New fluorescent labels for time-resolved detection of biomolecules

New dyes with characteristic fluorescence lifetimes have been developed for bioanalytical applications. Based upon the concept of multiplex dyes, we have designed rhodamine dyes with nearly identical absorption and emission spectral characteristics but different fluorescence lifetimes. Extending this principle to applications with laser diodes, new rhodamines with functional groups for covalent coupling of analytes have been developed. The new labels exhibit absortion and fluorescence beyond 600 nm and have a high quantum efficiency, even in aqueous buffer systems.     

Characterisation of solid-state dyes and their use as tunable laser amplifiers

This paper reports on the spectroscopic and photo physical characteristics of solid-state dyes and their use as tunable high-gain laser amplifiers. A comparison of the absorption and fluorescence spectra is made for the dyes pyrromethene 567, pyrromethene 597, pyrromethene 650, rhodamine 6G in the solid hosts, polymethyl methacrylate, polycom and ormosil, and compared to the case of the dyes in the solvent methanol. Results show a reduced Stokes shift and an increased fluorescence lifetime for dyes in the solid hosts compared to the solvent. The use of pyrromethene 650 in polymethyl methacrylate as a tunable laser amplifier was investigated. The dye amplifier was shown to exhibit photo-induced birefringence, and the fluorescence polarisation and intensity dependent anisotropy effects of gain and refractive index was characterised. The molecular reorientation time for pyrromethene 650 in the solid host was calculated to be 6.8 ns. The solid-state dye exhibited a single pass gain of 500at 616 nm. The saturation behaviour was investigated and values of emission cross-section determined. Operation of the solid-state dye in a laser oscillator showed effects of strong shift in the lasing wavelength as a function of the cavity Q due to the small Stokes shift of the dye in the solid host. PACS 42.55.Mv; 42.50.Lh; 42.70.Jk     

Strong Surface Enhanced Florescence of Carbon Dot Labeled Bacteria Cells Observed with High Contrast on Gold Film

Strong surface (metal) enhanced fluorescence (SEF or MEF) is observed from clusters and single E coli bacteria cells labeled with Carbon nanodots (CDs), which were synthesized from date pits. The enhancement factor (EF) for SEF of the cell clusters were close to 50 for both 533 and 633 nm laser excitation wavelength. Those EFs are ratios of emission peak areas from CD labeled cell clusters on gold film to the peak areas of the same batch cell clusters on glass substrate. SEF with 633 nm excitation performed better than SEF with 532 nm excitation, achieving higher fluorescence intensity and much higher contrast. The contrast as high as 66 for cell clusters on gold film is a ratio of fluorescent emission peak area measured at the CD labeled cell clusters to the fluorescent peak area measured at unlabeled cell clusters (autofluorescence) on the same substrate. The contrast with the background (S/N) or the ratio of fluorescent peak area measured at bacteria cells to area measured at bare substrate was as high as 200. This report may pave a way for the broader application of surface enhanced fluorescence and especially metal enhanced fluorescence imaging of CD labeled cells and other biological objects.

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Graphical abstract Carbon dots, synthesized from dates, are used for direct staining of E coli cells. Emission fluorescent spectroscopy of those CD labelled cells on gold film and glass, demonstrated enhancement factor about 50 for emission on gold as compared to glass, Excitation at 633 nm appears far superior to excitation at 532 nm in terms of contrast (up to 67) with unlabeled cells /control due to decrease in auto fluorescence of cells. Maximum Signal to noise ratio is 200.

     

Photophysical properties and laser performance of photostable UV laser dyes

The photophysical properties such as singlet absorption and fluorescence spectra, the fluorescence quantum yield and fluorescence decay time as well as the laser performance data such as the tuning range, the conversion efficiency, and the photochemical stability of 12 sterically hinderedp-quaterphenyls have been measured in ethanol and/or dioxane at room temperature. The sterically hinderedp-quaterphenyls exhibit shorter laser dye emissions in the 330–380 nm range than the parent compoundp-quaterphenyl. The conversion efficiencies of the sterically hinderedp-quaterphenyls range between 1 and 21%. The photochemical stability of the sterically hinderedp-quaterphenyls is by a factor of 10 to 20 better in dioxane than in ethanol. 2-Methyl-5-tert. butyl-p-quaterphenyl and 2,5,2,5-tetramethyl-p-quaterphenyl are among the most stable UV laser dyes known today.     

