DNA hybridization detection with water-soluble conjugated polymers and chromophore-labeled single-stranded DNA

A Perspective Looking Backward and Forward on the 25th Anniversary of Conjugated Polyelectrolytes

Conjugated polyelectrolytes are π-conjugated polymers that contain ionic charged groups such as sulfonate (R-SO3-), carboxylate (R-COO-), or ammonium (R-NR3+) combined with a π-conjugated backbone. This perspective provides a summary review of the key developments in the field, starting from the first reports of their synthesis and properties to application-focused developments. The applications include optical sensors for molecular and biomolecular targets, organic electronic applications, and specific biological applications including cellular imaging and photodynamic therapy. This perspective concludes with a discussion of where the field of conjugated polyelectrolytes is expected to lead in the coming years.

Conjugated Oligoelectrolyte with DNA Affinity for Enhanced Nuclear Imaging and Precise DNA Quantification

Precise DNA quantification and nuclear imaging are pivotal for clinical testing, pathological diagnosis, and drug development. The detection and localization of mitochondrial DNA serve as crucial indicators of cellular health. We introduce a novel conjugated oligoelectrolyte (COE) molecule, COE-S3, featuring a planar backbone composed of three benzene rings and terminal side chains. This unique amphiphilic structure endows COE-S3 with exceptional water solubility, a high quantum yield of 0.79, and a significant fluorescence Stokes shift (λex = 366 nm, λem = 476 nm), alongside a specific fluorescence response to DNA. The fluorescence intensity correlates proportionally with DNA concentration. COE-S3 interacts with double-stranded DNA (dsDNA) through an intercalation binding mode, exhibiting a binding constant (K) of 1.32 × 106 M-1. Its amphiphilic nature and strong DNA affinity facilitate its localization within mitochondria in living cells and nuclei in apoptotic cells. Remarkably, within 30 min of COE-S3 staining, cell vitality can be discerned through real-time nuclear fluorescence imaging of apoptotic cells. COE-S3's high DNA selectivity enables quantitative intracellular DNA analysis, providing insights into cell proliferation, differentiation, and growth. Our findings underscore COE-S3, with its strategically designed, shortened planar backbone, as a promising intercalative probe for DNA quantification and nuclear imaging.

Induced Self-Assembly and Disassembly of Alkynylplatinum(II) 2,6-Bis(benzimidazol-2'-yl)pyridine Complexes with Charge Reversal Properties: "Proof-of-Principle" Demonstration of Ratiometric Förster Resonance Energy Transfer Sensing of pH

A series of pH-responsive alkynylplatinum(II) 2,6-bis(benzimidazol-2'-yl)pyridine (bzimpy) complexes with charge-reversal properties was synthesized, and the supramolecular assemblies between conjugated polyelectrolyte, PFP-OSO₃^-, and [Pt{bzimpy(TEG)₂}{C≡C-C₆H₃-(COOH)₂-3,5}]Cl (1) have been studied using UV-vis absorption, emission, and resonance light scattering (RLS) spectroscopy. An efficient Förster resonance energy transfer (FRET) from PFP-OSO₃^- donor to the aggregated 1 as acceptor with the aid of Pt(II)···Pt(II) interactions has been presented, which leads to a growth of triplet metal-metal-to-ligand charge transfer (³MMLCT) emission in the low-energy red region. The two-component PFP-OSO₃^--1 ensemble was then exploited as a "proof-of-principle" concept strategy for pH sensing by tracking the ratiometric emission changes. With the aid of judicious molecular design on the pH-driven charge-reversal property, the polyelectrolyte-induced self-assembly and the FRET from PFP-OSO₃^- to the platinum(II) aggregates have been modulated. Together with its excellent reversibility and photostability, the extra stability provided by the Pt(II)···Pt(II) and π-π stacking interactions on top of the electrostatic and hydrophobic interactions existing in polyelectrolye-complex assemblies has led to a selective and sensitive pH sensing assay.

Recent Advances in Conjugated Polymer-Based Biosensors for Virus Detection

Nowadays, virus pandemics have become a major burden seriously affecting human health and social and economic development. Thus, the design and fabrication of effective and low-cost techniques for early and accurate virus detection have been given priority for prevention and control of such pandemics. Biosensors and bioelectronic devices have been demonstrated as promising technology to resolve the major drawbacks and problems of the current detection methods. Discovering and applying advanced materials have offered opportunities to develop and commercialize biosensor devices for effectively controlling pandemics. Along with various well-known materials such as gold and silver nanoparticles, carbon-based materials, metal oxide-based materials, and graphene, conjugated polymer (CPs) have become one of the most promising candidates for preparation and construction of excellent biosensors with high sensitivity and specificity to different virus analytes owing to their unique π orbital structure and chain conformation alterations, solution processability, and flexibility. Therefore, CP-based biosensors have been regarded as innovative technologies attracting great interest from the community for early diagnosis of COVID-19 as well as other virus pandemics. For providing precious scientific evidence of CP-based biosensor technologies in virus detection, this review aims to give a critical overview of the recent research related to use of CPs in fabrication of virus biosensors. We emphasize structures and interesting characteristics of different CPs and discuss the state-of-the-art applications of CP-based biosensors as well. In addition, different types of biosensors such as optical biosensors, organic thin film transistors (OTFT), and conjugated polymer hydrogels (CPHs) based on CPs are also summarized and presented.

Laser-Induced Fluorescence (LIF) Spectroscopy of Trapped Molecular Ions in the Gas Phase

This review focuses on the laser-induced fluorescence (LIF) spectroscopy of trapped gas-phase molecular ions, a developing field of research. Following a brief description of the theory and experimental approaches employed in general for fluorescence spectroscopy, the review summarizes the current state-of-the-art intrinsic fluorescence measurement techniques employed for gas-phase ions. Whereas the LIF spectroscopy of condensed matter systems is a well-developed area of research, the instrumentation used for such studies is not directly applicable to gas-phase ions. However, some measurement schemes employed in condensed-phase experiments could be highly beneficial for gas-phase investigations. We have included a brief discussion on some of these techniques as well. Quadrupole ion traps are commonly used for spatial confinement of ions in the ion-trap-based LIF. One of the main challenges involved in such experiments is the poor signal-to-noise ratio (SNR) arising due to weak gas-phase fluorescence emission, high background noise, and small solid angle for the fluorescence collection optics. The experimental approaches based on the integrated high-finesse optical cavities employed for the condensed-phase measurements provide a better (typically an order of magnitude more) SNR in the detected fluorescence than the single-pass detection schemes. Another key to improving the SNR is to exploit the maximum solid angle of light collection by choosing high numerical aperture (NA) collection optics. A combination of these two approaches integrated with ion traps could transmogrify this field, allowing one to study even weak fluorescence emission from gas-phase molecular ions. The review concludes by discussing the scope of the advances in the LIF instrumentation for detailed spectral characterization of fluorophores of weak gas-phase fluorescence emission, considering fluorescein as one example.

Optical Biosensors for Virus Detection: Prospects for SARS-CoV-2/COVID-19

The recent pandemic of the novel coronavirus disease 2019 (COVID-19) has caused huge worldwide disruption due to the lack of available testing locations and equipment. The use of optical techniques for viral detection has flourished in the past 15 years, providing more reliable, inexpensive, and accurate detection methods. In the current minireview, optical phenomena including fluorescence, surface plasmons, surface-enhanced Raman scattering (SERS), and colorimetry are discussed in the context of detecting virus pathogens. The sensitivity of a viral detection method can be dramatically improved by using materials that exhibit surface plasmons or SERS, but often this requires advanced instrumentation for detection. Although fluorescence and colorimetry lack high sensitivity, they show promise as point-of-care diagnostics because of their relatively less complicated instrumentation, ease of use, lower costs, and the fact that they do not require nucleic acid amplification. The advantages and disadvantages of each optical detection method are presented, and prospects for applying optical biosensors in COVID-19 detection are discussed.

Sensitive Detection and Conjoint Analysis of Promoter Methylation by Conjugated Polymers for Differential Diagnosis and Prognosis of Glioma

Glioma is the most common primary tumor in the central nervous system (CNS) with the worst prognosis. Accurate pathological diagnosis has always been a challenge for optimal management of glioma. Promoter methylation is an important mechanism of epigenetic silencing tumor-suppressor genes and a potential biomarker for differential diagnosis and prognosis. Herein, using the cationic conjugated polymer (CCP)-based fluorescence resonance energy transfer (FRET) technique, we realized a highly sensitive detection of promoter methylation in clinical samples of minimal methylation degree (1.25%) and trace DNA quantity (10 ng/μL). Results for three glioma-related genes (MGMT, CDKN2A, and TERT) were combined in a diagnostic classifier to analyze the glioma-CpG island methylator phenotype (G-CIMP), which achieved a sensitivity of 80% at a maximum specificity of 100% for a glioma diagnosis. Kaplan-Meier survival curves and Pearson correlation analysis revealed that the prognosis of glioma patients with high G-CIMP scores (>5) was significantly better than those with low G-CIMP scores, especially in diffuse midline glioma and astrocytoma. This CCP-based FRET technique for determining G-CIMP status could provide patients with rapid and reasonably accurate diagnosis of glioma, as well as a valuable prognostic prediction that can guide individual treatment.

Multiplexed and amplified chemiluminescence resonance energy transfer (CRET) detection of genes and microRNAs using dye-loaded hemin/G-quadruplex-modified UiO-66 metal-organic framework nanoparticles

Dye-loaded UiO-66 metal-organic framework nanoparticles (NMOFs) modified with catalytic hemin/G-quadruplex DNAzyme labels act as functional hybrid modules for the chemiluminescence resonance energy transfer (CRET) analysis of miRNAs (miRNA-155 or miRNA-21) or genes (p53 or BRCA1). The dye-loaded NMOFs (dye = fluorescein (Fl) or rhodamine 6G (Rh 6G)) are modified with hairpin probes that are engineered to include in their loop domains recognition sequences for the miRNAs or genes, and in their stem regions caged G-quadruplex domains. In the presence of the analytes miRNAs or genes, the hairpin structures are opened, leading, in the presence of hemin, to the self-assembly of hemin/G-quadruplex DNAzyme labels linked to the dye-loaded NMOFs. In the presence of luminol and H2O2, the hemin/G-quadruplex DNAzyme labels catalyze the generation of chemiluminescence that provides radiative energy to stimulate the process of CRET to the dye loaded in the NMOFs, resulting in the luminescence of the loaded dye without external excitation. The resulting CRET signals relate to the concentrations of the miRNAs or the genes and allow the sensitive analysis of miRNAs and genes. In addition, the DNA hairpin-functionalized dye-loaded NMOF sensing modules were further applied to develop amplified miRNA or gene CRET-based sensing platforms. The dye-loaded NMOFs were modified with hairpin probes that include in their loop domain the recognition sequences for miRNA-155 or miRNA-21 or the recognition sequences for the p53 or BRCA1 genes. Subjecting the hairpin-modified NMOFs to the respective miRNAs or genes, in the presence of two hairpins H i and H j that include in their stem regions caged G-quadruplex subunit domains, results in the analyte-triggered opening of the probe hairpin linked to the NMOFs, and the opened hairpin tethers induce the cross-opening of the hairpins H i and H j by the hybridization chain reaction, HCR, resulting in the assembly of G-quadruplex wires tethered to the NMOFs. The binding of hemin to the HCR-generated chains yields hemin/G-quadruplex DNAzyme wires that enhance, in the presence of luminol/H2O2, the CRET processes in the hybrid nanostructures. These amplification platforms lead to the amplified sensing of miRNAs and genes. By mixing the Fl- and Rh 6G-loaded hairpin-functionalized UiO NMOFs, the multiplexed CRET detection of miRNA-155, miRNA-21 and the p53 and BRCA1 genes is demonstrated.

Smart materials for point-of-care testing: From sample extraction to analyte sensing and readout signal generator

The last decade has seen a surge of technical developments in the field on point-of-care testing (POCT). While these developments are extremely diverse, the common aim is to implement improved methods for quick, reliable and inexpensive diagnosis of patients within the clinical setting. While examples of successful introduction and use of POCT techniques are growing, further developments are still necessary to create POCT devices with better portability, usability and performance. Advances in smart materials emerge as potentially valuable know-hows to provide a competitive edge to the development of next generation POCT devices. This review describes the key advantages of adopting smart material-based technologies at different analytical stages of a POCT platform. Under these analytical stages which involves sample pre-treatment, analyte sensing and readout signal generator, several concepts and approaches from contemporary research work in using smart material-based technologies will be the major focus in this review. Lastly, challenges and potential outlook in implementing materials technologies from the application point of view for POCT will be discussed.

Polythiophenes with Cationic Phosphonium Groups as Vectors for Imaging, siRNA Delivery, and Photodynamic Therapy

In this work, we exploit the versatile function of cationic phosphonium-conjugated polythiophenes to develop multifunctional platforms for imaging and combined therapy (siRNA delivery and photodynamic therapy). The photophysical properties (absorption, emission and light-induced generation of singlet oxygen) of these cationic polythiophenes were found to be sensitive to molecular weight. