keyword
MENU ▼
Read by QxMD icon Read
search

Single molecule microscopy

keyword
https://www.readbyqxmd.com/read/28937222/variable-lysozyme-transport-dynamics-on-oxidatively-functionalized-polystyrene-films
#1
Nicholas Anthony Moringo, Hao Shen, Lawrence J Tauzin, Wenxiao Wang, Logan D C Bishop, Christy F Landes
Tuning protein adsorption dynamics at polymeric interfaces is of great interest to many biomedical and material applications. Functionalization of polymer surfaces is a common method to introduce application specific surface chemistries to a polymer interface. In this work single molecule fluorescence microscopy is utilized to determine the adsorption dynamics of lysozyme, a well-studied antibacterial protein, at the interface of polystyrene oxidized via UV exposure, oxygen plasma, and functionalized by ligand grafting to produce varying degrees of surface hydrophilicity, surface roughness, and induced oxygen content...
September 22, 2017: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/28936502/effects-of-stereo-regularity-on-the-single-chain-mechanics-of-polylactic-acid-and-its-implications-on-the-physical-properties-of-bulk-materials
#2
Bo Cheng, Lu Qian, Hu-Jun Qian, Zhong-Yuan Lu, Shuxun Cui
The material properties of polylactic acid (PLA) are largely determined by its stereo-regularity (tacticity). To find out the origin at the molecular level, the single-chain mechanics of poly-l-lactic acid (PLLA) and poly-d,l-lactide (PDLLA) were comparatively investigated by single-molecule atomic force microscopy (AFM). At a low concentration, PLLA adopted a random-coil conformation in a good solvent. At a high concentration, however, the PLLA chain can be induced into a helix, which consumed additional energy during unfolding by further stretching...
September 22, 2017: Nanoscale
https://www.readbyqxmd.com/read/28934663/using-a-fluorescence-quenching-method-to-detect-dna-adsorption-onto-single-walled-carbon-nanotube-surfaces
#3
Kazuo Umemura, Shizuma Sato, Gilbert Bustamante, Jing Yong Ye
Surface modification of single-walled carbon nanotubes (SWNTs) with DNA molecules has attracted much attention in recent years to increase SWNT solubility and make various SWNT-based nanobiodevices. Therefore, there is a critical need to quantify the interaction between DNA molecules and SWNT surfaces, particularly the intermediate structures during DNA adsorption. In this study, we demonstrate the ability to detect the adsorption of DNA oligomers on SWNT surfaces by fluorescence spectroscopy. Fluorescein-labelled, 30mer, thymine oligonucleotides (F-T30) were employed as a fluorescent probe to study the interaction of DNA with SWNTs...
September 12, 2017: Colloids and Surfaces. B, Biointerfaces
https://www.readbyqxmd.com/read/28931892/new-views-on-phototransduction-from-atomic-force-microscopy-and-single-molecule-force-spectroscopy-on-native-rods
#4
Sourav Maity, Nina Ilieva, Alessandro Laio, Vincent Torre, Monica Mazzolini
By combining atomic force microscopy (AFM) imaging and single-molecule force spectroscopy (SMFS), we analyzed membrane proteins of the rod outer segments (OS). With this combined approach we were able to study the membrane proteins in their natural environment. In the plasma membrane we identified native cyclic nucleotide-gated (CNG) channels which are organized in single file strings. We also identified rhodopsin located both in the discs and in the plasma membrane. SMFS reveals strikingly different mechanical properties of rhodopsin unfolding in the two environments...
September 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28930438/supported-planar-mammalian-membranes-as-models-of-in-vivo-cell-surface-architectures
#5
Han-Yuan Liu, Hannah Grant, Hung-Lun Hsu, Raya Sorkin, Filip Bošković, G J L Wuite, Susan Daniel
Emerging technologies use cell plasma membrane vesicles or 'blebs' as an intermediate to form molecularly complete, planar cell surface mimetics that are compatible with a variety of characterization tools and microscopy methods. This approach enables direct incorporation of membrane proteins into supported lipid bilayers without using detergents and reconstitution and preserves native lipids and membrane species. Such a system can be advantageous as in vitro models of in vivo cell surfaces for study of the roles of membrane proteins as drug targets in drug delivery, host-pathogen interactions, tissue engineering, and many other bioanalytical and sensing applications...