DNA Vector Polyethyleneimine Affects Cell pH and Membrane Potential: A Time-Resolved Fluorescence Microscopy Study

Polyethyleneimine (PEI) is one of the very efficient nonviral vectors being developed and tested for artificial gene transfer into target cells. One of its serious limitations is the significant cytotoxicity of the large amounts of free PEI in the mixtures of DNA and PEI used for transfection. To further investigate the cellular effects of free PEI, we have analyzed the PEI-induced alterations of various cell parameters such as membrane heterogeneity and fluidity, cytoplasmic pH, and plasma membrane potential in a variety of cells such as Swiss 3T3 fibroblast, Chinese hamster ovary, insect cells SF9, plant cell line BY2, and Saccharomyces cerevisae. Fluorescence probes such as Nile red, SNARF-1, and cyanine dye DiSC₂(3), coupled with the technique of picosecond time-resolved fluorescence microscopy, were used in estimating the above-mentioned cell parameters. It was found that the cell membranes were largely unperturbed by PEI. However, the cytoplasmic pH showed an increase of 0.1–0.4 units when the cells were treated with PEI. The plasma membrane potential was found to be depolarized in S. cerevisae and Swiss 3T3 cells. These results suggest that the cytotoxic effects of PEI may partly originate from inhibition of regulation of cytoplasmic pH and plasma membrane potential. Further, it is proposed that the resultant cell alterations favors the transfection process.     

The Susceptibility of Non-UV Fluorescent Membrane Dyes to Dynamical Properties of Lipid Membranes

Fluorescence spectroscopy and microscopy are powerful techniques to detect dynamic properties in artificial and natural lipid membrane systems. Unfortunately, most fluorescent dyes that sense dynamically relevant membrane parameters are UV sensitive. Their major disadvantage is a high susceptibility to fluorescence bleaching. Additionally, the risk for hazardous damages in biological components generally increases with decreasing excitation wavelength. Therefore the use of non-UV–sensitive membrane dyes would provide significant advantage, particularly for applications in fluorescence microscopy, which usually implies high local excitation intensities. We applied steady-state fluorescence spectroscopy techniques to several UV and non-UV membrane dyes to detect and compare dynamically relevant excitation and emission characteristics. Small unilamellar liposomes (composed of egg yolk phosphatidylcholine) served as a model system for biological membranes. The dynamic properties of the membranes were varied by two independent parameters: the intrinsic cholesterol content (0–50 mol%) and temperature (10–50°C). We tested four non-UV–sensitive membrane dyes: 9-diethylamino-5H-benzophenoxazine-5-one (Nile Red), 4-(dicyanovinyl)julolidine (DCVJ), N-(3-triethylammoniumpropyl)-4-(4-(dibutylamino)styryl) pyridinium dibromide (FM 4-64), and 1,1-dioctadecyl-3,3,3,3-tetramethylindocarbocyanine perchlorate (DiIC₁₈). We also tested three derivatives of DiIC₁₈: DiIC₁₆ and DiIC₁₂ differ in acyl chain length and Fast-DiIC₁₈ provides double bonds between hydrocarbon atoms. The spectral results were compared to established fluorescence characteristics of four UV membrane dyes: the anisotropy of 1-6-phenyl-1,3,5,-hexatrien (DPH), two derivatives of DPH (TMA-DPH and COO^–-DHP), and the generalized polarization of 6-dodecanoyl-2-dimethyl-aminonaphthalene (Laurdan). Our results indicate that the tested non-UV dyes do not reveal dynamically relevant membrane parameters in a direct manner. However, spectral characteristics make DiIC₁₈, Nile Red, and DCVJ promising probes for the microscopic detection of lateral lipid organization, an indirect indicator of membrane dynamics. In particular, DiIC₁₈ showed very selective shifts in the emission spectra at defined temperatures and cholesterol contents that have not been reported elsewhere.     

