Visualization and sensing of intermolecular interactions with two‐color fluorescent probes

Demchenko, Alexander P.

doi:10.1016/j.febslet.2006.03.091

Cited by 72 publications

(49 citation statements)

References 36 publications

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“…Being excited at single wavelength it should present switching between well resolved fluorescence bands in response to the surface charge and probably also to the lipid order and hydration. Based on the results of our previous studies (Demchenko 2006;Demchenko et al 2003;Klymchenko et al 2003) we selected the dye from the 4 0 -(dialkylamino)-3-hydroxyflavone family, which exhibits excited-state intramolecular proton transfer (ESIPT) reaction producing together with initially excited ''green'' N* band (at 515-545 nm) the reaction product ''orange'' T* band (at 564-606 nm). The dynamic equilibrium between these two forms is shifted by variation of intermolecular interactions producing the relative changes of correspondent fluorescence intensities (Demchenko 2006;Klymchenko et al 2003;Shynkar et al 2004).…”

Section: The Methods Based On F2n12s Probementioning

confidence: 99%

Beyond annexin V: fluorescence response of cellular membranes to apoptosis

2012

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Dramatic changes in the structure of cell membranes on apoptosis allow easy, sensitive and non-destructive analysis of this process with the application of fluorescence methods. The strong plasma membrane asymmetry is present in living cells, and its loss on apoptosis is commonly detected with the probes interacting strongly and specifically with phosphatidylserine (PS). This phospholipid becomes exposed to the cell surface, and the application of annexin V labeled with fluorescent dye is presently the most popular tool for its detection. Several methods have been suggested recently that offer important advantages over annexin V assay with the ability to study apoptosis by spectroscopy of cell suspensions, flow cytometry and confocal or twophoton microscopy. The PS exposure marks the integrated changes in the outer leaflet of cell membrane that involve electrostatic potential and hydration, and the attempts are being made to provide direct probing of these changes. This review describes the basic mechanisms underlying the loss of membrane asymmetry during apoptosis and discusses, in comparison with the annexin V-binding assay, the novel fluorescence techniques of detecting apoptosis on cellular membrane level. In more detail we describe the detection method based on smart fluorescent dye F2N12S incorporated into outer leaflet of cell membrane and reporting on apoptotic cell transformation by easily detectable change of the spectral distribution of fluorescent emission. It can be adapted to any assay format.

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Section: The Methods Based On F2n12s Probementioning

confidence: 99%

Beyond annexin V: fluorescence response of cellular membranes to apoptosis

2012

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“…4.13). The designed organic dyes belonging to the family of 3-hydroxychromones (3HCs) satisfy these requirements in the best way (Demchenko 2006;Klymchenko and Demchenko 2003;Demchenko et al 2003). Due to rigidity of their skeleton, 3HCs (and their derivatives 3-hydroxyflavones, 3HFs) are the dyes in which the observation of two separate bands in emission is not due to the presence of two or more excited-state structural isoforms, which produce the two-band spectra in some other dyes.…”

Section: Supersensitive Multicolor Ratiometric Dyesmentioning

confidence: 96%

“…In a series of substituted 3-hydroxychromone derivatives the dynamic balance between ICT and ESIPT states that generate switchable well-resolved emission bands can be achieved. They can be strong indicators of polarity and molecular-scale electric fields (Demchenko 2006;Demchenko et al 2003). Formation of stable excimers (complexes between unexcited and excited fluorophores) is characteristic of pyrene.…”

Section: The Dyes Providing Fluorescence Responsementioning

confidence: 98%

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Molecular-Size Fluorescence Emitters

Demchenko

2015

Introduction to Fluorescence Sensing

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A variety of fluorescent and luminescent materials in the form of molecules, their complexes and nanoparticles are available for implementation as response units into sensing and imaging technologies and we discuss their general properties that are essential for these applications. Organic dyes were the first and remain to be the most popular emitters used with these purposes. Their labeling and responsive properties are overviewed. Natural fluorescent proteins and their engineered analogues incorporate organic fluorophores that are synthesized spontaneously from the polypeptide chain inside the living cells without the need of their intrusion, as the gene products. They resulted in revolutionary advancement in cell imaging and show good prospects in sensing and reporting on cellular processes. Organic heterocyclic compounds can incorporate metal ions generating long-living luminescence. Moreover, noble metal particles of a very small size exhibit unique light-absorbing and fluorescent emission properties. In this Chapter we focus on these types of fluorophores that possess subnanometer dimensions and display single type of absorption-emission cycle. The more complex nanostructures and nanocomposites will be overviewed in Chaps. 5 and 6 that follow. Fluorophores and Their Characteristics General Properties of Fluorescent DyesIn view of tremendous diversity of structures, chemical reactivities and spectroscopic properties, one needs certain practically useful criteria for the dye selection for the purpose of sensing and imaging. They can be formulated in the form of spectroscopic parameters that have to be optimized. It is the parameter describing the ability of molecule to absorb light at a particular wavelength. The absorbance E measured at any wavelength on spectrophotometer is proportional to the dye concentration c (in mol/l) and the light path length in a sample l (in cm). In this relation, ε plays the role of coefficient of proportionality, so that E = εcl. The value of molar absorbance is obtained by purifying and drying the dye, dissolving it at low concentration and measuring E on a spectrophotometer. The broadly used term extinction includes absorbance and light scattering. Absorbance is a unique characteristic of a molecule under certain environmental conditions. In general, the bigger the fluorophore size, the greater is the probability that the photon will be absorbed.The value of ε max at the maximum of absorption band is the common characteristic of the light-absorbing power of the dye. The dye 'brightness' that determines the absolute sensitivity of fluorescence detection (Wetzl et al. 2003) is the product of molar absorbance and quantum yield, Φ. The absorbance is related to optical cross-section and for organic dyes, ε max varies from ca. 10 3 l mol −1 cm −1 for small dyes, such as coumarins to ca. 10 5 l mol −1 cm −1 for larger fluorophores such as cyanines and phthalocyanines (Lavis and Raines 2008). It should be selected as high as possible, but the limiting factor is the fluorophore size. Us...

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“…The fluorescent analogs of DNA bases aPu (20, 34 -36 (31,33,37,38), 3-hydroxychromone (3HC) (33,39,40), and 1,3-diaza-2-oxophenoxazine (tC O ) (41-43) were incorporated in DNA substrates as reporter groups. Of these, aPu has been widely used as a reporter to study conformational transitions in DNA (27,35,44,45).…”

Section: Conformational Transitions In the Damaged Dna Strand-mentioning

confidence: 99%

Conformational Dynamics of DNA Repair by Escherichia coli Endonuclease III

Kuznetsov

Kladova

Кузнецова

et al. 2015

Journal of Biological Chemistry

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Background: Endonuclease III is responsible for base excision repair of oxidized or reduced pyrimidine bases. Results: Stopped-flow kinetics analysis of endonuclease III interaction with DNA was performed. Conclusion: Endonuclease III uses a multistep mechanism of damage recognition, which likely involves Gln 41 and Leu 81 as lesion sensors. Significance: The results provide new insight into the mechanism of damage recognition by DNA glycosylases of the helixhairpin-helix-GPD structural superfamily.

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Visualization and sensing of intermolecular interactions with two‐color fluorescent probes

Cited by 72 publications

References 36 publications

Beyond annexin V: fluorescence response of cellular membranes to apoptosis

Beyond annexin V: fluorescence response of cellular membranes to apoptosis

Molecular-Size Fluorescence Emitters

Conformational Dynamics of DNA Repair by Escherichia coli Endonuclease III

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