Small Fluorescent Probes Research Articles

Visualization of vesicular transport from the endoplasmic reticulum to lysosome using an amidine derived two-photon probe.

We report an amidine-based small molecule two-photon fluorescent probe (ELP1) for monitoring vesicle transport from the ER to lysosome in live cells. Two-photon microscopy imaging studies indicated that this probe initially localized in the ER and subsequently transferred to lysosomal compartments through vesicular transport. These results may provide an effective tool for studying trafficking-related biology and pathology in real-time.

Affinity-based small fluorescent probe for NAD(P)H:quinone oxidoreductase 1 (NQO1). Design, synthesis and pharmacological evaluation

NQO1 is a dimeric flavoprotein which intimately associated with cancer and overexpressed in the cytosol of numerous human tumor cells. Given that the cellular environment is quite dynamic and versatile, further investigation of the function of NQO1 depends on tools for specific detection of it. Currently, several activity-based assays have been developed to detect NQO1-expressing cancerous tissues. Herein, we report the development of a functional affinity-based small-molecule probe which is composed of a potent small-molecule NQO1 inhibitor 3d as the recognition group, a linker and the fluorophores group FITC. The probe exhibits good inhibitory activity of NQO1 and has been successfully used to label the protein in A549 cells at the micromolar level. These features make the probe favorable for mechanistic studies and cancer diagnostic biomarker. Based on these preliminary results, our laboratory will focus on the further development of fluorescent probe for NQO1, which could be anticipated to be applied in physiological and pathological studies of NQO1.

Novel Bio-imaging Tools Based on the Precise Design of Functional Fluorescence Probes.

Fluorescence imaging is one of the most powerful techniques currently available for continuous observation of intracellular processes in living cells and tissues, and so it would be useful to have a large toolset of fluorescence probes suitable for visualizing bioactive molecules or biological phenomena. However, design strategies for small molecule-based fluorescence probes have been limited. Therefore, we are interested in establishing novel rational design strategies for developing functional fluorescence probes. For this purpose, we have focused on the intramolecular spirocyclization reaction of rhodamine derivatives bearing intramolecular nucleophiles as a fluorescence switching mechanism; these derivatives exist in thermal equilibrium between a fluorescent open form and a non-fluorescent spirocyclic form. By utilizing this reaction, we have successfully developed various kinds of fluorescence probes. This review first describes the design of our recently developed fluorescence probes, and then introduces their applications for visualizing the activities of reporter enzymes, for in vivo cancer imaging, and for super-resolution imaging. We believe these probes can serve as key tools to provide unprecedented insights into a wide range of biological phenomena.

A conveniently prepared and hypersensitized small molecular fluorescent probe: Rapidly detecting free zinc ion in HepG2 cells and Arabidopsis

In this paper, we reported a conveniently prepared fluorescent probe for zinc ions detection, which constructed by the condensation reaction between p-(benzothiazolyl)aniline with 4, 4- diethylaminesalicylaldehyde. The sensing ability of the probe toward zinc ions in vitro was tested by a series of UV-Vis and fluorescence spectroscopy studies, which showed that the probe possessed high sensitivity with a detection limit of 5.8nM and a rapid response time of 10s. We also carried out fluorescent bio-imaging of the probe for zinc ions in human liver hepatocellular carcinoma cells (HepG2), which showed that the probe could be utilized to detect the intracellular endogenous zinc ions visually without introducing external zinc sources. Meanwhile, co-staining experiment with organelle selective trackers was performed to illustrate that the probe could locate at endoplasmic reticulum. Finally, we successfully used it as a zinc ion developer in plant tissue, which clearly demonstrated the distribution of zinc ions in the growth stage of plant tissue.

