.5 months of age) from a Duroc × Pietrain resource population. Total RNA was extracted from LD samples, and libraries were sequenced on an Illumina HiSeq 2500 platform in 1 × 50 bp format. After processing, 232,826,977 total reads were aligned to the Sus scrofa reference genome (v10.2.79), with 74...
September 2017: Genomics Data
https://www.readbyqxmd.com/read/28736549/cloning-expression-isotope-labeling-and-purification-of-transmembrane-protein-merf-from-mercury-resistant-enterobacter-sp-az-15-for-nmr-studies
#20
Aatif Amin, Zakia Latif
Mercury resistant (Hg(R)) Enterobacter sp. AZ-15 was isolated from heavy metal polluted industrial wastewater samples near to districts Kasur and Sheikhupura, Pakistan. 16S rDNA ribotyping and phylogentic analysis showed 98% homology with already reported Enterobacter species. The merF gene encoding transmembrane protein-MerF was amplified from genomic DNA and ligated into pET31b+ vector using restriction endonucleases, SphI and XhoI. The genetic codons of merF gene encoding cysteine residues were mutated into codons, translating into serine residues by site-directed mutagenesis...
2017: Frontiers in Microbiology
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