35 results on '"fluorescent-probes"'
Search Results
2. New protein fluorescent labeling methods for carbonylation and S-acylation studies in plants
- Author
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Román Andrea, Priego Salvador, Castro Antonio J., and Alche Juan De Dios
- Subjects
carbonylation ,cycloaddition ,pollen ,s-acylation ,fluorescent-probes ,Microbiology ,QR1-502 ,Physiology ,QP1-981 ,Zoology ,QL1-991 - Published
- 2024
- Full Text
- View/download PDF
3. Electronic Structure of Neodymium(III) and Europium(III) Resolved in Solution Using High-Resolution Optical Spectroscopy and Population Analysis
- Author
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Nielsen, Villads R. M., Nawrocki, Patrick R., Sorensen, Thomas Just, Nielsen, Villads R. M., Nawrocki, Patrick R., and Sorensen, Thomas Just
- Abstract
Solution chemistry of the lanthanide(III) ions is unexplored and relevant: extraction and recycling processes exclusively operate in solution, MRI is a solution-phase method, and bioassays are done in solution. However, the molecular structure of the lanthanide(III) ions in solution is poorly described, especially for the near-IR (NIR)-emitting lanthanides, as these are difficult to investigate using optical tools, which has limited the availability of experimental data. Here we report a custom-built spectrometer dedicated to investigation of lanthanide(III) luminescence in the NIR region. Absorption, luminescence excitation, and luminescence spectra of five complexes of europium(III) and neodymium(III) were acquired. The obtained spectra display high spectral resolution and high signal-to-noise ratios. Using the high quality data, a method for determining the electronic structure for the thermal ground states and emitting states is proposed. It combines Boltzmann distributions with population analysis and uses the experimentally determined relative transition probabilities from both excitation and emission data. The method was tested on the five europium(III) complexes and was used to resolve the electronic structures of the ground state and the emitting state of neodymium(III) in five different solution complexes. This is the first step toward correlating optical spectra with chemical structure in solution for NIR-emitting lanthanide complexes.
- Published
- 2023
4. Squaraine probes for the bimodal staining of lipid droplets and endoplasmic reticulum imaging in live cells
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null Ferdinandus, Jie Ren Tan, Jin Heng Lim, Satoshi Arai, Keitaro Sou, Chi-Lik Ken Lee, and School of Physical and Mathematical Sciences
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Staining and Labeling ,Cell Survival ,Biological sciences [Science] ,Lipid Droplets ,Endoplasmic Reticulum ,Biochemistry ,Molecular Imaging ,Analytical Chemistry ,Diffusion ,Phenols ,Electrochemistry ,Environmental Chemistry ,Fluorescent-Probes ,Cyclobutanes ,Spectroscopy - Abstract
Lipid droplets (LDs) have emerged as a hot target for cancer therapeutics in recent years owing to findings that have shown them to be key organelles involved in maintaining cellular stability and regulating inter-organelle communication through molecular trafficking. LDs emerge from the endoplasmic reticulum (ER) as a form of cellular homeostasis control. We herein report the study of a library of asymmetric squaraines as superior fluorescence probes to track and image LDs in their native state and environment within cancer cells. The probes are highly selective towards LDs and displayed prominent bright fluorescence with just 1 mu M probe concentration. They also possess bimodal LD and ER staining capability via the simple diffusion of small lipophilic molecules. The probes almost instantly stained LDs, while the ER staining rate is dependent on the probe's lipophilicity and the incubation duration. These "on-demand" organelle-selective probes are highly desirable tools for revealing the role of LDs in governing many cellular processes, especially in malignant cells. Ministry of Education (MOE) This work is supported by the Ministry of Education, Singapore, under its Academic Research Fund Tier 1 (No. RT15/19, to C. L. K. L.).
- Published
- 2022
5. Mapping heterogeneous polarity in multicompartment nanoparticles
- Author
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Enrico Rampazzo, Damiano Genovese, Luca Prodi, Francesco Palomba, Luca Petrizza, Nelsi Zaccheroni, Palomba, Francesco, Genovese, Damiano, Petrizza, Luca, Rampazzo, Enrico, Zaccheroni, Nelsi, and Prodi, Luca
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MECHANISM ,NANOCARRIERS ,Nanostructure ,Materials science ,Polarity (physics) ,Nanoparticle ,lcsh:Medicine ,02 engineering and technology ,Nanoreactor ,010402 general chemistry ,01 natural sciences ,NANOSTRUCTURES ,Article ,CARGO ,Nanomaterials ,chemistry.chemical_compound ,SURFACE POLARITY ,MOLECULES ,WATER ,lcsh:Science ,FLUORESCENT-PROBES ,Multidisciplinary ,CATALYSIS ,Solvatochromism ,lcsh:R ,Nile red ,021001 nanoscience & nanotechnology ,0104 chemical sciences ,Förster resonance energy transfer ,chemistry ,Chemical physics ,lcsh:Q ,0210 nano-technology ,ENERGY-TRANSFER - Abstract
Understanding polarity gradients inside nanomaterials is essential to capture their potential as nanoreactors, catalysts or in drug delivery applications. We propose here a method to obtain detailed, quantitative information on heterogeneous polarity in multicompartment nanostructures. The method is based on a 2-steps procedure, (i) deconvolution of complex emission spectra of two solvatochromic probes followed by (ii) spectrally resolved analysis of FRET between the same solvatochromic dyes. While the first step yields a list of polarities probed in the nanomaterial suspension, the second step correlates the polarities in space. Colocalization of polarities falling within few nanometer radius is obtained via FRET, a process called here nanopolarity mapping. Here, Prodan and Nile Red are tested to map the polarity of a water-dispersable, multicompartment nanostructure, named PluS nanoparticle (NPs). PluS NPs are uniform core-shell nanoparticles with silica cores (diameter ~10 nm) and Pluronic F127 shell (thickness ~7 nm). The probes report on a wide range of nanopolarities among which the dyes efficiently exchange energy via FRET, demonstrating the coexistence of a rich variety of environments within nanometer distance. Their use as a FRET couple highlights the proximity of strongly hydrophobic sites and hydrated layers, and quantitatively accounts for the emission component related to external water, which remains unaffected by FRET processes. This method is general and applicable to map nanopolarity in a large variety of nanomaterials.
- Published
- 2018
6. C24:0 and C24:1 sphingolipids in cholesterol-containing, five- and six-component lipid membranes
- Author
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Bioquímica y biología molecular, Biokimika eta biologia molekularra, González Ramírez, Emilio José, García Arribas, Aritz, Sot, Jesús, Goñi Urcelay, Félix María, Alonso Izquierdo, Alicia, Bioquímica y biología molecular, Biokimika eta biologia molekularra, González Ramírez, Emilio José, García Arribas, Aritz, Sot, Jesús, Goñi Urcelay, Félix María, and Alonso Izquierdo, Alicia
- Abstract
The biophysical properties of sphingolipids containing lignoceric (C24:0) or nervonic (C24:1) fatty acyl residues have been studied in multicomponent lipid bilayers containing cholesterol (Chol), by means of confocal microscopy, differential scanning calorimetry and atomic force microscopy. Lipid membranes composed of dioleoyl phosphatidylcholine and cholesterol were prepared, with the addition of different combinations of ceramides (C24:0 and/or C24:1) and sphingomyelins (C24:0 and/or C24:1). Results point to C24:0 sphingolipids, namely lignoceroyl sphingomyelin (lSM) and lignoceroyl ceramide (lCer), having higher membrane rigidifying properties than their C24:1 homologues (nervonoyl SM, nSM, or nervonoyl Cer, nCer), although with a similar strong capacity to induce segregated gel phases. In the case of the lSM-lCer multicomponent system, the segregated phases have a peculiar fibrillar or fern-like morphology. Moreover, the combination of C24:0 and C24:1 sphingolipids generates interesting events, such as a generalized bilayer dynamism/instability of supported planar bilayers. In some cases, these sphingolipids give rise to exothermic curves in thermograms. These peculiar features were not present in previous studies of C24:1 combined with C16:0 sphingolipids. Conclusions of our study point to nSM as a key factor governing the relative distribution of ceramides when both lCer and nCer are present. The data indicate that lCer could be easier to accommodate in multicomponent bilayers than its C16:0 counterpart. These results are relevant for events of membrane platform formation, in the context of sphingolipid-based signaling cascades.
- Published
- 2020
7. Simultaneous Detection of Cu2+ and Hg2+ via Two Mutually Independent Sensing Pathways of Biimidazole Push-Pull Dye
- Author
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Dey, Nilanjan, Kulhánek, Jiří, Bureš, Filip, Bhattacharya, Santanu, Dey, Nilanjan, Kulhánek, Jiří, Bureš, Filip, and Bhattacharya, Santanu
- Abstract
An easy-to-synthesize, biimidazole push-pull dye has been designed, comprising two mutually independent analyte binding sites. It has been found that Hg2+ coordinates with the compound via thiophene residue and inhibits the charge-transfer (CT) process, which transforms the yellow-colored solution colorless. On the other hand, an unusually large bathochromic shift is observed in CT band upon addition of Cu2+, accompanied by a change in the color from yellow to red. A rather surprising observation is made from mechanistic studies, where it indicates that Cu2+ catalyzes the formation of 6-imino-5,6-dihydropyrrolo[3,4-d]imidazole-4(3H)-one (IPIMO) derivative. This strongly affects the charge-transfer state of the compound as well as its polarizability. Most importantly, this is the first report where IPIMO formation reaction has been exploited for sensing of a metal ion. Further, the system was employed for screening of both of these metal ions in wastewater samples. Recovery values ranging from 93.3 to 105.0% confirm the suitability of the present method for estimating trace level of metal ions in complex matrices. In addition, inexpensive on-site detection systems were developed using paper strips., Bylo navrženo snadno syntetizovatelné biimidazolové push-pull barvivo, které obsahuje dvě vzájemně nezávislá vazebná místa analytů. Bylo zjištěno, že ionty Hg2+ koordinují se sloučeninou přes thiofenový zbytek a inhibují tak proces přenosu náboje, který mění původně žlutě zbarvený roztok na bezbarvý. Na druhé straně byl pozorován neobvykle velký batochromický posun CT pásu po přidání iontů Cu2+ doprovázený změnou barvy ze žluté na červenou. Ionty Cu2+ katalyzují tvorbu derivátu 6-imino-5,6-dihydropyrrolo[3,4-d] imidazol-4(3H)-onu (IPIMO). což silně ovlivňuje stav přenosu náboje sloučeniny i její polarizovatelnost. Jedná se o první využití reakce IPIMO pro detekci kovových iontů. Systém byl použit pro screening obou těchto iontů ve vzorcích odpadních vod. Hodnoty výtěžnosti v rozmezí od 93,3 do 105,0% potvrzují vhodnost předkládaného způsobu pro odhadování stopové hladiny kovových iontů ve složitých matricích. Byly vyvinuty levné testovací papírové proužky pro terénní detekci.
- Published
- 2020
8. C24:0 and C24:1 sphingolipids in cholesterol-containing, five- and six-component lipid membranes
- Author
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Emilio J. González-Ramírez, Jesús Sot, Aritz B. García-Arribas, Alicia Alonso, and Félix M. Goñi
- Subjects
0301 basic medicine ,Ceramide ,mechanical-properties ,Biophysics ,lcsh:Medicine ,Context (language use) ,Article ,biophysical properties ,fluorescent-probes ,Membrane biophysics ,Atomic force microscopy ,03 medical and health sciences ,chemistry.chemical_compound ,0302 clinical medicine ,atomic-force microscopy ,ceramide ,mitochondrial cholesterol ,lcsh:Science ,Lipid bilayer ,domains ,chain-length ,sphingomyelinase activity ,Multidisciplinary ,Cholesterol ,Bilayer ,lcsh:R ,Membrane structure and assembly ,Sphingolipid ,030104 developmental biology ,Membrane ,chemistry ,lcsh:Q ,lipids (amino acids, peptides, and proteins) ,Sphingomyelin ,Biological fluorescence ,030217 neurology & neurosurgery ,bilayers - Abstract
The biophysical properties of sphingolipids containing lignoceric (C24:0) or nervonic (C24:1) fatty acyl residues have been studied in multicomponent lipid bilayers containing cholesterol (Chol), by means of confocal microscopy, differential scanning calorimetry and atomic force microscopy. Lipid membranes composed of dioleoyl phosphatidylcholine and cholesterol were prepared, with the addition of different combinations of ceramides (C24:0 and/or C24:1) and sphingomyelins (C24:0 and/or C24:1). Results point to C24:0 sphingolipids, namely lignoceroyl sphingomyelin (lSM) and lignoceroyl ceramide (lCer), having higher membrane rigidifying properties than their C24:1 homologues (nervonoyl SM, nSM, or nervonoyl Cer, nCer), although with a similar strong capacity to induce segregated gel phases. In the case of the lSM-lCer multicomponent system, the segregated phases have a peculiar fibrillar or fern-like morphology. Moreover, the combination of C24:0 and C24:1 sphingolipids generates interesting events, such as a generalized bilayer dynamism/instability of supported planar bilayers. In some cases, these sphingolipids give rise to exothermic curves in thermograms. These peculiar features were not present in previous studies of C24:1 combined with C16:0 sphingolipids. Conclusions of our study point to nSM as a key factor governing the relative distribution of ceramides when both lCer and nCer are present. The data indicate that lCer could be easier to accommodate in multicomponent bilayers than its C16:0 counterpart. These results are relevant for events of membrane platform formation, in the context of sphingolipid-based signaling cascades. EGR and AGA were postdoctoral scientists supported by the University of the Basque Country (UPV/EHU). This work was supported in part by the Spanish Ministerio de Ciencia e Innovacion (MCI), Agencia Estatal de Investigacion (AEI) and Fondo Europeo de Desarrollo Regional (FEDER) (Grant No. PGC2018-099857-B-I00), by the Basque Government (Grants Nos. IT1264-19, IT1270-19), by the Fundacion Biofisica Bizkaia and by the Basque Excellence Research Centre (BERC) program of the Basque Government. Dedicated to Professor J. C. Gomez-Fernandez, on occasion of his 70th birthday.
- Published
- 2020
9. Flipper Probes for the Community
- Author
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Lea Assies, José García-Calvo, Francesca Piazzolla, Samantha Sanchez, Takehiro Kato, Luc Reymond, Antoine Goujon, Adai Colom, Javier López-Andarias, Karolína Straková, Dora Mahecic, Vincent Mercier, Margot Riggi, Noemi Jiménez-Rojo, Chloé Roffay, Giuseppe Licari, Maria Tsemperouli, Frederik Neuhaus, Alexandre Fürstenberg, Eric Vauthey, Sascha Hoogendoorn, Marcos Gonzalez-Gaitan, Andreas Zumbuehl, Kaori Sugihara, Jean Gruenberg, Howard Riezman, Robbie Loewith, Suliana Manley, Aurelien Roux, Nicolas Winssinger, Naomi Sakai, Stefan Pitsch, and Stefan Matile
- Subjects
Membrane Potential, Mitochondrial ,NCCR Chemical Biology ,nccr chemical biology ,push ,space ,General Medicine ,General Chemistry ,Flipper probes ,Fluorescence imaging ,membrane tension ,fluorescent-probes ,Chemistry ,Microscopy, Fluorescence ,fluorescence imaging ,TheoryofComputation_ANALYSISOFALGORITHMSANDPROBLEMCOMPLEXITY ,ddc:570 ,ddc:540 ,flipper probes ,order ,Coloring Agents ,QD1-999 ,Fluorescent Dyes - Abstract
This article describes four fluorescent membrane tension probes that have been designed, synthesized, evaluated, commercialized and applied to current biology challenges in the context of the NCCR Chemical Biology. Their names are Flipper-TR®, ER Flipper-TR®, Lyso Flipper-TR®, and Mito Flipper-TR®. They are available from Spirochrome.
- Published
- 2021
10. Lipid phase separation in the presence of hydrocarbons in giant unilamellar vesicles
- Author
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Jonathan Barnoud, Rianne Bartelds, Siewert J. Marrink, Arnold J. Boersma, Bert Poolman, Enzymology, and Molecular Dynamics
- Subjects
0301 basic medicine ,PLASMA-MEMBRANE VESICLES ,polycyclic aromatic hydrocarbons ,Biophysics ,MODEL MEMBRANES ,fluorescence microscopy ,Biochemistry ,COMPUTER-SIMULATION ,POLYCYCLIC AROMATIC-HYDROCARBONS ,03 medical and health sciences ,chemistry.chemical_compound ,0302 clinical medicine ,BILAYER-MEMBRANES ,Structural Biology ,Phase (matter) ,Organic chemistry ,biological membranes ,hydrocarbons ,Lipid bilayer phase behavior ,lcsh:QH301-705.5 ,Molecular Biology ,FLUORESCENT-PROBES ,membrane partitioning ,Chemistry ,Vesicle ,Bilayer ,unilamellar vesicles ,Biological membrane ,BIOLOGICAL-MEMBRANES ,MOLECULAR-DYNAMICS SIMULATION ,Hydrophobe ,030104 developmental biology ,Membrane ,lcsh:Biology (General) ,ANCHORED PROTEINS ,lipid phase separation ,Pyrene ,CELL-MEMBRANES ,030217 neurology & neurosurgery - Abstract
Hydrophobic hydrocarbons are absorbed by cell membranes. The effects of hydrocarbons on biological membranes have been studied extensively, but less is known how these compounds affect lipid phase separation. Here, we show that pyrene and pyrene-like hydrocarbons can dissipate lipid domains in phase separating giant unilamellar vesicles at room temperature. In contrast, related aromatic compounds left the phase separation intact, even at high concentration. We hypothesize that this behavior is because pyrene and related compounds lack preference for either the liquid-ordered (Lo) or liquid-disordered (Ld) phase, while larger molecules prefer Lo, and smaller, less hydrophobic molecules prefer Ld. In addition, our data suggest that localization in the bilayer (depth) and the shape of the molecules might contribute to the effects of the aromatic compounds. Localization and shape of pyrene and related compounds are similar to cholesterol and therefore these molecules could behave as such.