Analysis of complex anisotropy decays from single-frequency polarized-phasor ellipse plots

The anisotropy decay of a fluorescently-labelled macromolecule provides information on the internal and global dynamics of the macromolecule. Weber was a pioneer of fluorescent probes, polarization and polarized phase-modulation methods and revealed the power of combining or comparing these methods to disentangle complex modes of emission depolarization. In this paper we take a similar course and show that when measurements of dynamic depolarization are combined with steady-state anisotropy, complex anisotropy decays can be deduced from measurements at a single modulation frequency. Specifically, a double exponential anisotropy decay can be resolved by combining one of the polarized emission phasors with the steady-state anisotropy. The key is the polarized phasor ellipse plot which provides a convenient visualisation aid and reduces the dimensionality of the minimisation problem from three variables to one variable. We illustrate these concepts with an experimental measurement of the anisotropy decay of a small cytoplasmic fluorescent probe in live cells.

Characterization of Cytokinetic Mutants Using Small Fluorescent Probes.

Cytokinesis is a powerful paradigm for addressing fundamental questions of plant biology including molecular mechanisms of development, cell division, cell signaling, membrane trafficking, cell wall synthesis, and cytoskeletal dynamics. Genetics was instrumental in identification of proteins regulating cytokinesis. Characterization of mutant lines generated using forward or reverse genetics includes microscopic analysis for defects in cell division. Typically, failure of cytokinesis results in appearance of multinucleate cells, formation of cell wall stubs, and isotropic cell expansion in the root elongation zone. Small fluorescent probes served as a very effective tool for the detection of cytokinetic defects. Such probes stain living or formaldehyde-fixed specimens avoiding complex preparatory steps. Although resolution of the fluorescence probes is inferior to electron microscopy, the procedure is fast, easy, and does not require expensive materials or equipment. This chapter describes techniques for staining DNA with the probes DAPI and SYTO82, for staining membranes with FM4-64, and for staining cell wall with propidium iodide.

Fluorescence turn-on for the highly selective detection of nitric oxide in vitro and in living cells.

Nitric oxide (NO) is the first ubiquitous signaling molecule in the human body. The selective and sensitive detection of NO in vitro and in vivo is of high importance but remains challenging. Previous fluorescent probes for NO detection either are of poor water solubility or lack selectivity over intracellular biomolecules. Herein, we rationally designed a water-soluble, biocompatible, small molecular probe o-phenylenediamine-Phe-Phe-OH (1) for the highly selective and sensitive detection of NO in vitro and in living cells. 1 can react with NO and turn on the fluorescence emission at 367 nm via an ICT mechanism. In vitro tests indicated that 1 showed high selectivity for NO detection without interference from common anions, ROS/RNS, and intracellular biomolecules DHA, AA, or MGO. In PBS buffer, 1 was applied for detecting NO within the range of 0-12 μM with a LOD of 6 nM. Moreover, 1 was successfully applied to sense intracellularly generated NO in living cells. We anticipate that 1 could be potentially employed for studying the toxicity and bioactivity of NO in the near future.

Internalization and Accumulation in Dendritic Cells of a Small pH-Activatable Glycomimetic Fluorescent Probe as Revealed by Spectral Detection.

DC-SIGN, an antigen-uptake receptor in dendritic cells (DCs), has a clear role in the immune response but, conversely, can also facilitate infection by providing entry of pathogens into DCs. The key action in both processes is internalization into acidic endosomes and lysosomes. Molecular probes that bind to DC-SIGN could thus provide a useful tool to study internalization and constitute potential antagonists against pathogens. So far, only large molecules have been used to directly observe DC-SIGN-mediated internalization into DCs by fluorescence visualization. We designed and synthesized an appropriate small glycomimetic probe. Two particular properties of the probe were exploited: activation in a low-pH environment and an aggregation-induced spectral shift. Our results indicate that small glycomimetic molecules could compete with antigen/pathogen for binding not only outside but also inside the DC, thus preventing the harmful action of pathogens that are able to intrude into DCs, for example, HIV-1.

Accumulation of cell-penetrating peptides in large unilamellar vesicles: A straightforward screening assay for investigating the internalization mechanism.