Enhancement of the fluorescence of triphenylmethane dyes caused by their interaction with nanoparticles from β-diketonate complexes

We have studied the absorption and fluorescence spectra of Malachite Green and Crystal Violet in aqueous and alcoholic-aqueous solutions in which nanoparticles from Ln(III) and Sc(III) diketonates are formed at concentrations of complexes in a solution of 5–30 μM. We have shown that, if the concentrations of the dyes in the solution are lower than 0.5 μM, dye molecules are incorporated completely into nanoparticles or are precipitated onto their surface. The fluorescence intensity of these incorporated and adsorbed Malachite Green and Crystal Violet molecules increases by several orders of magnitude compared to the solution, which takes place because of a sharp increase in the fluorescence quantum yields of these dyes and at the expense of the sensitization of their fluorescence upon energy transfer from β-diketonate complexes entering into the composition of nanoparticles. We have shown that, if there is no concentration quenching, the values of the fluorescence quantum yield of the Crystal Violet dye incorporated into nanoparticles and adsorbed on their surface vary from 0.06 to 0.13, i.e., are close to the fluorescence quantum yield of this dye in solid solutions of sucrose acetate at room temperature. The independence of the fluorescence quantum yield of Crystal Violet on the morphology of nanoparticles testifies to a high binding constant of complexes and the dye. The considerable fluorescence quantum yields of triphenylmethane dyes in nanoparticles and sensitization of their fluorescence by nanoparticle-forming complexes make it possible to determine the concentration of these dyes in aqueous solutions by the luminescent method in the range of up to 1 nM.     

Perylene Diimide Based Fluorescent Dyes for Selective Sensing of Nitroaromatic Compounds: Selective Sensing in Aqueous Medium Across Wide pH Range

Water soluble perylenediimide based fluorophore salt, N,N′-bis(ethelenetrimethyl ammoniumiodide)-perylene-3,4,9,10-tetracarboxylicbisimide (PDI-1), has been used for selective fluorescence sensing of picric acid (PA) and 4-nitroaniline (4-NA) in organic as well as aqueous medium across wide pH range (1.0 to 10.0). PDI-1 showed strong fluorescence in dimethylformamide (DMF) (Φf?=?0.26 (DMF) and moderate fluorescence in water. Addition of picric acid (PA) and 4-nitroaniline (4-NA) into PDI-1 in DMF/aqueous solution selectively quenches the fluorescence. The concentration dependent studies showed decrease of fluorescence linearly with increase of PA and 4-NA concentration. The interference studies demonstrate high selectivity for PA and 4-NA. Interestingly, PDI-1 showed selective fluorescence sensing of PA and 4-NA across wide pH range (1.0 to 10.0). Selective fluorescence sensing of PA and 4-NA has also been observed with trifluoroacetate (PDI-2), sulfate (PDI-3) salt of PDI-1 as well as octyl chain substituted PDI (PDI-4) without amine functionality. These studies suggest that PA and 4-NA might be having preferential interaction with PDI aromatic core and quenches the fluorescence. Thus PDI based dyes have been used for selective fluorescent sensing of explosive NACs for the first time to the best our knowledge.

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Graphical Abstract Selective fluorescent sensing of picric acid and 4-nitroaniline nitroaromatic compounds by perylene diimide fluorescent dyes

     

I-theorem for Fermi and Bose gases

The work is concerned with the change of discrimination information during self-organization of Fermi and Bose gases. A new measure of the discrimination information which determines the degree of order of states in the open systems is presented. The I-theorem for a system with known effective Hamiltonian and a system whose Hamiltonian form is not defined is proved.     

Green Fluorescent Protein (GFP) as a Marker for Cell Viability After UV Irradiation

Generation of Chinese Hamster Ovary (CHO) cell lines stably expressing green fluorescent protein (GFP) was achieved using a plasmid vector that encoded the red-shifted pCX-xGFP under the control of a strong hybrid promoter composed of a CMV enhancer and a -actin/-globin gene promoter. Cotransfection of the promoter-less pSV2-Neo helper plasmid transmitting neomycin resistance was followed by selection with the antibiotic G418. Constitutive GFP expression could be visualized in living and fixed cells using fluorescence spectroscopy, fluorescence microscopy, and flow cytometry. DNA repair-proficient (AA8) and deficient (UV5) CHO strains were used for survival tests after UVC irradiation. Cells carrying the GFP construct (AA8-pGFP, UV5-pGFP) show the same response to UV irradiation (colony forming ability) as their nontransformed parental cell lines (AA8, UV5). Using GFP as a marker for cell viability, cells were harvested after certain postirradiation growth periods and the numbers of GFP expressing cells and fluorescence intensities were determined by FACS analysis. Generally, GFP fluorescence in irradiated cells is not seen when cell membranes are damaged (leak-out of the soluble GFP). Irradiated cells without membrane damage express GFP continuously (leading to a dose-dependent increase in GFP contents).     