September 20, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28926050/temperature-dependence-of-the-conversion-efficiency-of-photochromic-perylene-bisimide-dithienylcyclopentene-triads-embedded-in-a-polymer
#6
Johann Thurn, Johannes Maier, Martti Pärs, Katja Gräf, Mukundan Thelakkat, Jürgen Köhler
Photochromic molecules that are covalently linked to a strong fluorophore combine the requirements of external control and strong fluorescence, which will become increasingly important for super-resolution microscopy techniques based on single molecules. However, given the bulky structure of such constructs, steric hindrance might affect their photoconversion efficiencies upon immobilising them for imaging purposes. In this study the efficiencies of the photochromic conversion processes of molecular triads that are embedded in a polymer have been studied as a function of temperature...
September 19, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28924672/in-situ-super-resolution-imaging-of-genomic-dna-with-oligostorm-and-oligodna-paint
#7
Brian J Beliveau, Alistair N Boettiger, Guy Nir, Bogdan Bintu, Peng Yin, Xiaowei Zhuang, C-Ting Wu
OligoSTORM and OligoDNA-PAINT meld the Oligopaint technology for fluorescent in situ hybridization (FISH) with, respectively, Stochastic Optical Reconstruction Microscopy (STORM) and DNA-based Point Accumulation for Imaging in Nanoscale Topography (DNA-PAINT) to enable in situ single-molecule super-resolution imaging of nucleic acids. Both strategies enable ≤20 nm resolution and are appropriate for imaging nanoscale features of the genomes of a wide range of species, including human, mouse, and fruit fly (Drosophila)...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28924670/correlative-single-molecule-localization-microscopy-and-confocal-microscopy
#8
Christian Soeller, Yufeng Hou, Isuru D Jayasinghe, David Baddeley, David Crossman
Single-molecule localization microscopy allows the ability to image fluorescence labeled molecular targets at nanoscale resolution. However, for many biological questions the ability to provide tissue and cellular context in addition to these high resolution data is eminently informative. Here, we describe a procedure to achieve this aim by correlatively imaging human cardiac tissue first at the nanoscale with direct stochastic optical reconstruction microscopy (dSTORM) and then at the diffraction limit with conventional confocal microscopy...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28924669/measuring-nanometer-distances-between-fluorescent-labels-step-by-step
#9
Susanna Maria Früh, Ingmar Schoen
Super-resolution fluorescence microscopy methods are increasingly applied to study the structure of biological molecules within their natural context or at biomaterial interfaces. We here provide a protocol for Single-molecule High-Resolution Imaging with Photobleaching (SHRImP) that can be used to obtain information about the conformation of large proteins or other macromolecules at the single-molecule level. This procedure requires site-specific protein labeling with fluorescent dyes, immobilization and sample preparation, optimization of imaging buffer composition and microscope settings, and acquisition of short time-lapse movies that capture the stepwise bleaching behavior of individual molecules...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28924668/synthesis-of-janelia-fluor-halotag-and-snap-tag-ligands-and-their-use-in-cellular-imaging-experiments
#10
Jonathan B Grimm, Timothy A Brown, Brian P English, Timothée Lionnet, Luke D Lavis
The development of genetically encoded self-labeling protein tags such as the HaloTag and SNAP-tag has expanded the utility of chemical dyes in microscopy. Intracellular labeling using these systems requires small, cell-permeable dyes with high brightness and photostability. We recently discovered a general method to improve the properties of classic fluorophores by replacing N,N-dimethylamino groups with four-membered azetidine rings to create the "Janelia Fluor" dyes. Here, we describe the synthesis of the HaloTag and SNAP-tag ligands of Janelia Fluor 549 and Janelia Fluor 646 as well as standard labeling protocols for use in ensemble and single-molecule cellular imaging...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28924667/correlative-in-resin-super-resolution-fluorescence-and-electron-microscopy-of-cultured-cells
#11
Errin Johnson, Rainer Kaufmann
