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Single molecule localization

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https://www.readbyqxmd.com/read/28732159/remote-single-molecule-switching-identification-and-nano-engineering-of-hot-electron-induced-tautomerization
#1
Jens Kügel, Markus Leisegang, Markus Böhme, Andreas Krönlein, Aimee Sixta, Matthias Bode
Molecular electronics where single molecules perform basic functionalities of digital circuits is a fascinating concept that one day may augment or even replace nowadays semiconductor technologies. The tautomerization of molecules, i.e., the bistable functional position of hydrogen protons within an organic frame, has recently been intensively discussed as a potential avenue towards nano-scale switches. It has been shown that tautomerization can be triggered locally or non-locally, i.e. by a scanning tunneling microscope (STM) tip positioned directly above or in close vicinity to the molecule...
July 21, 2017: Nano Letters
https://www.readbyqxmd.com/read/28731759/single-molecule-investigation-of-energy-dynamics-in-a-coupled-plasmon-exciton-system
#2
Hiroshi Imada, Kuniyuki Miwa, Miyabi Imai-Imada, Shota Kawahara, Kensuke Kimura, Yousoo Kim
We investigate the near-field interaction between an isolated free-base phthalocyanine molecule and a plasmon localized in the gap between an NaCl-covered Ag(111) surface and the tip apex of a scanning tunneling microscope. When the tip is located in the close proximity of the molecule, asymmetric dips emerge in the broad luminescence spectrum of the plasmon generated by the tunneling current. The origin of the dips is explained by energy transfer between the plasmon and molecular excitons and a quantum mechanical interference effect, where molecular vibrations provide additional degrees of freedom in the dynamic process...
July 7, 2017: Physical Review Letters
https://www.readbyqxmd.com/read/28726964/a-%C3%AE-galactosidase-probe-for-the-detection-of-cellular-senescence-by-mass-cytometry
#3
M A Lumba, L M Willis, S Santra, R Rana, L Schito, S Rey, B G Wouters, M Nitz
Mass cytometry (MC) is a powerful method that combines the cellular resolution of flow cytometry with the isotopic resolution of inductively coupled plasma mass spectrometry (ICP-MS). This combination theoretically allows for the simultaneous quantification of >80 different parameters at the single cell level, in turn allowing for the deep profiling of heterogeneous cell populations. The majority of available reagents for MC are antibodies labeled with heavy metal isotopes, allowing for the quantification of static biomarkers...
July 20, 2017: Organic & Biomolecular Chemistry
https://www.readbyqxmd.com/read/28726383/marangoni-convection-assisted-single-molecule-detection-with-nanojet-surface-enhanced-raman-spectroscopy
#4
Te-Wei Chang, Xinhao Wang, Amirreza Mahigir, Georgios Veronis, Gang Logan Liu, Manas Ranjan Gartia
Many single-molecule (SM) label-free techniques such as scanning probe microscopies (SPM) and magnetic force spectroscopies (MFS) provide high resolution surface topography information, but lack chemical information. Typical surface enhanced Raman spectroscopy (SERS) systems provide chemical information on the analytes, but lack spatial resolution. In addition, a challenge in SERS sensors is to bring analytes into the so-called "hot spots" (locations where the enhancement of electromagnetic field amplitude is larger than 10(3))...
July 20, 2017: ACS Sensors
https://www.readbyqxmd.com/read/28724604/a-simple-toolset-to-identify-endogenous-post-translational-modifications-for-a-target-protein-a-snapshot-of-the-egfr-signaling-pathway
#5
Henrick Horita, Andy Law, Soonjin Hong, Kim Middleton
Identification of a novel post-translational modification (PTM) for a target protein, defining its physiologic role, and studying its potential crosstalk with other PTMs is a challenging process. A set of highly sensitive tools termed Signal-Seeker kits was developed, which enables rapid and simple detection of post-translational modifications on any target protein.  The methodology for these tools utilizes affinity purification of modified proteins from a cell or tissue lysate and immunoblot analysis. These tools utilize a single lysis system that is effective at identifying endogenous, dynamic PTM changes, as well as the potential crosstalk between PTMs...