Electronic structure and fluorescent properties of malononitrile-based merocyanines with positive and negative solvatochromism

The behavior of the positions and shapes of the fluorescence bands of di-, tetra-, and hexamethine merocyanine dyes with 3H-indolyliden (dyes 1–3) and benzoimidazolyliden (dyes 4–6) as electron-donating substituents and malononitrile as an electron-accepting substituent is studied by the method of moments in solvents of different polarity. The solvatofluorochromic shifts have been found to be smaller than the solvatochromic shifts not only for negatively solvatochromic merocyanines 4–6, but also for dyes 1–3 whose solvatochromism is positive. For dyes 4–6, cases of a change of the sign of solvatofluorochromism with respect to the sign of solvatochromism are revealed. These nontrivial effects are accounted for by transitions between the polyene and polymethine electronic structures of merocyanines in the fluorescence state S ₁ that occur with increasing medium polarity. In contrast to the absorption spectra of merocyanines 1–3, an increase in the chain length results in an increase in the vinylene shifts in the fluorescence spectra of these dyes, as well as in a decrease in the deviations and in the narrowing of the bands. This is explained by the fact that the electronic structure of these merocyanines in the S ₁ state is closer to that of the ideal polymethine (the cyanine limit) than in the S ₀ state. The fluorescence bands of merocyanines 4–6 are observed to be broader compared to the absorption bands. This broadening is caused by a change in the relation between intermolecular and vibronic interactions during absorption and emission of light. The interactions of these types have a decisive effect on the behavior of the Stokes shifts and fluorescence quantum yields of merocyanines 1–6.     

Two-photon predissociative fluorescence of H2O by a KrF laser for concentration and temperature measurement in flames

Two-photon laser-induced predissociative fluorescence (LIPF) of H₂O is examined as a potential measurement technique of H₂O concentration and temperature in flames. Two-photons of 248 nm light from a narrowband KrF laser excite H₂O to the highly predissociative state in a hydrogen-air flame. The subsequent bound-free emission is observed from 400–500 nm in the flame at temperatures of 1000–2000 K and is found to be free of fluorescence interference from other flame species. This LIPF signal is not affected by collisional quenching due to the short lifetime of the predissociative state (2.5 ps). Broadband laser dispersion spectra, narrowband laser dispersion spectra, laser excitation spectra and probability density functions of the H₂O fluorescence are obtained in the hydrogen flame. The H₂O LIPF signal is found to be temperature sensitive and a two-line LIPF technique is needed for concentration and temperature measurement. The accuracy of a two-line LIPF technique for H₂O concentration and temperature measurement is determined.     

Quenching of fluorescence by light: A new method to control the excited-state lifetimes and orientations of fluorophores

We report steady-state and time-resolved studies of quenching of fluorescence by light i.e. light quenching. The dyes rhodamine B (RhB) and 4-dicyanomethylene-2-methyl-6(p-dimethamino)-4H-pyrane (DCM) were excited in the anti-Stokes region from 560 to 615 nm. At a high illumination power the intensities of DCM and RhB were sublinear with incident power, an effect we believe is due to stimulated emission, andnot ground-state depopulation. The extent of light quenching was proportional to the amplitude of the emission spectrum at the incident wavelength, as expected for light-stimulated decay from the excited state. Control measurements at a decreased average illumination power, and in solvents of various viscosities, indicated that the effect was not due to undesired photochemical processes. Importantly, the frequency-domain intensity decays remained single exponentials, and the lifetimes were unchanged with light quenching, which suggests that the effect was not due to heating or other photochemical effects. These results are consistent with a quenching process which occurs within the quenching pulse. Importantly, as expected for light quenching with a single pulsed laser beam, the time 0 anisotropies of RhB and DCM were decreased due to orientation-dependent quenching of the excited-state population. In closing we discuss some possible future applications of light quenching to studies of dynamic processes.This report is partially based on the experimental data published previously [1,2].     