The internalization of cell-penetrating peptides (CPPs) into liposomes (large unilamellar vesicles, LUVs) was studied with a rapid and robust procedure based on the quenching of a small fluorescent probe, 7-nitrobenz-2-oxa-1,3-diazole (NBD). Quenching can be achieved by reduction with dithionite or by pH jump. LUVs with different compositions of phospholipids (PLs) were used to screen the efficacy of different CPPs. In order to "validate" the composition of the membrane models, a control cationic peptide, which does not enter eukaryotic cells, was included in the study. It was found that pure DOPG or DOPG within ternary mixtures with cholesterol are the most appropriate models for studying CPP translocation. An anionic lipid, such as DOPG, is required for the adsorption of the basic peptides on the surface of LUVs. In addition, it acts as transfer agent through the lipid bilayer. A fluid phase and/or the presence of phase defects also appear mandatory for the internalization to occur. The neutralization of charges within an inverted micelle demonstrated in the case of DOPG and also proposed for a ternary mixture of PLs might not be the only mechanism for the CPP translocation. Finally, it is shown that oleic acid facilitates the entry inside LUVs in gel phase of a series of cationic peptides including CPPs and also the negative control peptide PKCi.

Rapid labeling of intracellular His-tagged proteins in living cells

Small molecule-based fluorescent probes have been used for real-time visualization of live cells and tracking of various cellular events with minimal perturbation on the cells being investigated. Given the wide utility of the (histidine)6-Ni(2+)-nitrilotriacetate (Ni-NTA) system in protein purification, there is significant interest in fluorescent Ni(2+)-NTA-based probes. Unfortunately, previous Ni-NTA-based probes suffer from poor membrane permeability and cannot label intracellular proteins. Here, we report the design and synthesis of, to our knowledge, the first membrane-permeable fluorescent probe Ni-NTA-AC via conjugation of NTA with fluorophore and arylazide followed by coordination with Ni(2+) ions. The probe, driven by Ni(2+)-NTA, binds specifically to His-tags genetically fused to proteins and subsequently forms a covalent bond upon photoactivation of the arylazide, leading to a 13-fold fluorescence enhancement. The arylazide is indispensable not only for fluorescence enhancement, but also for strengthening the binding between the probe and proteins. Significantly, the Ni-NTA-AC probe can rapidly enter different types of cells, even plant tissues, to target His-tagged proteins. Using this probe, we visualized the subcellular localization of a DNA repair protein, Xeroderma pigmentosum group A (XPA122), which is known to be mainly enriched in the nucleus. We also demonstrated that the probe can image a genetically engineered His-tagged protein in plant tissues. This study thus offers a new opportunity for in situ visualization of large libraries of His-tagged proteins in various prokaryotic and eukaryotic cells.

Multispectral phloem-mobile probes: properties and applications.

Using Arabidopsis (Arabidopsis thaliana) seedlings, we identified a range of small fluorescent probes that entered the translocation stream and were unloaded at the root tip. These probes had absorbance/emission maxima ranging from 367/454 to 546/576 nm and represent a versatile toolbox for studying phloem transport. Of the probes that we tested, naturally occurring fluorescent coumarin glucosides (esculin and fraxin) were phloem loaded and transported in oocytes by the sucrose transporter, AtSUC2. Arabidopsis plants in which AtSUC2 was replaced with barley (Hordeum vulgare) sucrose transporter (HvSUT1), which does not transport esculin in oocytes, failed to load esculin into the phloem. In wild-type plants, the fluorescence of esculin decayed to background levels about 2 h after phloem unloading, making it a suitable tracer for pulse-labeling studies of phloem transport. We identified additional probes, such as carboxytetraethylrhodamine, a red fluorescent probe that, unlike esculin, was stable for several hours after phloem unloading and could be used to study phloem transport in Arabidopsis lines expressing green fluorescent protein.

Small molecule-based ratiometric fluorescence probes for cations, anions, and biomolecules.

Quantitative determination of specific analytes is essential for a variety of applications ranging from life sciences to environmental monitoring. Optical sensing allows non-invasive measurements within biological milieus, parallel monitoring of multiple samples, and less invasive imaging. Among the optical sensing methods currently being explored, ratiometric fluorescence sensing has received particular attention as a technique with the potential to provide precise and quantitative analyses. Among its advantages are high sensitivity and inherent reliability, which reflect the self-calibration provided by monitoring two (or more) emissions. A wide variety of ratiometric sensing probes using small fluorescent molecules have been developed for sensing, imaging, and biomedical applications. In this research highlight, we provide an overview of the design principles underlying small fluorescent probes that have been applied to the ratiometric detection of various analytes, including cations, anions, and biomolecules in solution and in biological samples. This highlight is designed to be illustrative, not comprehensive.