July 19, 2017: Bioscience Reports
https://www.readbyqxmd.com/read/28724573/a-single-dose-of-peripherally-infused-egfrviii-directed-car-t-cells-mediates-antigen-loss-and-induces-adaptive-resistance-in-patients-with-recurrent-glioblastoma
#6
Donald M O'Rourke, MacLean P Nasrallah, Arati Desai, Jan J Melenhorst, Keith Mansfield, Jennifer J D Morrissette, Maria Martinez-Lage, Steven Brem, Eileen Maloney, Angela Shen, Randi Isaacs, Suyash Mohan, Gabriela Plesa, Simon F Lacey, Jean-Marc Navenot, Zhaohui Zheng, Bruce L Levine, Hideho Okada, Carl H June, Jennifer L Brogdon, Marcela V Maus
We conducted a first-in-human study of intravenous delivery of a single dose of autologous T cells redirected to the epidermal growth factor receptor variant III (EGFRvIII) mutation by a chimeric antigen receptor (CAR). We report our findings on the first 10 recurrent glioblastoma (GBM) patients treated. We found that manufacturing and infusion of CAR-modified T cell (CART)-EGFRvIII cells are feasible and safe, without evidence of off-tumor toxicity or cytokine release syndrome. One patient has had residual stable disease for over 18 months of follow-up...
July 19, 2017: Science Translational Medicine
https://www.readbyqxmd.com/read/28723958/can-single-molecule-localization-microscopy-be-used-to-map-closely-spaced-rgd-nanodomains
#7
Mahdie Mollazade, Thibault Tabarin, Philip R Nicovich, Alexander Soeriyadi, Daniel J Nieves, J Justin Gooding, Katharina Gaus
Cells sense and respond to nanoscale variations in the distribution of ligands to adhesion receptors. This makes single molecule localization microscopy (SMLM) an attractive tool to map the distribution of ligands on nanopatterned surfaces. We explore the use of SMLM spatial cluster analysis to detect nanodomains of the cell adhesion-stimulating tripeptide arginine-glycine-aspartic acid (RGD). These domains were formed by the phase separation of block copolymers with controllable spacing on the scale of tens of nanometers...
2017: PloS One
https://www.readbyqxmd.com/read/28722825/crystalline-%C3%AF-stack-containing-five-stereoisomers-insights-into-conformational-isomorphism-chirality-inversion-and-disorder
#8
Agnieszka Nowak-Krol, Merle Röhr, David Schmidt, Frank Würthner
An unprecedented crystal packing arrangement of a tetramethoxy-bay-substituted perylene bisimide (PBI) consists of three crystallographically independent molecules, i.e. an achiral (AC) PBI of saddle-shaped geometry along with two pairs of propeller-like twisted (P) and (M)enantiomeric PBI frameworks. All these five conformations are observed within a single π-stack revealing an intriguing packing sequence with an inversion of chirality from P to M via AC. Nudged elastic band calculations for the isolated molecule show that AC is a local minimum of the P to M interconversion path...
July 19, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28722076/the-anomalous-halogen-bonding-interactions-between-chlorine-and-bromine-with-water-in-clathrate-hydrates
#9
Hana Dureckova, Tom K Woo, Konstantin A Udachin, John A Ripmeester, Saman Alavi
Clathrate hydrate phases of Cl2 and Br2 guest molecules have been known for about 200 years. The crystal structure of these phases was recently re-determined with high accuracy by single crystal X-ray diffraction. In these structures, the water oxygen-halogen atom distances are determined to be shorter than the sum of the van der Waals radii, which indicates the action of some type of non-covalent interaction between the dihalogens and water molecules. Given that in the hydrate phases both lone pairs of each water oxygen atom are engaged in hydrogen bonding with other water molecules of the lattice, the nature of the oxygen-halogen interactions may not be the standard halogen bonds characterized recently in the solid state materials and enzyme-substrate compounds...
July 19, 2017: Faraday Discussions
https://www.readbyqxmd.com/read/28720143/mhc-class-ii-expression-and-potential-antigen-presenting-cells-in-the-retina-during-experimental-autoimmune-uveitis
#10
Deborah A Lipski, Rémi Dewispelaere, Vincent Foucart, Laure E Caspers, Matthieu Defrance, Catherine Bruyns, François Willermain
BACKGROUND: Controversy exists regarding which cell types are responsible for autoantigen presentation in the retina during experimental autoimmune uveitis (EAU) development. In this study, we aimed to identify and characterize the retinal resident and infiltrating cells susceptible to express major histocompatibility complex (MHC) class II during EAU. METHODS: EAU was induced in C57BL/6 mice by adoptive transfer of autoreactive lymphocytes from IRBP1-20-immunized animals...