- Published
- 2017
11. Modified Epoxy Coatings for Corrosion Detection
- Author
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G. Gunasekaran, Madhu Vinjamur, G.S. Dhole, and R. Baloji Naik
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Materials science ,020209 energy ,General Chemical Engineering ,02 engineering and technology ,engineering.material ,Underfilm Corrosion ,Corrosion ,Coating ,Coatings ,Complex ,0202 electrical engineering, electronic engineering, information engineering ,General Materials Science ,Composite material ,Corrosion Detection ,Film ,Behavior ,Impedance ,General Chemistry ,Epoxy ,021001 nanoscience & nanotechnology ,Corrosion Resistance ,visual_art ,Alloy ,visual_art.visual_art_medium ,engineering ,Fluorescent-Probes ,Polarization Resistance ,0210 nano-technology - Abstract
An epoxy resin based corrosion sensing coating was prepared by modifying epoxy resin with varying amounts of 1,10-phenanthroline-5-amine. The modified epoxy resins were characterized by spectroscopic methods (Fourier transform infrared, nuclear magnetic resonance, and UV-visible spectroscopy) and epoxide content. Thermal analysis of unmodified and modified resins was also performed using thermogravimetric analyzer and differential scanning calorimeter. These resins were mixed with a hardener and applied on steel specimens. The corrosion sensing property of these resins was studied by immersing the steel specimen coated with modified resins in 3.5% NaCl solution. Electrochemical impedance spectroscopy was used to study the corrosion resistance of the coated specimens. The modified epoxy coatings immersed in 3.5% NaCl solution showed red colored spots at metal/coating interface at an early stage of corrosion. Color change and polarization resistance of coating was correlated to describe the mechanism of corrosion detection. Coating from the point of color change was removed and bare metal was analyzed by scanning electron microscopy to reconfirm that the point of color change was the corrosion site. Modified epoxy coating has shown potential to detect the onset of corrosion at an early stage.
- Published
- 2017
12. Azurin and HS–: Towards Implementation of a Sensor for HS– Detection
- Author
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Claudio Pellecchia, Gottfried J. Palm, Leandro C. Tabares, Lionel A. Ndamba, David Kohlhause, Maria Strianese, Institute for Biochemistry, Universität Greifswald - University of Greifswald, Institute for Biophysical Chemistry & Centre for Biomolecular Magnetic Resonance, Goethe-University Frankfurt, 60438 Frankfurt am Main, Germany, Institut de Biologie Intégrative de la Cellule (I2BC), and Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS)
- Subjects
binding ,Absorption spectroscopy ,[SDV]Life Sciences [q-bio] ,chemistry.chemical_element ,mechanism ,010402 general chemistry ,Photochemistry ,01 natural sciences ,Fluorescence ,law.invention ,cytochrome-oxidase ,fluorescent-probes ,Inorganic Chemistry ,03 medical and health sciences ,law ,Azurin ,hydrogen-sulfide ,Metalloprotein ,Cobalt ,Copper ,Hydrogen sulfide ,Structure elucidation ,Reactivity (chemistry) ,Electron paramagnetic resonance ,030304 developmental biology ,chemistry.chemical_classification ,0303 health sciences ,complexes ,Chemistry ,carbon-monoxide ,Bioinorganic chemistry ,0104 chemical sciences ,3. Good health ,fluorogenic probes ,nitric-oxide reactivity ,spectroscopic characterization - Abstract
WOS:000458689800019; International audience; Hydrogen sulfide (H2S) is an important biological messenger, which recently joined nitric oxide (NO) and carbon monoxide (CO) as an endogenously produced gasotransmitter. This discovery resulted in a renewed interest towards H2S and, in particular, in its reactivity with biological and bioinorganic targets. However, in the scientific literature studies exploring the reactivity of H2S/HS- with non-heme proteins are rare. In this work, we studied the interaction of HS- with the natural metalloprotein Cu-azurin and its cobalt variant via UV-Vis, fluorescence, and EPR spectroscopy, as well as X-ray diffraction. Interaction of HS- significantly enhances the fluorescence emission of fluorescently labelled copper azurin in buffered solutions and at physiological pH. In contrast, fluorescently labelled cobalt azurin undergoes a fluorescence quenching in the presence of HS- in line with the changes observed in the absorption spectrum of the construct. The results highlight the potential of azurin for implementation in a fast and simple HS- sensor.
- Published
- 2019
13. The Munc18-1 domain 3a hinge-loop controls syntaxin-1A nanodomain assembly and engagement with the SNARE complex during secretory vesicle priming
- Author
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Rachel S. Gormal, Andreas Papadopulos, Brett M. Collins, Callista B. Harper, Frederic A. Meunier, Daniel Choquet, Isabel C. Morrow, Eric Hosy, Ye Jin Chai, Ravikiran Kasula, Adekunle T. Bademosi, Kasula, Ravikiran, Chai, Ye Jin, Bademosi, Adekunle TD, Harper, Callista B, Gormal, Rachel S, Morrow, Isabel C, Hosy, Eric, Collins, Brett M, Choquet, Daniel, Papadopulos, Andreas, and Meunier, Frederic A
- Subjects
Models, Molecular ,high-density ,0301 basic medicine ,fusion ,Conformational change ,Botulinum Toxins ,Mutant ,Syntaxin 1 ,Priming (immunology) ,Biology ,PC12 Cells ,Protein Structure, Secondary ,Article ,fluorescent-probes ,Cell membrane ,03 medical and health sciences ,Munc18 Proteins ,Protein Domains ,localization microscopy ,medicine ,Animals ,Humans ,molecules ,Research Articles ,SNARE complex assembly ,Gene knockdown ,Secretory Vesicles ,plasma-membrane ,Cell Biology ,Secretory Vesicle ,proteins ,Rats ,Cell biology ,030104 developmental biology ,medicine.anatomical_structure ,nervous system ,Area Under Curve ,docking ,Nanoparticles ,biological phenomena, cell phenomena, and immunity ,SNARE Proteins ,exocytosis ,SNARE complex ,living cells - Abstract
Kasula et al. use single-molecule imaging to reveal the diffusional signature for the SNARE proteins Munc18-1 and syntaxin-1A during secretory vesicle priming. The authors show that a conformational change in the Munc18-1 domain 3a hinge-loop regulates engagement of syntaxin-1A in the SNARE complex., Munc18-1 and syntaxin-1A control SNARE-dependent neuroexocytosis and are organized in nanodomains on the plasma membrane of neurons and neurosecretory cells. Deciphering the intra- and intermolecular steps via which they prepare secretory vesicles (SVs) for fusion is key to understanding neuronal and hormonal communication. Here, we demonstrate that expression of a priming-deficient mutant lacking 17 residues of the domain 3a hinge-loop (Munc18-1Δ317-333) in PC12 cells engineered to knockdown Munc18-1/2 markedly prolonged SV docking. Single-molecule analysis revealed nonhomogeneous diffusion of Munc18-1 and syntaxin-1A in and out of partially overlapping nanodomains. Whereas Munc18-1WT mobility increased in response to stimulation, syntaxin-1A became less mobile. These Munc18-1 and syntaxin-1A diffusional switches were blocked by the expression of Munc18-1Δ317-333, suggesting that a conformational change in the Munc18-1 hinge-loop controls syntaxin-1A and subsequent SNARE complex assembly. Accordingly, syntaxin-1A confinement was prevented by expression of botulinum neurotoxin type E. The Munc18-1 domain 3a hinge-loop therefore controls syntaxin-1A engagement into SNARE complex formation during priming.
- Published
- 2016
14. Biolasing from Individual Cells in a Low‐ Q Resonator Enables Spectral Fingerprinting
- Author
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Valentin Barna, Dhruv Saxena, Damiano Genovese, Luisa De Cola, Dedy Septiadi, Riccardo Sapienza, The Leverhulme Trust, Septiadi D., Barna V., Saxena D., Sapienza R., Genovese D., and De Cola L.
- Subjects
Technology ,Materials science ,Materials Science ,0205 Optical Physics ,Physics::Optics ,Materials Science, Multidisciplinary ,02 engineering and technology ,010402 general chemistry ,01 natural sciences ,Signal ,biolasing ,Light scattering ,Spectral line ,Quantitative Biology::Cell Behavior ,law.invention ,Resonator ,law ,0912 Materials Engineering ,FLUORESCENT-PROBES ,PCA ,Science & Technology ,business.industry ,Scattering ,scattering ,Optics ,021001 nanoscience & nanotechnology ,Laser ,LIGHT-SCATTERING ,Atomic and Molecular Physics, and Optics ,0104 chemical sciences ,Electronic, Optical and Magnetic Materials ,0906 Electrical and Electronic Engineering ,cell distinction ,Physical Sciences ,Optoelectronics ,biosensing ,Whispering-gallery wave ,0210 nano-technology ,business ,ddc:600 ,Lasing threshold - Abstract
Lasing from cells has recently been subject of thorough investigation because of the potential for sensitive and fast biosensing. Yet, lasing from individual cells has been studied in high-quality resonators, resulting in limited dependence of the lasing properties on the cellular microenvironment. Here, lasing is triggered by cells floating in a low quality factor resonator composed of a disposable poly(methyl methacrylate) (PMMA) cell counting-slide, hence in absence of conventional high-reflectivity optical cavities. The exceptional spectral narrowing and the steep slope increase in the input–output energy diagram prove occurrence of laser action in presence of cells. The observed biolasing is an intrinsically dynamic signal, with large fluctuations in intensity and spectrum determined by the optical properties of the individual cell passing through the pump beam. Numerical simulations of the scattering efficiency rule out the possibility of optical feedback from either WGM (whispering gallery mode) or multiple scattering within the cell, and point to the enhanced directional scattering field as the crucial contribution of cells to the laser action. Finally, principal component analysis of lasing spectra measured from freely diffusing cells yields spectral fingerprints of cell populations, which allows discriminating cancer from healthy Rattus glial cells with high degree of confidence.