Effect of γ-Irradiation on the Absorption Spectra of the Solutions of Acid Dyes

The absorption spectra of -irradiated solutions of some acid dyes in various solvents are investigated. The characteristic times of radiation-induced destruction of dyes in the solutions are determined. It is shown that irreversible radiative discoloration of solutions occurs as a result of the interaction of the dye molecules with the oxygen-containing radicals formed in radiolysis of solvents. Practical recommendations for increasing the radiation stability of the solutions of acid dyes and for using them as detectors of a dose of hard radiation are given.     

Fluorescence investigations of pure and mixed evaporated dye layers

Fluorescence spectroscopy is used to investigate energy transfer processes in evaporated layers consisting of several different dyes. In this study films ofN,N-dimethylperylene-3,49,10-bis-dicarboximide (methylperylene pigment, MPP), coevaporated with copper phthalocyanine (CuPc) at varying ratios, and double layers of MPP and CuPc with different thicknesses are investigated. It is shown that energy transfer from MPP to CuPc occurs in both mixed and double layers. The energy transfer leads to a strong quenching of the MPP fluorescence and sensitized CuPc emission in the NIR region. The concentration dependence of the fluorescence quenching in mixed layers can be described by a Stern-Volmer plot. A simple model based on exciton diffusion between MPP molecules toward active quenching centers is used to determine the diffusion length.     

Silver Fractal-Like Structures for Metal-Enhanced Fluorescence: Enhanced Fluorescence Intensities and Increased Probe Photostabilities

Substantial increases in fluorescence emission from fluorophore-protein–coated fractal-like silver structures have been observed. We review two methods for silver fractal structure preparation, which have been employed and studied. The first, a roughened silver electrode, typically yielded a 100-fold increase in fluorophore emission, and the second, silver fractal-like structures grown on glass between two silver electrodes, produced a 500-fold increase. In addition, significant increases in probe photostability were observed for probes coated on the silver fractal like structures. These results further serve to compliment our recent work on the effects of nobel metal particles with fluorophores, a relatively new phenomenon in fluorescence we have termed both metal-enhanced fluorescence [1] and radiative decay engineering [2,3]. These results are explained by the metallic surfaces modifying the radiative decay rate () of the fluorescent labels. We believe that this new silver-surface preparation, which results in ultrabright and photostable fluorophores, offers a new generic technology platform for increased fluorescence signal levels, with widespread potential applications to the analytical sciences, imaging, and medical diagnostics.     

Spectroscopy of alkali atoms and molecules attached to liquid He clusters

Large helium clusters, ranging in size from a few hundred to several thousand atoms, are produced in a nozzle expansion. Combining this source with a pick-up scattering cell in which the clusters can be seeded with chromophores allows us to probe the influence of the helium environment on the atoms and molecules attached to the clusters. Using an alkali as chromophore we recorded laser induced fluorescence spectra of Na atoms and molecules attached to helium clusters. Apart from the spectrum of the Na monomer, we have found spectroscopic bands which can unambiguous be assigned to two bound Na atoms. The first of this bands is due to 1^{1 +} (A) 1¹ _g ⁺ (X) excitations of the covalently bound singlet Na₂ molecule while the second is due to 1³ _g ⁺ 1^{3 +} excitations for the van der Waals bound triplet Na₂ dimer. Both bands have been vibrationally resolved. Furthermore we found very large fluorescence intensities in the region 605–635 nm which are likely due to the excitation of a species containing three Na atoms attached to a helium cluster.     

