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Single molecule microscopy

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https://www.readbyqxmd.com/read/28538156/a-simple-marker-assisted-3d-nanometer-drift-correction-method-for-superresolution-microscopy
#1
Hongqiang Ma, Jianquan Xu, Jingyi Jin, Yi Huang, Yang Liu
High-precision fluorescence microscopy such as superresolution imaging or single-particle tracking often requires an online drift correction method to maintain the stability of the three-dimensional (3D) position of the sample at a nanometer precision throughout the entire data acquisition process. Current online drift correction methods require modification of the existing two-dimensional (2D) fluorescence microscope with additional optics and detectors, which can be cumbersome and limit its use in many biological laboratories...
May 23, 2017: Biophysical Journal
https://www.readbyqxmd.com/read/28535412/selective-separation-and-determination-of-glucocorticoids-in-cosmetics-using-dual-template-magnetic-molecularly-imprinted-polymers-and-hplc
#2
Min Liu, Xiaoyan Li, Junjie Li, Zongyuan Wu, Fang Wang, Li Liu, Xuecai Tan, Fuhou Lei
Molecularly imprinting polymers (MIPs) are typically prepared using a single template molecule, which allows selective separation and enrichment of only one target analyte. It is not suitable for determination of complex real samples containing multiple analytes. In order to expand the practical application of imprinted polymers, novel dual-template magnetic molecularly imprinted polymers (MMIPs) were synthesized by surface polymerization using hydrocortisone and dexamethasone as the dual-template molecules in this study...
May 17, 2017: Journal of Colloid and Interface Science
https://www.readbyqxmd.com/read/28533372/visualization-and-characterization-of-individual-type-iii-protein-secretion-machines-in-live-bacteria
#3
Yongdeng Zhang, María Lara-Tejero, Jörg Bewersdorf, Jorge E Galán
Type III protein secretion machines have evolved to deliver bacterially encoded effector proteins into eukaryotic cells. Although electron microscopy has provided a detailed view of these machines in isolation or fixed samples, little is known about their organization in live bacteria. Here we report the visualization and characterization of the Salmonella type III secretion machine in live bacteria by 2D and 3D single-molecule switching superresolution microscopy. This approach provided access to transient components of this machine, which previously could not be analyzed...
May 22, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28532025/new-tetrahedral-zinc-halide-schiff-base-complexes-synthesis-crystal-structure-theoretical-3d-hirshfeld-surface-analyses-antimicrobial-and-thermal-studies
#4
L Taghizadeh, M Montazerozohori, A Masoudiasl, S Joohari, J M White
A new bidentate Schiff base ligand named as N,N'-bis((E)-3-phenylallylidene)butane-1,4-diamine (L) and three its zinc halide complexes were synthesized and characterized by FT-IR, (1)H NMR, (13)C NMR and UV-Vis spectroscopy. The crystal structure of zinc bromide and iodide complexes were characterized using single crystal X-ray diffraction. The two structures are isomorphous, crystallizing in the monoclinic crystal system with space group C2/c with closely similar unit cell dimensions. In these complexes, the Zn(II) ion is in the center of a distorted tetrahedral environment completed by two iminic nitrogen atoms of Schiff base ligand and two halide anions...
August 1, 2017: Materials Science & Engineering. C, Materials for Biological Applications
https://www.readbyqxmd.com/read/28528641/preserving-the-photoswitching-ability-of-standard-fluorescent-proteins-for-correlative-in-resin-super-resolution-and-electron-microscopy
#5
Errin Johnson, Rainer Kaufmann
There are many different correlative light and electron microscopy (CLEM) techniques available. The use of super-resolution microscopy in CLEM is an emerging application and while offering the obvious advantages of improved resolution in the fluorescence image, and therefore more precise correlation to electron microscopy (EM) ultrastructure, it also presents new challenges. Choice of fluorophore, method of fixation, and timing of the fluorescence imaging are critical to the success of super-resolution CLEM and the relative importance, and technical difficulty, of each of these factors depends on the type of super-resolution microscopy being employed...