- Published
- 2020
15. Aza-macrocyclic triphenylamine ligands for G-quadruplex recognition
- Author
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Matthew Reynolds, Estefanía Delgado-Pinar, Jorge González-García, Isabel Pont, Ramon Vilar, Enrique García-España, M. Teresa Albelda, Mario Inclán, and The Royal Society
- Subjects
0301 basic medicine ,Circular dichroism ,aggregation-induced emission ,Chemistry, Multidisciplinary ,amines ,010402 general chemistry ,G-quadruplex ,Triphenylamine ,01 natural sciences ,Catalysis ,CIRCULAR-DICHROISM ,03 medical and health sciences ,chemistry.chemical_compound ,General chemistry ,fluorescent probes ,triphenylamine polyamines ,Molecule ,Spectroscopy ,FLUORESCENT-PROBES ,Science & Technology ,Chemistry ,INTRAMOLECULAR CHARGE-TRANSFER ,ANTICANCER DRUG DESIGN ,Organic Chemistry ,aggregation ,FORMING REGION ,DNA ,General Chemistry ,Fluorescence ,G-quadruplexes ,0104 chemical sciences ,Crystallography ,030104 developmental biology ,Förster resonance energy transfer ,2-PHOTON ABSORPTION ,PROMOTER REGION ,Physical Sciences ,EQUILIBRIUM-CONSTANTS ,GRAPHENE OXIDE ,03 Chemical Sciences ,macrocyclic ligands - Abstract
A new series of triphenylamine-based ligands with one (TPA1PY), two (TPA2PY) or three pendant aza-macrocycle(s) (TPA3PY) has been synthesised and studied by means of pH-metric titrations, UV/Vis spectroscopy and fluorescence experiments. The affinity of these ligands for G-quadruplex (G4) DNA and the selectivity they show for G4s over duplex DNA were investigated by Forster resonance energy transfer (FRET) melting assays, fluorimetric titrations and circular dichroism spectroscopy. Interestingly, the interactions of the bi- and especially the tri-branched ligands with G4s lead to a very intense redshifted fluorescence emission band that may be associated with intermolecular aggregation between the molecule and DNA. This light-up effect allows the application of the ligands as fluorescence probes to selectively detect G4s.
- Published
- 2018
16. Flat-field super-resolution localization microscopy with a low-cost refractive beam-shaping element
- Author
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Rowlands, Christopher J., Ströhl, Florian, Ramirez, Pedro P. Vallejo, Scherer, Katharina M., Kaminski, Clemens F., Rowlands, Christopher J [0000-0002-8261-2371], Ströhl, Florian [0000-0002-2603-0780], Kaminski, Clemens F [0000-0002-5194-0962], and Apollo - University of Cambridge Repository
- Subjects
Multidisciplinary Sciences ,Science & Technology ,ILLUMINATION ,0299 Other Physical Sciences ,lcsh:R ,lcsh:Medicine ,Science & Technology - Other Topics ,lcsh:Q ,lcsh:Science ,FLUORESCENT-PROBES ,Article ,OPTICAL RECONSTRUCTION MICROSCOPY - Abstract
Super-resolution single-molecule localization microscopy, often referred to as PALM/STORM, works by ensuring that fewer than one fluorophore in a diffraction-limited volume is emitting at any one time, allowing the observer to infer that the emitter is located at the center of the point-spread function. This requires careful control over the incident light intensity in order to control the rate at which fluorophores are switched on; if too many fluorophores are activated, their point-spread functions overlap, which impedes efficient localization. If too few are activated, the imaging time is impractically long. There is therefore considerable recent interest in constructing so-called ‘top-hat’ illumination profiles that provide a uniform illumination over the whole field of view. We present the use of a single commercially-available low-cost refractive beamshaping element that can be retrofitted to almost any existing microscope; the illumination profile created by this element demonstrates a marked improvement in the power efficiency of dSTORM microscopy, as well as a significant reduction in the propensity for reconstruction artifacts, compared to conventional Gaussian illumination.
- Published
- 2018
17. Detection and Characterization of Reactive Oxygen and Nitrogen Species in Biological Systems by Monitoring Species-Specific Products
- Author
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Radosław Podsiadły, Adam Sikora, Marcos Lopez, Micael Hardy, Balaraman Kalyanaraman, Radosław Michalski, Hakim Karoui, Olivier Ouari, Jacek Zielonka, Jeannette Vasquez-Vivar, Institut de Chimie Radicalaire (ICR), Aix Marseille Université (AMU)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Medical College of Wisconsin, Institute of Applied Radiation Chemistry [Łódź University of Technology], Łódź University of Technology, Institute of Polymer and Dye Technology [Łódź University of Technology], Biomedical Translational Research Group, Biotechnology, Fundacion Cardiovascular de Colombia, Floridablanca, Santander, Colombia, Universidad Industrial de Santander [Bucaramanga] (UIS), Graduate Program of Biomedical Sciences, Faculty of Health, Universidad del Valle, Cali, Colombia, Department of Biophysics and §Free Radical Research Center, Medical College of Wisconsin, Milwaukee, Wisconsin 53226, United States, and ANR-16-CE07-0023,Vivo2,Développement de nouvelles sondes fluorescentes à base de phénanthridine pour la détection et la quantification du radical superoxyde dans les systèmes biologiques.(2016)
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0301 basic medicine ,Physiology ,Clinical Biochemistry ,superoxide radical anion ,Biochemistry ,Oxygen ,in-vivo ,chemistry.chemical_compound ,Oxidizing agent ,amplex red assay ,General Environmental Science ,chemistry.chemical_classification ,biology ,Chemistry ,spin trapping ,Forum Review Articles ,Reactive Nitrogen Species ,hypochlorous acid ,spin-trapping properties ,living cells ,Peroxynitrite ,Signal Transduction ,Nitrogen ,nitric-oxide synthase ,boronate probes ,chemistry.chemical_element ,hydroethidine ,peroxynitrite ,Superoxide dismutase ,fluorescent-probes ,03 medical and health sciences ,Animals ,Humans ,[CHIM]Chemical Sciences ,Molecular Biology ,Reactive nitrogen species ,Fluorescent Dyes ,Reactive oxygen species ,Spin trapping ,hydrogen-peroxide ,Cell Biology ,030104 developmental biology ,Enzyme ,nitronyl nitroxides ,diagnostic marker products ,biology.protein ,General Earth and Planetary Sciences ,Reactive Oxygen Species - Abstract
Significance: Since the discovery of the superoxide dismutase enzyme, the generation and fate of short-lived oxidizing, nitrosating, nitrating, and halogenating species in biological systems has been of great interest. Despite the significance of reactive oxygen species (ROS) and reactive nitrogen species (RNS) in numerous diseases and intracellular signaling, the rigorous detection of ROS and RNS has remained a challenge. Recent Advances: Chemical characterization of the reactions of selected ROS and RNS with electron paramagnetic resonance (EPR) spin traps and fluorescent probes led to the establishment of species-specific products, which can be used for specific detection of several forms of ROS and RNS in cell-free systems and in cultured cells in vitro and in animals in vivo. Profiling oxidation products from the ROS and RNS probes provides a rigorous method for detection of those species in biological systems. Critical Issues: Formation and detection of species-specific products from the probes enables accurate characterization of the oxidative environment in cells. Measurement of the total signal (fluorescence, chemiluminescence, etc.) intensity does not allow for identification of the ROS/RNS formed. It is critical to identify the products formed by using chromatographic or other rigorous techniques. Product analyses should be accompanied by monitoring of the intracellular probe level, another factor controlling the yield of the product(s) formed. Future Directions: More work is required to characterize the chemical reactivity of the ROS/RNS probes, and to develop new probes/detection approaches enabling real-time, selective monitoring of the specific products formed from the probes. Antioxid. Redox Signal. 28, 1416–1432.