Fluorescence Studies of the Acetylcholine Receptor: Structure and Dynamics in Membranes and Cells

The nicotinic acetylcholine receptor (AChR) is the archetype member of the superfamily of ligand-gated ion channels that mediate fast intercellular communication in response to endogenous neurotransmitters. Here I review a series of biophysical studies on the AChR protein, with particular focus on the interactions of the macromolecule with its lipid microenvironment. Fluorescence recovery after photobleaching and phosphorescence anisotropy studies of the membrane-embedded AChR have contributed to our understanding of the translational and rotational dynamics of this protein in synthetic lipid bilayers and in the native membrane. Electron spin resonance studies led to the discovery of a lipid fraction in direct contact with the AChR with rotational dynamics 50-fold slower than that of the bulk lipids. This lipid belt region around the AChR molecule has since been intensively studied with the aim to define its possible role in the modulation of receptor function. The polarity and molecular dynamics of solvent dipoles—mainly water—in the vicinity of the lipids in the AChR membrane have been studied exploiting the amphiphilic fluorescent probe Laurdan's exquisite sensitivity to the phase state of the membrane, and Förster-type resonance energy transfer (FRET) was introduced to characterize the receptor-associated lipid microenvironment. FRET was used to discriminate between the bulk lipid and the lipid belt region in the vicinity of the protein. Further refinement of this topographical information was provided by the parallax method using phospholipid spin labels. The AChR-vicinal lipid is in a liquid-ordered phase and exhibits a higher degree of order than the bulk bilayer lipid. Changes in FRET efficiency induced by fatty acids, phospholipid, and cholesterol also led to the identification of discrete sites for these lipids on the AChR protein. I also illustrate the extension of Laurdan fluorescence studies to intact living cells heterologously expressing AChR in a brief section devoted to recent studies using two-photon fluorescence microscopy. The spatial resolution afforded by the two-photon optical sectioning of the cell in combination with the advantageous spectroscopic properties of Laurdan are exploited to obtain information on the physical state of the lipid environment of the membrane. Finally, the application of site-specific labeling and steady-state fluorescence spectroscopy to probe the location of AChR membrane-embedded domains is illustrated. The topography of the pyrene-labeled Cys residues in transmembrane domains M1, M4, M1, and M4 with respect to the membrane was determined by differential fluorescence quenching with lipid-resident spin-labeled probes. Cys residues were found to lie in a shallow position. For M4 segments, this is compatible with a linear -helical structure, but not so for M1, for which classical models locate Cys residues at the center of the hydrophobic stretch. The transmembrane topography of M1 can be rationalized on the basis of the presence of a substantial amount of nonhelical structure and/or of kinks attributable to the occurrence of the evolutionarily conserved proline residues. The latter is a striking feature of M1 in the AChR and all members of the rapid ligand-gated ion channel superfamily.     

Phenylalanine fluorescence and phosphorescence used as a probe of conformation for cod parvalbumin

The fluorescence emission and triplet absorption properties of phenylalanine in cod fish parvalbumin type II, a protein that contains no Trp or Tyr, was examined in the time scale ranging from nanoseconds to microseconds at 25°C in aqueous buffer (pH 7.0). In the presence of Ca(II), the decay of fluorescence gave two lifetimes (5.9 and 53 ns) and the triplet lifetime was 425 s. Upon removal of Ca, the fluorescence intensity decreased to values approaching that for free Phe, while the longest fluorescence decay component was 17 ns. At the same time, the decay of triplet showed complex nonexponential kinetics with decay rates faster than in the presence of Ca. Quenching and denaturation analyses suggest that the Phe's are present in a hydrophobic environment in the Ca-bound protein but that the Ca-free protein is relatively unstructured. It is concluded that Phe luminescence in proteins is sensitive to conformation and that the long lifetime of Phe excited states needs to be considered when studying its photochemistry in proteins.     

Instantaneous Fluorescence Quantum Yield—A New Quantity with Characteristic “Fingerprints” for Excited-State Processes

The instantaneous fluorescence quantum yield _ins—a new quantity for fluorescence studies defined as the ratio of the fluorescence intensity to the optical density, both measured at the moment of the maximum of the exciting pulse—proves to be a very sensitive function for excited-state processes. Dependent on the excitation intensity _ins exhibits characteristic features (maxima/minima) indicating, for example, excited-state absorptions and annihilation processes. _ins is therefore more informative as the intensity dependence of the usually utilized fluorescence yield, the information content of which is restricted because this function is hardly structured. In the paper the influences of specific molecular parameters (excited-state absorption cross section, annihilation constant) on _ins are given, problems of the experimental accessibility of _ins are discussed, and an experimental setup for determination of this new quantity is presented. The application of the method is demonstrated for identification of excited-state absorptions of organic molecules in solution.