2017: Methods in Cell Biology
https://www.readbyqxmd.com/read/28528628/millisecond-time-resolution-correlative-light-and-electron-microscopy-for-dynamic-cellular-processes
#6
Ludek Stepanek, Gaia Pigino
Molecular motors propel cellular components at velocities up to microns per second with nanometer precision. Imaging techniques combining high temporal and spatial resolution are therefore indispensable to understand the cellular mechanics at the molecular level. For example, intraflagellar transport (IFT) trains constantly shuttle ciliary components between the base and tip of the eukaryotic cilium. 3-D electron microscopy has revealed IFT train morphology and position, but was unable to correlate these features with the direction of train movement...
2017: Methods in Cell Biology
https://www.readbyqxmd.com/read/28525955/imaging-and-manipulating-energy-transfer-among-quantum-dots-at-individual-dot-resolution
#7
Duc A Nguyen, Huy A Nguyen, Joseph W Lyding, Martin Gruebele
Many processes of interest in quantum dots involve charge or energy transfer from one dot to another. Energy transfer in films of quantum dots as well as between linked quantum dots has been demonstrated by luminescence shift, and the ultrafast time-dependence of energy transfer processes has been resolved. Bandgap variation among dots (energy disorder) and dot separation are known to play an important role in how energy diffuses. Thus it would be very useful if energy transfer could be visualized directly on a dot-by-dot basis among small clusters or within films of quantum dots...
May 19, 2017: ACS Nano
https://www.readbyqxmd.com/read/28523559/techniques-for-single-molecule-mrna-imaging-in-living-cells
#8
Kevin Czaplinski
Typical measurement of macromolecules in a biological sample typically averages the result over all the cells or molecules within the sample, and while these types of measurements provide very useful information, they completely miss heterogeneity among the components within the sample that could be a very important aspect of the sample's function. These techniques are also limited in their ability to examine intracellular spatial orientation of molecular activity, which is often a critical component to the regulation of biological processes, particularly in cells with unique spatial relationships, such as neurons...
2017: Advances in Experimental Medicine and Biology
https://www.readbyqxmd.com/read/28522808/plasmonics-enhanced-smartphone-fluorescence-microscopy
#9
Qingshan Wei, Guillermo Acuna, Seungkyeum Kim, Carolin Vietz, Derek Tseng, Jongjae Chae, Daniel Shir, Wei Luo, Philip Tinnefeld, Aydogan Ozcan
Smartphone fluorescence microscopy has various applications in point-of-care (POC) testing and diagnostics, ranging from e.g., quantification of immunoassays, detection of microorganisms, to sensing of viruses. An important need in smartphone-based microscopy and sensing techniques is to improve the detection sensitivity to enable quantification of extremely low concentrations of target molecules. Here, we demonstrate a general strategy to enhance the detection sensitivity of a smartphone-based fluorescence microscope by using surface-enhanced fluorescence (SEF) created by a thin metal-film...
May 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28522739/imaging-macrophage-accumulation-in-a-murine-model-of-chronic-pancreatitis-with-125-i-iododpa-spect-ct
#10
Catherine A Foss, Liansheng Liu, Ronnie C Mease, Haofan Wang, Pankaj Pasricha, Martin G Pomper
Background and Aims: Pancreatitis remains a diagnostic challenge in patients with mild to moderate disease, with current imaging modalities inadequate. Given the prominent macrophage infiltrate in chronic pancreatitis, we hypothesized that (125)I-iodo-DPA-713 (iodoDPA), a small-molecule radiotracer that specifically targets macrophages, could be used with single photon emission computed tomography-computed tomography (SPECT-CT) to image pancreatic inflammation in a relevant experimental model. Methods: Chronic pancreatitis was induced in C57BL/6 mice with cerulein and were contrasted with vehicle-injected controls...