- Published
- 2018
18. Rutin protects against H2O2-triggered impaired relaxation of placental arterioles and induces Nrf2-mediated adaptation in Human Umbilical Vein Endothelial Cells exposed to oxidative stress
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Bart Ides, Edwin C. M. Mariman, Elias S.J. Arnér, Philippe Vangrieken, Paul M. H. Schiffers, Aalt Bast, Irina Pader, Ger M.J. Janssen, Katarina Johansson, Guido R.M.M. Haenen, Mireille M.J.P.E. Sthijns, Freek G. Bouwman, Kristien J.A. Lemmens, RS: NUTRIM - R3 - Respiratory & Age-related Health, RS: NUTRIM - R3 - Chronic inflammatory disease and wasting, Farmacologie en Toxicologie, RS: CARIM - R3.02 - Hypertension and target organ damage, Promovendi NTM, Ondersteunend personeel NTM, RS: NUTRIM - HB/BW section A, RS: NUTRIM - R1 - Obesity, diabetes and cardiovascular health, RS: NUTRIM - R4 - Gene-environment interaction, RS: CARIM - R3.05 - Vascular remodeling in cardiovascular disease, and RS: CARIM - R2.03 - ECM + Wnt signaling
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0301 basic medicine ,Antioxidant ,medicine.medical_treatment ,Rutin ,NF-KAPPA-B ,Biophysics ,Pharmacology ,medicine.disease_cause ,Biochemistry ,Umbilical vein ,Nrf2 ,PATHWAY ,03 medical and health sciences ,chemistry.chemical_compound ,0302 clinical medicine ,FLAVANOL (-)-EPICATECHIN ,medicine ,GLUTATHIONE ,Adaptation ,Molecular Biology ,FLUORESCENT-PROBES ,chemistry.chemical_classification ,Flavonoids ,Reactive oxygen species ,Endothelial function ,Glutathione ,KEAP1 ,DIETARY FLAVONOID QUERCETIN ,DYSFUNCTION ,030104 developmental biology ,GCLC ,MEDIATED DILATION ,chemistry ,REACTIVE OXYGEN ,030217 neurology & neurosurgery ,Oxidative stress - Abstract
Background: Rutin intake is associated with a reduced risk of cardiovascular disease (CVD). The exact mechanism by which rutin can protect against CVD development is still enigmatic. Since, rutin is a compound with a relatively short half-life, the direct antioxidant effect of rutin cannot explain the long-lasting effect on human health. We hypothesized that rutin next to its direct antioxidant effect that improves endothelial function, may also induce an adaptive response in endogenous antioxidant systems.Methods and results: In Human Umbilical Vein Endothelial Cells (HUVECs), the direct antioxidant effect was confirmed. During scavenging of Reactive Oxygen Species (ROS), rutin is oxidized into a quinone derivative. HUVECs pretreated with rutin quinone became better protected against a second challenge with oxidative stress 3 h later. LC-MS/MS analysis indicated that rutin quinone targets cysteine 151 of Keapl. Moreover, we found that the quinone is an inhibitor of the selenoprotein thioredoxin reductase 1. These properties correlated with an activation of Nrf2 and, upregulation of Glutamate Cysteine Ligase, the rate-limiting enzyme of glutathione synthesis, while NF-KB and HIF activation became blunted by rutin treatment. Furthermore, rutin was found to prevent hydrogen peroxide from impairing relaxation of human chorionic plate placental vessels, which may help to protect endothelial function.Conclusion and significance: Rutin functions as an antioxidant and is oxidized into a quinone that upregulates the Nrf2-mediated endogenous antioxidant response. This mechanism suggests that rutin selectively exerts its protective effects in regions with increased oxidative stress, and explains how rutin reduces the risk of developing CVD.General significance: The newly found mechanism behind the long-term protection of rutin against cardiovas-cular disease, the selective upregulation of endogenous antioxidant systems, contributes to the further understanding why rutin can reduce the risk on developing cardiovascular disease.
- Published
- 2017
19. Smart acrylic coatings for corrosion detection
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Tanaji Ghorpade, G. Gunasekaran, Madhu Vinjamur, and G.S. Dhole
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Materials science ,Scanning electron microscope ,General Chemical Engineering ,Phenanthroline ,Analytical chemistry ,Capacitance ,02 engineering and technology ,engineering.material ,010402 general chemistry ,01 natural sciences ,Corrosion ,Coating ,Materials Chemistry ,Fourier transform infrared spectroscopy ,Polarization (electrochemistry) ,Spectroscopy ,chemistry.chemical_classification ,Behavior ,Organic Chemistry ,Polymer ,021001 nanoscience & nanotechnology ,0104 chemical sciences ,Surfaces, Coatings and Films ,Dielectric spectroscopy ,Detection ,Chemical engineering ,chemistry ,Sensing ,engineering ,Fluorescent-Probes ,0210 nano-technology - Abstract
Corrosion detecting coating was prepared using acrylic polymer chemically modified with 5-acrylamido-1,10-phenanthroline (AMP). Modified polymers having varied AMP content were synthesized and characterized by Fourier transform infrared (FTIR) spectroscopy, nuclear magnetic resonance (NMR) spectroscopy, differential scanning calorimetric (DSC) and thermo gravimetric (TGA) analysis. The modified polymer after complex formation with Fe2+ ions showed additional absorption peak at 359 urn in UV vis spectrum confirming the polymer-Fe (II) complex formation. Corrosion sensing ability of these polymers was evaluated by immersing the coated mild steel panels in 3.5% NaCl solution and visually monitoring the color change of coating. Electrochemical impedance spectroscopy (EIS) was used to measure the polarization resistance (R-PR) of coated steel specimens and correlated with the color change of coating. Coating from the point of color change was removed and bare metal was analyzed by scanning electron microscopy (SEM) to reconfirm that the point of color change was the corrosion site. Results reveal that these new sets of polymers can be used for corrosion detection.
- Published
- 2017
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20. Mechanism of Intramolecular Photostabilization in Self-Healing Cyanine Fluorophores
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Jens Oelerich, Matthias Hiermaier, Jasper H. M. van der Velde, Gerard Roelfes, Jan Willem de Vries, Thorben Cordes, Evelyn Ploetz, Molecular Biophysics, Zernike Institute for Advanced Materials, Synthetic Organic Chemistry, Stratingh Institute of Chemistry, Polymer Chemistry and Bioengineering, and Nanotechnology and Biophysics in Medicine (NANOBIOMED)
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STABILIZATION ,Fluorophore ,ORGANIC FLUOROPHORES ,photostabilizer ,single-molecule studies ,010402 general chemistry ,Photochemistry ,01 natural sciences ,OPTICAL RECONSTRUCTION MICROSCOPY ,03 medical and health sciences ,chemistry.chemical_compound ,BLINKING ,self-healing ,Physical and Theoretical Chemistry ,Cyanine ,FLUORESCENT-PROBES ,OXIDIZING SYSTEM ,030304 developmental biology ,0303 health sciences ,Quenching (fluorescence) ,cyanines ,SPECTROSCOPY ,Chemistry ,Ascorbic acid ,Fluorescence ,Atomic and Molecular Physics, and Optics ,LASER-DYES ,0104 chemical sciences ,Intramolecular force ,TRIPLET ,Trolox ,fluorescence ,SUPERRESOLUTION MICROSCOPY ,Derivative (chemistry) - Abstract
Organic fluorophores, which are popular labels for microscopy applications, intrinsically suffer from transient and irreversible excursions to dark-states. An alternative to adding photostabilizers at high concentrations to the imaging buffer relies on the direct linkage to the fluorophore. However, the working principles of this approach are not yet fully understood. In this contribution, we investigate the mechanism of intramolecular photostabilization in self-healing cyanines, in which photodamage is automatically repaired. Experimental evidence is provided to demonstrate that a single photostabilizer, that is, the vitamin E derivative Trolox, efficiently heals the cyanine fluorophore Cy5 in the absence of any photostabilizers in solution. A plausible mechanism is that Trolox interacts with the fluorophore through intramolecular quenching of triplet-related dark-states, which is a mechanism that appears to be common for both triplet-state quenchers (cyclooctatetraene) and redox-active compounds (Trolox, ascorbic acid, methylviologen). Additionally, the influence of solution-additives, such as cysteamine and procatechuic acid, on the self-healing process are studied. The results suggest the potential applicability of self-healing fluorophores in stochastic optical reconstruction microscopy (STORM) with optical super-resolution. The presented data contributes to an improved understanding of the mechanism involved in intramolecular photostabilization and has high relevance for the future development of self-healing fluorophores, including their applications in various research fields.
- Published
- 2013
21. Divergent Synthesis of Dihydroxanthene-Hemicyanine Fused Near-Infrared Fluorophores through the Late-Stage Amination of a Bifunctional Precursor
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Michelle Jui Hsien Ong, Anthony Romieu, Jean-Alexandre Richard, Rajavel Srinivasan, Institute of Chemical and Engineering Sciences (ICES) ( ICES ), Agency for science, technology and research [Singapore] ( A*STAR ), Institut Universitaire de France ( IUF ), Ministère de l'Éducation nationale, de l’Enseignement supérieur et de la Recherche ( M.E.N.E.S.R. ), Institut de Chimie Moléculaire de l'Université de Bourgogne [Dijon] ( ICMUB ), Université de Bourgogne ( UB ) -Centre National de la Recherche Scientifique ( CNRS ), ICES, A*STAR (Singapore), Institut Universitaire de France (IUF), Burgundy region ('FABER' programme, PART Action 6, SSTIC 6 'Imagerie, instrumentation, chimie et applications biomedicales'), PHC Merlion grant 5.04.15, Institute of Chemical and Engineering Sciences (ICES) (ICES), Agency for science, technology and research [Singapore] (A*STAR), Ministère de l'Education nationale, de l’Enseignement supérieur et de la Recherche (M.E.N.E.S.R.), Institut de Chimie Moléculaire de l'Université de Bourgogne [Dijon] (ICMUB), and Université de Bourgogne (UB)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)
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design ,010402 general chemistry ,Photochemistry ,01 natural sciences ,Biochemistry ,in-vivo ,dyes ,[ CHIM ] Chemical Sciences ,photoinduced electron-transfer ,fluorescent-probes ,chemistry.chemical_compound ,[ CHIM.ORGA ] Chemical Sciences/Organic chemistry ,[CHIM]Chemical Sciences ,spectroscopic properties ,Physical and Theoretical Chemistry ,Bifunctional ,Amination ,[CHIM.ORGA]Chemical Sciences/Organic chemistry ,010405 organic chemistry ,Organic Chemistry ,Near-infrared spectroscopy ,Late stage ,unique ,library ,emerging applications ,Chromophore ,0104 chemical sciences ,chemistry ,Divergent synthesis ,living cells - Abstract
International audience; A late-stage amination of a bifunctional dihydroxanthene (DHX) scaffold is reported to access a wide variety of new near-infrared (NIR) chromophores/fluorophores. The divergent approach allows the coupling of aliphatic and aromatic amines and readily provides molecular diversity shedding light on the structure fluorescence relationship of this emerging class of NIR fluorophores.