Correlative super-resolution light and electron microscopy (super-resolution CLEM) is a powerful and emerging tool in biological research. The practical realization of these two very different microscopy techniques with their individual requirements remains a challenging task. There is a broad range of approaches to choose from, each with their own advantages and limitations. Here, we present a detailed protocol for in-resin super-resolution CLEM of high-pressure frozen and freeze substituted cultured cells...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28924666/brain-slice-staining-and-preparation-for-three-dimensional-super-resolution-microscopy
#12
Christopher L German, Manasa V Gudheti, Annette E Fleckenstein, Erik M Jorgensen
Localization microscopy techniques-such as photoactivation localization microscopy (PALM), fluorescent PALM (FPALM), ground state depletion (GSD), and stochastic optical reconstruction microscopy (STORM)-provide the highest precision for single-molecule localization currently available. However, localization microscopy has been largely limited to cell cultures due to the difficulties that arise in imaging thicker tissue sections. Sample fixation and antibody staining, background fluorescence, fluorophore photoinstability, light scattering in thick sections, and sample movement create significant challenges for imaging intact tissue...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28924665/fully-automated-targeted-confocal-and-single-molecule-localization-microscopy
#13
Jan Philipp Eberle, Walter Muranyi, Holger Erfle, Manuel Gunkel
Single-molecule localization microscopy (SMLM) enables imaging of biological structures in the nanometre range. Long measurement times are the consequence of this kind of microscopy due to the need of acquiring thousands of images. We built a setup that automatically detects target structures using confocal microscopy and images them with SMLM. Utilizing the Konstanz Information Miner (KNIME), we were able to connect a confocal microscope with an SMLM unit for targeted screening. In this process, we developed KNIME plugins to communicate with the microscope components and combined them to a workflow...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28924664/two-color-single-molecule-tracking-in-live-cells
#14
Siegfried Hänselmann, Dirk-Peter Herten
Measuring the kinetics of protein-protein interactions between molecules in the plasma membrane of live cells provides valuable information for understanding dynamic processes, like cellular signaling, on a molecular scale. Two-color single-molecule tracking is a fluorescence microscopy-based method to detect and quantify specific protein-protein interactions on a single-event level, providing sensitivity to heterogeneities and rare events. Fundamentally, it allows following the movement of single molecules of two different protein species in live cells with a localization precision beyond the diffraction limit of light in real time...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28924663/quantitative-single-molecule-localization-microscopy-qsmlm-of-membrane-proteins-based-on-kinetic-analysis-of-fluorophore-blinking-cycles
#15
Franziska Fricke, Joel Beaudouin, Sebastian Malkusch, Roland Eils, Mike Heilemann
Photoswitchable or photoactivatable fluorophores are the key in single-molecule localization microscopy. Next to providing fluorescence images with subdiffraction spatial resolution, additional information is available from observing single fluorophores over time. This includes the characteristic photophysical phenomenon of "blinking" that is exhibited by single fluorescent proteins or fluorophores and follows well-defined kinetic laws. Analyzing the kinetics of "blinking" allows determining the number of fluorophores in a multi-molecular complex...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28924348/single-walled-carbon-nanotubes-ciprofloxacin-nanoantibiotic-strategy-to-improve-ciprofloxacin-antibacterial-activity
#16
Mohyeddin Assali, Abdel Naser Zaid, Farah Abdallah, Motasem Almasri, Rasha Khayyat
As infectious diseases continue to be one of the greatest health challenges worldwide, the demand toward alternative agents is continuously increasing. Recent advancement in nanotechnology has expanded our ability to design and construct nanomaterials to treat bacterial infections. Carbon nanotubes are one among these nanomaterials. Herein, we describe the covalent functionalization of the single-walled carbon nanotubes (SWCNTs) with multiple molecules of ciprofloxacin. The prepared nanoantibiotics were characterized using different techniques, including transmission electron microscopy, Raman spectroscopy, and thermogravimetric analysis...