May 18, 2017: Journal of Nuclear Medicine: Official Publication, Society of Nuclear Medicine
https://www.readbyqxmd.com/read/28521053/compaction-and-condensation-of-dna-mediated-by-the-c-terminal-domain-of-hfq
#11
Antoine Malabirade, Kai Jiang, Krzysztof Kubiak, Alvaro Diaz-Mendoza, Fan Liu, Jeroen A van Kan, Jean-François Berret, Véronique Arluison, Johan R C van der Maarel
Hfq is a bacterial protein that is involved in several aspects of nucleic acids metabolism. It has been described as one of the nucleoid associated proteins shaping the bacterial chromosome, although it is better known to influence translation and turnover of cellular RNAs. Here, we explore the role of Escherichia coli Hfq's C-terminal domain in the compaction of double stranded DNA. Various experimental methodologies, including fluorescence microscopy imaging of single DNA molecules confined inside nanofluidic channels, atomic force microscopy, isothermal titration microcalorimetry and electrophoretic mobility assays have been used to follow the assembly of the C-terminal and N-terminal regions of Hfq on DNA...
May 17, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28520181/encapsulation-and-polymerization-of-white-phosphorus-inside-single-wall-carbon-nanotubes
#12
Martin Hart, Edward R White, Ji Chen, Catriona M McGilvery, Chris J Pickard, Angelos Michaelides, Andrea Sella, Milo Shaffer, Christoph Günter Salzmann
Elemental phosphorus displays an impressive number of allotropes with highly diverse chemical and physical properties. Here, we report that white phosphorus can be filled into single-wall carbon nanotubes (SWCNTs) from the liquid and thereby stabilized against the highly exothermic reaction with atmospheric oxygen. The encapsulated tetraphosphorus molecules were visualized with transmission electron microscopy, but found to convert readily to chain structures inside the SWCNT 'nanoreactors'. The energies of the possible chain structures were determined computationally highlighting a delicate balance between the extent of polymerization and the SWCNT diameter...
May 18, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28518172/super-resolution-microscopy-with-dna-paint
#13
Joerg Schnitzbauer, Maximilian T Strauss, Thomas Schlichthaerle, Florian Schueder, Ralf Jungmann
Super-resolution techniques have begun to transform biological and biomedical research by allowing researchers to observe structures well below the classic diffraction limit of light. DNA points accumulation for imaging in nanoscale topography (DNA-PAINT) offers an easy-to-implement approach to localization-based super-resolution microscopy, owing to the use of DNA probes. In DNA-PAINT, transient binding of short dye-labeled ('imager') oligonucleotides to their complementary target ('docking') strands creates the necessary 'blinking' to enable stochastic super-resolution microscopy...
June 2017: Nature Protocols
https://www.readbyqxmd.com/read/28516950/high-conductance-values-in-%C3%AF-folded-molecular-junctions
#14
Marco Carini, Marta P Ruiz, Imanol Usabiaga, José A Fernández, Emilio J Cocinero, Manuel Melle-Franco, Ismael Diez-Perez, Aurelio Mateo-Alonso
Folding processes play a crucial role in the development of function in biomacromolecules. Recreating this feature on synthetic systems would not only allow understanding and reproducing biological functions but also developing new functions. This has inspired the development of conformationally ordered synthetic oligomers known as foldamers. Herein, a new family of foldamers, consisting of an increasing number of anthracene units that adopt a folded sigmoidal conformation by a combination of intramolecular hydrogen bonds and aromatic interactions, is reported...
May 18, 2017: Nature Communications
https://www.readbyqxmd.com/read/28514955/label-free-biosensing-of-salmonella-enterica-serovars-at-single-cell-level
#15
Bin Wang, Bosoon Park, Bingqian Xu, Yongkuk Kwon
BACKGROUND: The emerging nanotechnologies have greatly facilitated the development of label-free biosensors. The atomic force microscopy (AFM) has been used to study the molecular mechanism of the reactions for protein and aptamers. The surface plasmon resonance (SPR) have been used in fast detections of various pathogens such as bacteria. This study used both AFM and SPR to investigate the complex reactions between aptamers and outer membrane proteins (OMPs) on the surface of S. typhimurium...