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- 2016
22. Novel benzanthrone probes for membrane and protein studies
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DYNAMICS ,ta1182 ,fibrillar protein aggregates ,LIQUID-CRYSTALS ,AMYLOID FIBRILS ,benzanthrone dyes ,viscosity ,EGG-WHITE LYSOZYME ,BINDING ,lipid membranes ,polarity ,THIOFLAVIN-T ,LUMINOPHORE DYES ,LIPID-BILAYERS ,MODEL SYSTEMS ,FLUORESCENT-PROBES - Published
- 2016
23. Bioinspired assemblies of plant cell wall polymers unravel the affinity properties of carbohydrate-binding modules
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Gabriel Paës, Mats Ohlin, Laura von Schantz, Fractionnement des AgroRessources et Environnement (FARE), Université de Reims Champagne-Ardenne (URCA)-Institut National de la Recherche Agronomique (INRA), Department Immunotechnology, Lund University [Lund], INRA Swedish Research Council 621-2009-5152, Fractionnement des AgroRessources et Environnement - UMR-A 614 (FARE), Université de Reims Champagne-Ardenne (URCA)-SFR Condorcet, Université de Reims Champagne-Ardenne (URCA)-Université de Picardie Jules Verne (UPJV)-Centre National de la Recherche Scientifique (CNRS)-Université de Reims Champagne-Ardenne (URCA)-Université de Picardie Jules Verne (UPJV)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), Université de Reims Champagne-Ardenne (URCA)-Institut National de la Recherche Agronomique (INRA)-SFR Condorcet, and Université de Reims Champagne-Ardenne (URCA)-Université de Picardie Jules Verne (UPJV)-Centre National de la Recherche Scientifique (CNRS)-Université de Reims Champagne-Ardenne (URCA)-Université de Picardie Jules Verne (UPJV)-Centre National de la Recherche Scientifique (CNRS)
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Models, Molecular ,0106 biological sciences ,Polymers ,[SDV]Life Sciences [q-bio] ,Molecular Sequence Data ,Nanotechnology ,substrate ,polysaccharide recognition ,hemicelluloses ,01 natural sciences ,Cell wall ,fluorescent-probes ,03 medical and health sciences ,xyloglucan ,Cell Wall ,Plant Cells ,010608 biotechnology ,Amino Acid Sequence ,Fluorescent Dyes ,030304 developmental biology ,chemistry.chemical_classification ,0303 health sciences ,Xylose ,amorphogenesis ,Binding properties ,General Chemistry ,Limiting ,Polymer ,Condensed Matter Physics ,Arabinose ,chemistry ,adsorption ,Biophysics ,Carbohydrate Metabolism ,enzymatic-hydrolysis ,rhodothermus-marinus xylanase ,Fluorescein-5-isothiocyanate ,Fluorescence Recovery After Photobleaching ,cellulose accessibility - Abstract
Lignocellulose-acting enzymes play a central role in the biorefinery of plant biomass to make fuels, chemicals and materials. These enzymes are often appended to carbohydrate binding modules (CBMs) that promote substrate targeting. When used in plant materials, which are complex assemblies of polymers, the binding properties of CBMs can be difficult to understand and predict, thus limiting the efficiency of enzymes. In order to gain more information on the binding properties of CBMs, some bioinspired model assemblies that contain some of the polymers and covalent interactions found in the plant cell walls have been designed. The mobility of three engineered CBMs has been investigated by FRAP in these assemblies, while varying the parameters related to the polymer concentration, the physical state of assemblies and the oligomerization state of CBMs. The features controlling the mobility of the CBMs in the assemblies have been quantified and hierarchized. We demonstrate that the parameters can have additional or opposite effects on mobility, depending on the CBM tested. We also find evidence of a relationship between the mobility of CBMs and their binding strength. Overall, bioinspired assemblies are able to reveal the unique features of affinity of CBMs. In particular, the results show that oligomerization of CBMs and the presence of ferulic acid motifs in the assemblies play an important role in the binding affinity of CBMs. Thus we propose that these features should be finely tuned when CBMs are used in plant cell walls to optimise bioprocesses.
- Published
- 2015
24. Live cell cytoplasm staining and selective labeling of intracellular proteins by non-toxic cell-permeant thiophene fluorophores
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R. Bizzarri, Ilaria Elena Palamà, Giovanna Barbarella, Massimo Baroncini, Giuseppe Gigli, Andrea Barbieri, Alessandro Bongini, F. Di Maria, Di Maria, F., Palama, I. E., Baroncini, M., Barbieri, A., Bongini, A., Bizzarri, R., Gigli, Giuseppe, Barbarella, G., DI MARIA, FRANCESCA GIULIA, Palamã , I. E., Baroncini, Massimo, Bongini, Alessandro, and Gigli, G.
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Cytoplasm ,CHEMICAL TAGS ,Globular protein ,Cell Survival ,media_common.quotation_subject ,education ,Cell ,Fluorescent Dye ,Thiophenes ,Biochemistry ,Fluorescence ,Mice ,Thiophene ,medicine ,Animals ,Viability assay ,Physical and Theoretical Chemistry ,LIVING CELLS ,Internalization ,NIH 3T3 Cell ,FLUORESCENT-PROBES ,media_common ,Fluorescent Dyes ,chemistry.chemical_classification ,Staining and Labeling ,Animal ,Protein ,Organic Chemistry ,ESTERS ,Proteins ,ORGANIC-SYNTHESIS ,Fibroblasts ,Embryonic stem cell ,Staining ,Cell biology ,Cytosol ,medicine.anatomical_structure ,chemistry ,QUANTUM-DOT ,NIH 3T3 Cells ,Fibroblast - Abstract
A structurally correlated series of cell-permeant thiophene fluorophores, characterized by intense green or red fluorescence inside live mouse embryonic fibroblasts, was developed. The fluorophores displayed rapid internalization, excellent retention inside the cells, and high optical stability in the cytosolic environment and did not alter cell viability and reproducibility. Depending on the molecular structure, they experienced distinct fate inside the cells: from bright and lasting staining of the cytoplasm to selective tagging of a small set of globular proteins. This journal is © The Royal Society of Chemistry 2014.
- Published
- 2014
25. Targeted Photoswitchable Probe for Nanoscopy of Biological Structures
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Kai Johnsson, Noelia L. Bocchio, Iwan Märki, Gražvydas Lukinavičius, Claudio Dellagiacoma, Sambashiva Banala, Stefan Geissbühler, and Theo Lasser
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Guanine ,Fluorophore ,Nanostructure ,Living Cells ,Nanotechnology ,02 engineering and technology ,Fluorophores ,Biochemistry ,microtubules ,03 medical and health sciences ,chemistry.chemical_compound ,Tubulin ,fluorescent probes ,Cell Line, Tumor ,Storm ,Microscopy ,Image Processing, Computer-Assisted ,Humans ,Molecular Biology ,Nanoscopic scale ,Optical Reconstruction Microscopy ,Fluorescent Dyes ,030304 developmental biology ,SNAP-tag ,0303 health sciences ,Adenine ,Organic Chemistry ,Resolution (electron density) ,Fusion Proteins ,Carbocyanines ,021001 nanoscience & nanotechnology ,Fluorescence ,Optical reconstruction ,Nanostructures ,3. Good health ,Microscopy, Fluorescence ,chemistry ,Tag ,protein structures ,Biophysics ,Fluorescent-Probes ,Molecular Medicine ,Resolution ,Limit ,0210 nano-technology - Abstract
SNAP‐tag: We introduce a photoswitchable O6‐benzylguanine derivative and demonstrate its use for super‐resolution microscopy of SNAP‐tagged proteins based on single fluorophore localization. Stochastic Optical Reconstruction Microscopy (STORM) reveals SNAP‐tagged microtubule structures with ∼25 nm resolution. The described probe in combination with the versatile SNAP‐tag labeling opens new possibilities for imaging biological structures at the nanoscale.