2017: International Journal of Nanomedicine
https://www.readbyqxmd.com/read/28923964/repeat-e-anchors-xist-rna-to-the-inactive-x-chromosomal-compartment-through-cdkn1a-interacting-protein-ciz1
#17
Hongjae Sunwoo, David Colognori, John E Froberg, Yesu Jeon, Jeannie T Lee
X chromosome inactivation is an epigenetic dosage compensation mechanism in female mammals driven by the long noncoding RNA, Xist. Although recent genomic and proteomic approaches have provided a more global view of Xist's function, how Xist RNA localizes to the inactive X chromosome (Xi) and spreads in cis remains unclear. Here, we report that the CDKN1-interacting zinc finger protein CIZ1 is critical for localization of Xist RNA to the Xi chromosome territory. Stochastic optical reconstruction microscopy (STORM) shows a tight association of CIZ1 with Xist RNA at the single-molecule level...
September 18, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28920931/single-molecule-fret-reveals-the-energy-landscape-of-the-full-length-sam-i-riboswitch
#18
Christoph Manz, Andrei Yu Kobitski, Ayan Samanta, Bettina G Keller, Andres Jäschke, G Ulrich Nienhaus
S-adenosyl-L-methionine (SAM) ligand binding induces major structural changes in SAM-I riboswitches, through which gene expression is regulated via transcription termination. Little is known about the conformations and motions governing the function of the full-length Bacillus subtilis yitJ SAM-I riboswitch. Therefore, we have explored its conformational energy landscape as a function of Mg(2+) and SAM ligand concentrations using single-molecule Förster resonance energy transfer (smFRET) microscopy and hidden Markov modeling analysis...
September 18, 2017: Nature Chemical Biology
https://www.readbyqxmd.com/read/28916665/integrin-%C3%AE-4-overexpression-on-rat-mesenchymal-stem-cells-enhances-transmigration-and-reduces-cerebral-embolism-after-intracarotid-injection
#19
Li-Li Cui, Franziska Nitzsche, Evgeny Pryazhnikov, Marina Tibeykina, Laura Tolppanen, Jussi Rytkönen, Tuulia Huhtala, Jing-Wei Mu, Leonard Khiroug, Johannes Boltze, Jukka Jolkkonen
BACKGROUND AND PURPOSE: Very late antigen-4 (integrin α4β1)/vascular cell adhesion molecule-1 mediates leukocyte trafficking and transendothelial migration after stroke. Mesenchymal stem cells (MSCs) typically express integrin β1 but insufficient ITGA4 (integrin α4), which limits their homing after intravascular transplantation. We tested whether ITGA4 overexpression on MSCs increases cerebral homing after intracarotid transplantation and reduces MSC-borne cerebral embolism. METHODS: Rat MSCs were lentivirally transduced to overexpress ITGA4...
September 15, 2017: Stroke; a Journal of Cerebral Circulation
https://www.readbyqxmd.com/read/28916435/a-novel-electrochemical-immunosensor-based-on-ito-modified-by-carboxyl-ended-silane-agent-for-ultrasensitive-detection-of-mage-1-in-human-serum
#20
Aslı Gündoğdu, Elif Burcu Aydın, Mustafa Kemal Sezgintürk
A new, low-cost electrochemical immunosensor was developed for rapid detection of Melanoma-associated antigen 1 (MAGE-1), a cancer biomarker. The fabrication procedure of immunosensor was based on the covalent immobilization of anti-MAGE-1, biorecognition molecule, on ITO electrode by carboxyethylsilanetriol (CTES) monolayer. The biosensing MAGE-1 antigen was monitored by using electrochemical impedance spectroscopy (EIS) and cyclic voltammetry (CV) technique. Apart from these techniques, single frequency impedance (SFI) was used for investigation of antibody-antigen interactions...
September 12, 2017: Analytical Biochemistry
keyword
keyword
32972
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"