May 17, 2017: Journal of Nanobiotechnology
https://www.readbyqxmd.com/read/28514843/single-cell-real-time-visualization-and-quantification-of-perylene-bioaccumulation-in-microorganisms
#16
Xin Jin, Xuejun Guo, Deshu Xu, Yanna Zhao, Xinghui Xia, Fan Bai
Bioaccumulation of perylene in Escherichia coli (E. coli) and Staphylococcus aureus (S. aureus) was visualized and quantified in real time with high sensitivity at high temporal resolution. For the first time, single-molecule fluorescence microscopy (SMFM) with a microfluidic flow chamber and temperature control has enabled us to record the dynamic process of perylene bioaccumulation in single bacterial cells and examine the cell-to-cell heterogeneity. Although with identical genomes, individual E. coli cells exhibited a high degree of heterogeneity in perylene accumulation dynamics, as shown by the high coefficient of variation (C...
May 17, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28513072/self-assembly-and-local-manipulation-of-au-pyridyl-coordination-networks-on-metal-surfaces
#17
Yang Song, Yuxu Wang, Qiao Jin, Kun Zhou, Ziliang Shi, Pei-Nian Liu, Yu-Qiang Ma
Here, using scanning tunneling microscopy (STM), we demonstrate that Au-pyridyl coordination can be used to assemble two-dimensional coordination network structures on metal surfaces, whose polymorphism can be manipulated at both the micro- and nanoscale. Using the same organic ligand, we assembled two distinct polymorphic network structures, which were respectively assisted by threefold Au-pyridyl coordination on Ag(111) with predeposited Au atoms (α-network), and by twofold Au-pyridyl coordination on Au(111) (β-network)...
May 17, 2017: Chemphyschem: a European Journal of Chemical Physics and Physical Chemistry
https://www.readbyqxmd.com/read/28508080/direct-quantitative-measurement-of-the-c%C3%A2-o%C3%A2-%C3%A2-%C3%A2-h-c-bond-by-atomic-force-microscopy
#18
Shigeki Kawai, Tomohiko Nishiuchi, Takuya Kodama, Peter Spijker, Rémy Pawlak, Tobias Meier, John Tracey, Takashi Kubo, Ernst Meyer, Adam S Foster
The hydrogen atom-the smallest and most abundant atom-is of utmost importance in physics and chemistry. Although many analysis methods have been applied to its study, direct observation of hydrogen atoms in a single molecule remains largely unexplored. We use atomic force microscopy (AFM) to resolve the outermost hydrogen atoms of propellane molecules via very weak C═O⋅⋅⋅H-C hydrogen bonding just before the onset of Pauli repulsion. The direct measurement of the interaction with a hydrogen atom paves the way for the identification of three-dimensional molecules such as DNAs and polymers, building the capabilities of AFM toward quantitative probing of local chemical reactivity...
May 2017: Science Advances
https://www.readbyqxmd.com/read/28507142/quantitative-assessment-of-passive-electrical-properties-of-the-cardiac-t-tubular-system-by-frap-microscopy
#19
M Scardigli, C Crocini, C Ferrantini, T Gabbrielli, L Silvestri, R Coppini, C Tesi, E A Rog-Zielinska, P Kohl, E Cerbai, C Poggesi, F S Pavone, L Sacconi
Well-coordinated activation of all cardiomyocytes must occur on every heartbeat. At the cell level, a complex network of sarcolemmal invaginations, called the transverse-axial tubular system (TATS), propagates membrane potential changes to the cell core, ensuring synchronous and uniform excitation-contraction coupling. Although myocardial conduction of excitation has been widely described, the electrical properties of the TATS remain mostly unknown. Here, we exploit the formal analogy between diffusion and electrical conductivity to link the latter with the diffusional properties of TATS...
May 15, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28505445/confining-potential-as-a-function-of-polymer-stiffness-and-concentration-in-entangled-polymer-solutions
#20
Masoumeh Keshavarz, Hans Engelkamp, Jialiang Xu, Onno I Van Den Boomen, Jan C Maan, Peter C M Christianen, Alan E Rowan
We directly track the tube-like motion of individual fluorescently labeled polymer molecules in a concentrated solution of unlabeled polymers. We use a single molecule wide-field fluorescence microscopy technique that is able to determine characteristic properties of the polymer dynamics, such as the confining potential, the tube diameter and the Rouse time. The use of synthetic polymers allows us to investigate the confined motion of the polymer chains not only as a function of polymer concentration (mesh size) but also versus the persistence length of the matrix polymers...
May 15, 2017: Journal of Physical Chemistry. B
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