- Published
- 2010
26. Multicolor Single Molecule Tracking of Stochastically Active Synthetic Dyes
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Suliana Manley, Julia Gunzenhäuser, Alexander Benke, and Nicolas Olivier
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Living Cells ,Bioengineering ,Nanotechnology ,single molecule tracking ,Fluorophores ,High-Density ,Superresolution ,010402 general chemistry ,Tracking (particle physics) ,Protein labeling ,01 natural sciences ,03 medical and health sciences ,Humans ,Molecule ,General Materials Science ,Photoactivated localization microscopy ,Coloring Agents ,Live-Cell Dstorm ,Optical Reconstruction Microscopy ,030304 developmental biology ,Stochastic Processes ,multicolor tracking ,0303 health sciences ,Photoactivated Localization Microscopy ,Chemistry ,Mechanical Engineering ,Protein dynamics ,Fusion Proteins ,General Chemistry ,Condensed Matter Physics ,Fusion protein ,Dynamics ,0104 chemical sciences ,Membrane ,Membrane protein ,protein dynamics ,Fluorescent-Probes ,BIO-IMAGING ,Biological system ,super-resolution imaging ,Subcellular Fractions - Abstract
Single particle tracking can reveal dynamic information at the scale of single molecules in living cells but thus far has been limited either in the range of potential protein targets or in the quality and number of tracks attainable. We demonstrate a new approach to single molecule tracking by using the blinking properties of synthetic dyes targeted to proteins of interest with genetically encoded tags to generate high-density tracks while maintaining flexibility in protein labeling. We track membrane proteins using different combinations of dyes and show that the concept can be extended to three-color imaging. Moreover, we show that this technique is not limited to the membrane by performing live tracking of proteins in intracellular compartments.
- Published
- 2012
- Full Text
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27. Survival or revival: long-term preservation induces a reversible viable but non-culturable state in methane-oxidizing bacteria
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Nico Boon, Paul De Vos, Sven Hoefman, Peter Vandamme, Kim Heylen, and Koenraad Van Hoorde
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Fastidious organism ,MICROBIOLOGY ,Cryoprotectant ,Microorganism ,Applied Microbiology ,DIVERSITY ,lcsh:Medicine ,Biology ,Microbiology ,Cryopreservation ,SACCHAROMYCES-CEREVISIAE ,chemistry.chemical_compound ,Freeze-drying ,Cryobiology ,Microbial Physiology ,Dimethyl Sulfoxide ,MICROORGANISMS ,Bacterial Physiology ,METHANOTROPHIC BACTERIA ,lcsh:Science ,FLUORESCENT-PROBES ,Multidisciplinary ,RESUSCITATION ,lcsh:R ,Microbial Growth and Development ,Trehalose ,Biology and Life Sciences ,Bacteriology ,CRYOPROTECTANTS ,biology.organism_classification ,Bacterial Biochemistry ,Methane-Oxidizing Bacteria ,Freeze Drying ,chemistry ,ESCHERICHIA-COLI ,Methylococcaceae ,NONCULTURABLE STATE ,lcsh:Q ,Bacteria ,Research Article ,Biotechnology ,Developmental Biology - Abstract
Knowledge on long-term preservation of micro-organisms is limited and research in the field is scarce despite its importance for microbial biodiversity and biotechnological innovation. Preservation of fastidious organisms such as methane-oxidizing bacteria (MOB) has proven difficult. Most MOB do not survive lyophilization and only some can be cryopreserved successfully for short periods. A large-scale study was designed for a diverse set of MOB applying fifteen cryopreservation or lyophilization conditions. After three, six and twelve months of preservation, the viability (via live-dead flow cytometry) and culturability (via most-probable number analysis and plating) of the cells were assessed. All strains could be cryopreserved without a significant loss in culturability using 1% trehalose in 10-fold diluted TSB (TT) as preservation medium and 5% DMSO as cryoprotectant. Several other cryopreservation and lyophilization conditions, all of which involved the use of TT medium, also allowed successful preservation but showed a considerable loss in culturability. We demonstrate here that most of these non-culturables survived preservation according to viability assessment indicating that preservation induces a viable but non-culturable (VBNC) state in a significant fraction of cells. Since this state is reversible, these findings have major implications shifting the emphasis from survival to revival of cells in a preservation protocol. We showed that MOB cells could be significantly resuscitated from the VBNC state using the TT preservation medium.
- Published
- 2012
28. Visualizing Biochemical Activities in Living Cells through Chemistry
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Alberto Schena, Birgit Mollwitz, Luc Reymond, Matthias A. Brun, Grazvydas Lukinavicius, Anastasiya Masharina, Kai Johnsson, Rudolf Griss, Karolina Bojkowska, Keitaro Umezawa, and Damien Maurel
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Cell biology ,Chemical biology ,Computational biology ,Protein chemistry ,Imaging ,Nanoscopy ,Synthetic probes ,Live Cells ,Protein activity ,QD1-999 ,Fluorescent Dyes ,Chemistry ,Reveals ,Snap-tag ,Proteins ,General Medicine ,General Chemistry ,Molecules ,Calcium Indicator ,SNAP-tag ,Biophysics ,Fluorescent-Probes ,Calcium ,In-Vivo ,Molecular probe - Abstract
The development of molecular probes to visualize cellular processes is an important challenge in chemical biology. One possibility to create such cellular indicators is based on the selective labeling of proteins with synthetic probes in living cells. Over the last years, our laboratory has developed different labeling approaches for monitoring protein activity and for localizing synthetic probes inside living cells. In this article, we review two of these labeling approaches, the SNAP-tag and CLIP-tag technologies, and their use for studying cellular processes.
- Published
- 2011
29. A starter kit for point-localization super-resolution imaging
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Nicolas Olivier, Julia Gunzenhäuser, and Suliana Manley
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Fluorescence-lifetime imaging microscopy ,Computer science ,Living Cells ,ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION ,Nanotechnology ,Biochemistry ,Field (computer science) ,Analytical Chemistry ,Imaging modalities ,Point localization ,Diffraction-Limit ,Mice ,Software ,Animals ,Optical Reconstruction Microscopy ,Fluorescent Dyes ,business.industry ,Spread Function ,Proteins ,Photochemical Processes ,Superresolution ,Molecular Imaging ,Caulobacter-Crescentus ,Biological Structures ,Computer engineering ,Microscopy, Fluorescence ,Molecular Probes ,Genetically Expressed Probes ,Nucleoid-Associated Protein ,Fluorescent-Probes ,Resolution ,business ,Algorithms - Abstract
Super-resolution fluorescence imaging can be achieved through the localization of single molecules. By using suitable dyes, optical configurations, and software, it is possible to study a wide variety of biological systems. Here, we summarize the different approaches to labeling proteins. We review proven imaging modalities, and the features of freely available software. Finally, we give an overview of some biological applications. We conclude by synthesizing these different technical aspects into recommendations for standards that the field might apply to ensure quality of images and comparability of algorithms and dyes.
- Published
- 2011
30. Targeting of T/Tn antigens with a plant lectin to kill human leukemia cells by photochemotherapy
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Annick Barre, Thierry Levade, Jean Bernadou, Marguerite Pitié, Guillaume Poiroux, Elodie Lafont, Hervé Benoist, Bruno Ségui, Raphaël Culerrier, Pierre Rougé, Els J.M. Van Damme, and Willy J. Peumans
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Phytochemistry ,Phytochemicals ,Glycobiology ,Cancer Treatment ,Apoptosis ,Biochemistry ,Physical Chemistry ,Jurkat cells ,Hematologic Cancers and Related Disorders ,Jurkat Cells ,PHOTODYNAMIC THERAPY ,Drug Discovery ,Molecular Cell Biology ,Biomacromolecule-Ligand Interactions ,OXIDATIVE STRESS ,Cells, Cultured ,INDUCED APOPTOSIS ,LYMPHOCYTIC-LEUKEMIA ,Leukemia ,Photosensitizing Agents ,Multidisciplinary ,Cell Death ,U937 cell ,DEATH ,U937 Cells ,Hematology ,Cell biology ,HUMAN-COLON-CANCER ,Chemistry ,Oncology ,Caspases ,Medicine ,ANTIOXIDANT STATUS ,SIALOSYL-TN ,Plant Lectins ,Phototoxicity ,Research Article ,Biotechnology ,Drugs and Devices ,Porphyrins ,Drug Research and Development ,Cell Survival ,Photochemistry ,Science ,Carbohydrates ,Biomedical Engineering ,HL-60 Cells ,Bioengineering ,Biology ,Cell Line ,Medical Devices ,Complementary and Alternative Medicine ,Antigen ,Cell Line, Tumor ,Leukemias ,medicine ,Humans ,Antigens, Tumor-Associated, Carbohydrate ,FLUORESCENT-PROBES ,Dose-Response Relationship, Drug ,Biology and Life Sciences ,Chemotherapy and Drug Treatment ,medicine.disease ,Photochemotherapy ,Cell culture ,Cancer research ,K562 Cells ,GROWTH-FACTOR RECEPTOR ,K562 cells - Abstract
Photochemotherapy is used both for solid tumors and in extracorporeal treatment of various hematologic disorders. Nevertheless, its development in oncology remains limited, because of the low selectivity of photosensitizers (PS) towards human tumor cells. To enhance PS efficiency, we recently covalently linked a porphyrin (TrMPyP) to a plant lectin (Morniga G), known to recognize with high affinity tumor-associated T and Tn antigens. The conjugation allowed a quick uptake of PS by Tn-positive Jurkat leukemia cells and efficient PS-induced phototoxicity. The present study was performed: (i) to evaluate the targeting potential of the conjugate towards tumor and normal cells and its phototoxicity on various leukemia cells, (ii) to investigate the mechanism of conjugate-mediated cell death. The conjugate: (i) strongly increased (x1000) the PS phototoxicity towards leukemic Jurkat T cells through an O-glycan-dependent process; (ii) specifically purged tumor cells from a 1:1 mixture of Jurkat leukemia (Tn-positive) and healthy (Tn-negative) lymphocytes, preserving the activation potential of healthy lymphocytes; (iii) was effective against various leukemic cell lines with distinct phenotypes, as well as fresh human primary acute and chronic lymphoid leukemia cells; (iv) induced mostly a caspase-independent cell death, which might be an advantage as tumor cells often resist caspase-dependent cell death. Altogether, the present observations suggest that conjugation with plant lectins can allow targeting of photosensitizers towards aberrant glycosylation of tumor cells, e. g. to purge leukemia cells from blood and to preserve the normal leukocytes in extracorporeal photochemotherapy.