A new selective ‘turn-on’ small fluorescent cationic probe for recognition of RNA in cells

Fluorescent imaging probes have revolutionised cell biology by monitoring cellular objects. However, the lack of fluorescent probes with high selectivity for RNA has been a drawback. Thus, selective RNA binding for fluorescent sensors is essential. Here, we report the selective fluorescence enhancement upon addition of RNA. By exploiting a selective recognition of small tetra-cationic probe 1 for RNA, we also explain the possible binding mode for RNA. As a membrane-permeant fluorescence probe, 1 provides selective imaging of RNA not only in human neuroblastoma tumour SH-SY5Y cell line used for Parkinson's disease but also in the unicellular green alga cells. Further exploitation could open new opportunities in neurotoxin and cancer biology.

A thiazole coumarin (TC) turn-on fluorescence probe for AT-base pair detection and multipurpose applications in different biological systems.

Sequence-specific recognition of DNA by small turn-on fluorescence probes is a promising tool for bioimaging, bioanalytical and biomedical applications. Here, the authors report a novel cell-permeable and red fluorescent hemicyanine-based thiazole coumarin (TC) probe for DNA recognition, nuclear staining and cell cycle analysis. TC exhibited strong fluorescence enhancement in the presence of DNA containing AT-base pairs, but did not fluoresce with GC sequences, single-stranded DNA, RNA and proteins. The fluorescence staining of HeLa S3 and HEK 293 cells by TC followed by DNase and RNase digestion studies depicted the selective staining of DNA in the nucleus over the cytoplasmic region. Fluorescence-activated cell sorting (FACS) analysis by flow cytometry demonstrated the potential application of TC in cell cycle analysis in HEK 293 cells. Metaphase chromosome and malaria parasite DNA imaging studies further confirmed the in vivo diagnostic and therapeutic applications of probe TC. Probe TC may find multiple applications in fluorescence spectroscopy, diagnostics, bioimaging and molecular and cell biology.

Tryptophan-based fluorophores for studying protein conformational changes

With the continuing interest in deciphering the interplay between protein function and conformational changes, small fluorescence probes will be especially useful for tracking changes in the crowded protein interior space. Presently, we describe the potential utility of six unnatural amino acid fluorescence donors structurally related to tryptophan and show how they can be efficiently incorporated into a protein as fluorescence probes. We also examine the various photophysical properties of the new Trp analogues, which are significantly redshifted in their fluorescence spectra relative to tryptophan. In general, the Trp analogues were well tolerated when inserted into Escherichia coli DHFR, and did not perturb enzyme activity, although substitution for Trp22 did result in a diminution in DHFR activity. Further, it was demonstrated that D and E at position 37 formed efficient FRET pairs with acridon-2-ylalanine (Acd) at position 17. The same was also true for a DHFR construct containing E at position 79 and Acd at position 17. Together, these findings demonstrate that these tryptophan analogues can be introduced into DHFR with minimal disruption of function, and that they can be employed for the selective study of targeted conformational changes in proteins, even in the presence of unmodified tryptophans.

Molecular engineering of a TBET-based two-photon fluorescent probe for ratiometric imaging of living cells and tissues.