July 18, 2017: Journal of Neuroinflammation
https://www.readbyqxmd.com/read/28714698/microrna-intercellular-transfer-and-bioelectrical-regulation-of-model-multicellular-ensembles-by-the-gap-junction-connectivity
#11
Javier Cervera, Salvador Meseguer, Salvador Mafe
We have studied theoretically the microRNA (miRNA) intercellular transfer through voltage-gated gap junctions in terms of a biophysically-grounded system of coupled differential equations. Instead of modeling a specific system, we use a general approach describing the interplay between the genetic mechanisms and the single-cell electric potentials. The dynamics of the multicellular ensemble are simulated under different conditions including spatially-inhomogeneous transcription rates and local intercellular transfer of miRNAs...
July 17, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28708098/combining-primed-photoconversion-and-uv-photoactivation-for-aberration-free-live-cell-compliant-multi-color-single-molecule-localization-microscopy-imaging
#12
David Virant, Bartosz Turkowyd, Alexander Balinovic, Ulrike Endesfelder
Super-resolution fluorescence microscopy plays a major role in revealing the organization and dynamics of living cells. Nevertheless, single-molecule localization microscopy imaging of multiple targets is still limited by the availability of suitable fluorophore combinations. Here, we introduce a novel imaging strategy which combines primed photoconversion (PC) and UV-photoactivation for imaging different molecular species tagged by suitable fluorescent protein combinations. In this approach, the fluorescent proteins can be specifically photoactivated/-converted by different light wavelengths using PC and UV-activation modes but emit fluorescence in the same spectral emission channel...
July 14, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28706306/ligand-induced-type-ii-interleukin-4-receptor-dimers-are-sustained-by-rapid-re-association-within-plasma-membrane-microcompartments
#13
David Richter, Ignacio Moraga, Hauke Winkelmann, Oliver Birkholz, Stephan Wilmes, Markos Schulte, Michael Kraich, Hella Kenneweg, Oliver Beutel, Philipp Selenschik, Dirk Paterok, Martynas Gavutis, Thomas Schmidt, K Christopher Garcia, Thomas D Müller, Jacob Piehler
The spatiotemporal organization of cytokine receptors in the plasma membrane is still debated with models ranging from ligand-independent receptor pre-dimerization to ligand-induced receptor dimerization occurring only after receptor uptake into endosomes. Here, we explore the molecular and cellular determinants governing the assembly of the type II interleukin-4 receptor, taking advantage of various agonists binding the receptor subunits with different affinities and rate constants. Quantitative kinetic studies using artificial membranes confirm that receptor dimerization is governed by the two-dimensional ligand-receptor interactions and identify a critical role of the transmembrane domain in receptor dimerization...
July 14, 2017: Nature Communications
https://www.readbyqxmd.com/read/28706248/acoustic-transfection-for-genomic-manipulation-of-single-cells-using-high-frequency-ultrasound
#14
Sangpil Yoon, Pengzhi Wang, Qin Peng, Yingxiao Wang, K Kirk Shung
Efficient intracellular delivery of biologically active macromolecules has been a challenging but important process for manipulating live cells for research and therapeutic purposes. There have been limited transfection techniques that can deliver multiple types of active molecules simultaneously into single-cells as well as different types of molecules into physically connected individual neighboring cells separately with high precision and low cytotoxicity. Here, a high frequency ultrasound-based remote intracellular delivery technique capable of delivery of multiple DNA plasmids, messenger RNAs, and recombinant proteins is developed to allow high spatiotemporal visualization and analysis of gene and protein expressions as well as single-cell gene editing using clustered regularly interspaced short palindromic repeats (CRISPR)-associated protein-9 nuclease (Cas9), a method called acoustic-transfection...
July 13, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28700831/robust-molecular-anchoring-to-graphene-electrodes
#15
Hatef Sadeghi, Sara Sangtarash, Colin Lambert
Recent advances in the engineering of picoscale gaps between electroburnt graphene electrodes provide new opportunities for studying electron transport through electrostatically gated single molecules. But first we need to understand and develop strategies for anchoring single molecules to such electrodes. Here, for the first time we present a systematic theoretical study of transport properties using four different modes of anchoring zinc-porphyrin monomer, dimer, and trimer molecular wires to graphene electrodes...
July 17, 2017: Nano Letters
https://www.readbyqxmd.com/read/28700237/rgd-modified-albumin-nanoconjugates-for-targeted-delivery-of-a-porphyrin-photosensitizer
#16
Fang Li, Yan Zhao, Chengqiong Mao, Yi Kong, Xin Ming
Advances in photodynamic therapy of cancer have been restrained by lack of cancer specificity and side effects to normal tissues. Molecularly targeted photodynamic therapy can achieve higher cancer specificity by combination of active cancer targeting and localized laser activation. We aimed to use albumin as a carrier to prepare targeted nanoconjugates that are selective to cancer cells and smaller than conventional nanoparticles for superior tumor penetration. IRDye® 700DX (IR700), a porphyrin photosensitizer, was covalently conjugated to human serum albumin that was also linked with tumor-targeting RGD peptides...
July 12, 2017: Molecular Pharmaceutics
https://www.readbyqxmd.com/read/28696301/otoferlin-is-a-multivalent-calcium-sensitive-scaffold-linking-snares-and-calcium-channels
#17
Nicole Hams, Murugesh Padmanarayana, Weihong Qiu, Colin P Johnson
Sensory hair cells rely on otoferlin as the calcium sensor for exocytosis and encoding of sound preferentially over the neuronal calcium sensor synaptotagmin. Although it is established that synaptotagmin cannot rescue the otoferlin KO phenotype, the large size and low solubility of otoferlin have prohibited direct biochemical comparisons that could establish functional differences between these two proteins. To address this challenge, we have developed a single-molecule colocalization binding titration assay (smCoBRA) that can quantitatively characterize full-length otoferlin from mammalian cell lysate...
July 10, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28694064/rna-fluorescence-in-situ-hybridization-for-high-content-screening
#18
Emmanuelle Querido, Lynda Dekakra-Bellili, Pascal Chartrand
Single molecule RNA imaging using fluorescent in situ hybridization (FISH) can provide quantitative information on mRNA abundance and localization in a single cell. There is now a growing interest in screening for modifiers of RNA abundance and/or localization. For instance, microsatellite expansion within RNA can lead to toxic gain-of-function via mislocalization of these transcripts into RNA aggregate and sequestration of RNA-binding proteins. Screening for inhibitors of these RNA aggregate can be performed by high-throughput RNA FISH...
July 7, 2017: Methods: a Companion to Methods in Enzymology
https://www.readbyqxmd.com/read/28694018/the-enu-3-protein-family-members-function-in-the-wnt-pathway-parallel-to-unc-6-netrin-to-promote-motor-neuron-axon-outgrowth-in-c-elegans
#19
Roxana Oriana Florica, Victoria Hipolito, Stephen Bautista, Homa Anvari, Chloe Rapp, Suzan El-Rass, Alimohammad Asgharian, Costin N Antonescu, Marie T Killeen
The axons of the DA and DB classes of motor neurons fail to reach the dorsal cord in the absence of the guidance cue UNC-6/Netrin or its receptor UNC-5 in C. elegans. However, the axonal processes usually exit their cell bodies in the ventral cord in the absence of both molecules. Strains lacking functional versions of UNC-6 or UNC-5 have a low level of DA and DB motor neuron axon outgrowth defects. We found that mutations in the genes for all six of the ENU-3 proteins function to enhance the outgrowth defects of the DA and DB axons in strains lacking either UNC-6 or UNC-5...
July 7, 2017: Developmental Biology
https://www.readbyqxmd.com/read/28686487/nanoscale-invaginations-of-the-nuclear-envelope-shedding-new-light-on-wormholes-with-elusive-function
#20
Ingmar Schoen, Lina Aires, Jonas Ries, Viola Vogel
Recent advances in fluorescence microscopy have opened up new possibilities to investigate chromosomal and nuclear 3D organization on the nanoscale. We here discuss their potential for elucidating topographical details of the nuclear. Single molecule localization microscopy (SMLM) in combination with immunostainings of lamina proteins readily reveals tube-like invaginations with a diameter of 100-500 nm. Although these invaginations have been established as a frequent and general feature of interphase nuclei across different cell types, their formation mechanism and function have remained largely elusive...
July 7, 2017: Nucleus
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