- Published
- 2011
31. Fluorinated squaraine as near-IR label with improved properties for the labeling of oligonucleotides
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Ulysse Asseline, Brice-Loïc Renard, Yves Aubert, Centre de biophysique moléculaire (CBM), and Université d'Orléans (UO)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Chimie du CNRS (INC)
- Subjects
Chemical substance ,SPECTRAL PROPERTIES ,FLUOROGENIC DYES ,010402 general chemistry ,Photochemistry ,01 natural sciences ,Biochemistry ,ELECTROPHORESIS ,chemistry.chemical_compound ,BODIPY ,Drug Discovery ,FLUORESCENT-PROBES ,Squaraine dye ,010405 organic chemistry ,Chemistry ,Oligonucleotide ,Organic Chemistry ,DNA ,BIOMOLECULES ,PROTEIN LABELS ,3. Good health ,0104 chemical sciences ,Benzothiazole ,INFRARED CYANINE DYES ,Chemical stability ,HYBRIDIZATION ,Conjugate - Abstract
International audience; A new squaraine dye with fluorinated benzothiazole rings was synthesized. This new label possesses improved photophysical properties and chemical stability as compared to the corresponding non-fluorinated and the dicyanosquaraines. These squaraines were used for the labeling of a series of oligonucleotides with various sequences, lengths, and chemistries. The conjugates involving the fluorinated squaraine possess the best properties: emission wavelength >670 nm, high quantum yields (0.27-0.39).
- Published
- 2009
32. 1-Octen-3-ol inhibits conidia germination of Penicillium paneum despite of mild effects on membrane permeability, respiration, intracellular pH, and changes the protein composition
- Author
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Tjakko Abee, Jan Dijksterhuis, Frank M. Rombouts, and Gilma S. Chitarra
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Spores ,Octanols ,Cell Membrane Permeability ,pleurotus-ostreatus ,Membrane permeability ,ascospores ,Intracellular pH ,10-oxo-trans-8-decenoic acid ,Applied Microbiology and Biotechnology ,Microbiology ,Levensmiddelenmicrobiologie ,Conidium ,Fungal Proteins ,fluorescent-probes ,Oxygen Consumption ,skin and connective tissue diseases ,VLAG ,Gel electrophoresis ,Ecology ,biology ,fungi ,agaricus-bisporus ,Penicillium ,Hydrogen-Ion Concentration ,Spores, Fungal ,respiratory system ,biology.organism_classification ,indicators ,Staining ,self-inhibitor ,Fungal ,Biochemistry ,Germination ,Food Microbiology ,cells ,listeria-monocytogenes ,metabolism ,Intracellular - Abstract
1-Octen-3-ol is a volatile germination self-inhibitor produced by Penicillium paneum that blocks the germination process. The size of conidia treated with 1-octen-3-ol was similar to that of freshly harvested conidia. Exposure to 1-octen-3-ol resulted in staining of 10-20% of the conidia with PI and TOTO, fluorescent DNA probes that cannot enter cells with an intact membrane, whereas only 3-5% of non-treated conidia were stained. Addition of 1-octen-3-ol to germinating conidia resulted in transient dissipation of the pH gradient. From this, we conclude that slight permeabilisation of the fungal membrane occurs in the presence of the inhibitor. Two-dimensional gel electrophoresis analysis of protein patterns revealed striking differences between non-germinated conidia, germinated conidia and 1-octen-3-ol-treated conidia. In conclusion, 1-octen-3-ol has mild effects on the plasma membrane, but interferes with essential metabolic processes, such as swelling and germination of the conidia, but in a reversible manner.
- Published
- 2005
33. Protein exposed hydrophobicity reduces the kinetic barrier for adsoption of ovalbumin to the air-water interface
- Author
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Marcel B.J. Meinders, Peter A. Wierenga, H.H.J. de Jongh, Maarten R. Egmond, and F.A.G.J. Voragen
- Subjects
conformation ,chain fatty-acids ,liquid interfaces ,Globular protein ,covalent attachment ,Kinetics ,Surface pressure ,globular-proteins ,fluorescent-probes ,chemistry.chemical_compound ,Adsorption ,Levensmiddelenchemie ,Electrochemistry ,General Materials Science ,Spectroscopy ,dynamic surface-tension ,Wilhelmy plate ,VLAG ,chemistry.chemical_classification ,Chromatography ,biology ,Food Chemistry ,Chemistry ,Surfaces and Interfaces ,air/water interface ,Condensed Matter Physics ,Ovalbumin ,Monomer ,Chemical engineering ,alpha-s1-casein ,lipophilization ,biology.protein ,Protein adsorption - Abstract
Using native and caprylated ovalbumin, the role of exposed hydrophobicity on the kinetics of protein adsorption to the air - water interface is studied. First, changes in the chemical properties of the protein upon caprylation were characterized followed by measurement of the changes in adsorption kinetics. No change in the molecular structure of ovalbumin was observed upon caprylation. However, aggregation of the protein was observed when more than three capryl chains were coupled per protein. A batch of caprylated ovalbumin with an average coupling of four capryl chains per protein was separated into a monomeric and an aggregated protein fraction. The exposed hydrophobicity of the monomeric and the aggregated species was measured using 8-anilino-1-naphthalenesulfonic acid fluorescence. The exposed hydrophobicity of the monomeric fraction was significantly higher than that of the nonmodified protein. The changes in adsorption kinetics were studied by measuring the increase in surface load (Γ) and in surface pressure (Π) as a function of time (t) using an ellipsometer and a Wilhelmy plate, respectively. It was found that the increase of surface load in time (even at low surface coverage) is much lower than the value that was calculated from diffusional transport. This shows that the adsorption of native ovalbumin is barrier limited. The adsorption kinetics of the caprylated protein follow the calculations from diffusional transport more closely, which shows that the energy barrier for adsorption of caprylated ovalbumin is much lower than for the native protein. The surface pressure at a certain surface load (Π-Γ) was not affected by the modification, indicating that the effect of increased hydrophobicity is limited to the adsorption process.
- Published
- 2003
34. Linker Molecules Convert Commercial Fluorophores into Tailored Functional Probes during Biolabelling
- Author
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Lei Zhang, Michael Isselstein, Jens Köhler, Nikolaos Eleftheriadis, Nadia M. Huisjes, Miguel Guirao‐Ortiz, Alessandra Narducci, Jochem H. Smit, Janko Stoffels, Hartmann Harz, Heinrich Leonhardt, Andreas Herrmann, Thorben Cordes, and Zernike Institute for Advanced Materials
- Subjects
Chemistry, Multidisciplinary ,BIOCONJUGATION ,ORGANIC FLUOROPHORES ,PROTEIN ,Fluorophores ,Catalysis ,LIVE-CELL ,INTRAMOLECULAR PHOTOSTABILIZATION ,Self-Healing Dyes ,FLUORESCENT-PROBES ,Biolabelling ,Fluorescent Dyes ,Science & Technology ,SPECTROSCOPY ,Ionophores ,Rhodamines ,Super-Resolution Microscopy ,CONFORMATIONAL DYNAMICS ,Metal-Chelating Fluorophores ,General Chemistry ,General Medicine ,Single Molecule Imaging ,Metal–Chelating Fluorophores ,Chemistry ,SINGLE ,ddc:540 ,Physical Sciences ,SUPERRESOLUTION MICROSCOPY - Abstract
Angewandte Chemie / International edition 61(19), e202112959 (2022). doi:10.1002/anie.202112959, Published by Wiley-VCH, Weinheim
- Full Text
- View/download PDF
35. Switchable fluorophores for protein labeling in living cells
- Author
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Gražvydas Lukinavičius and Kai Johnsson
- Subjects
Photochemistry ,Protein Conformation ,Nanotechnology ,Protein tag ,Breaking ,Protein labeling ,Biochemistry ,Analytical Chemistry ,Depletion ,Protein structure ,Nanoscopy ,Fluorescence Resonance Energy Transfer ,Indo-1 ,Fluorescent Dyes ,Microscopy ,Staining and Labeling ,Chemistry ,Proteins ,Fluorescence ,Calcium Indicator ,Dynamics ,Förster resonance energy transfer ,Microscopy, Fluorescence ,Proteins metabolism ,Localization ,Fluorescent-Probes ,Resolution - Abstract
Numerous synthetic fluorophores have been developed that can switch their spectroscopic properties upon interaction with other molecules or by irradiation with light. In recent years, protein-labeling techniques have been introduced that permit the specific attachment of such molecules to proteins of interest in living cells. We review here how the attachment of switchable fluorophores to selected proteins of interest via self-labeling protein tags enables new applications in different areas of biology and discuss how these molecules could be further improved.
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