In contrast to one-photon microscopy, two-photon probe-based fluorescent imaging can provide improved three-dimensional spatial localization and increased imaging depth. Consequently, it has become one of the most attractive techniques for studying biological events in living cells and tissues. However, the quantitation of these probes is primarily based on single-emission intensity change, which tends to be affected by a variety of environmental factors. Ratiometric probes, on the other hand, can eliminate these interferences by the built-in correction of the dual emission bands, resulting in a more favorable system for imaging living cells and tissues. Herein, for the first time, we adopted a through-bond energy transfer (TBET) strategy to design and synthesize a small molecular ratiometric two-photon fluorescent probe for imaging living cells and tissues in real time. Specifically, a two-photon fluorophore (D-π-A-structured naphthalene derivative) and a rhodamine B fluorophore are directly connected by electronically conjugated bond to form a TBET probe, or Np-Rh, which shows a target-modulated ratiometric two-photon fluorescence response with highly efficient energy transfer (93.7%) and two well-resolved emission peaks separated by 100 nm. This novel probe was then applied for two-photon imaging of living cells and tissues and showed high ratiometric imaging resolution and deep-tissue imaging depth of 180 μm, thus demonstrating its practical application in biological systems.

“Fastening” Porphyrin in Highly Cross-Linked Polyphosphazene Hybrid Nanoparticles: Powerful Red Fluorescent Probe for Detecting Mercury Ion

It is a significant issue to overcome the concentration-quenching effect of the small fluorescent probes and maintain the high fluorescent efficiency at high concentration for sensitive and selective fluorescent mark or detection. We developed a new strategy to "isolate" and "fasten" porphyrin moieties in a highly cross-linked poly(tetraphenylporphyrin-co-cyclotriphosphazene) (TPP-PZS) by the polycondensation of hexachlorocyclotriphosphazene (HCCP) and 5,10,15,20-tetrakis(4-hydroxyphenyl)porphyrin (TPP-(OH)4) in a suitable solvent. The resulting TPP-PZS particles were characterized with transmission electron microscopy (TEM), scanning electron microscopy (SEM), Fourier transform infrared (FTIR), (31)P nuclear magnetic resonance (NMR), and ultraviolet and visible (UV-vis) absorption spectra. Remarkably, TPP-PZS particles obtained in acetone emitted a bright red fluorescence both in powder state and in solution because the aggregation of porphyrin moieties in "H-type" (face-to-face) and "J-type" (edge-to-edge) was effectively blocked. The fluorescent TPP-PZS particles also showed superior resistance to photobleaching, and had a high sensitivity and selectivity for the detection of Hg(2+) ions. The TPP-PZS particles were therefore used as an ideal material for preparing test strips to quickly detect/monitor the Hg(2+) ions in a facile way.

A small molecule two-photon fluorescent probe for intracellular sodium ions

We report a small-molecule two-photon fluorescent probe (ANa2) for Na(+) that shows a strong TPEF enhancement in response to Na(+) and can be easily loaded into live cells and can real time monitor the fluctuation of [Na]i in live cells and living tissue at more than 100 μm depth.

Breaking the Millisecond Barrier: Single Molecule Motors Wobble to Find their Next Binding Sites

Breaking the Millisecond Barrier: Single Molecule Motors Wobble to Find their Next Binding Sites

Probing the interaction of a globular protein with a small fluorescent probe in the presence of silver nanoparticles: spectroscopic characterization of its domain specific association and dissociation

Photoinduced intramolecular charge transfer produces a polar excited state in the small fluorescent probe 1-anilino-8-naphthalene-sulfonate (ANS) rendering the resulting emission sensitive to the medium polarity. The binding of ANS to proteins has been well characterized in the literature. The probe binds to the less polar hydrophobic, restricted proteinous environment of bovine serum albumin (BSA) resulting in a blue shift of the emission maximum with an increase in emission intensity. However, upon addition of silver nanoparticles to the probe–BSA system, there was found to be an interaction between the nanoparticle and protein resulting in a weakening of the probe–BSA binding and an associated conformational change of the protein in order to accommodate the silver nanoparticle. This has been hitherto undeciphered. Studies using site markers of flufenamic acid and phenylbutazone coupled with other spectroscopic techniques, REES, time resolved studies, FTIR, and SEM imaging studies have shed light on the interaction of silver nanoparticles with the probe bound protein. ANS was observed to move from its binding site in the protein to accommodate the silver nanoparticle surface which involved conformational changes of the protein near the probe binding site. The association of the probe to the protein and its dissociation from the sites on introduction of silver nanoparticles has thus been investigated using spectroscopic studies.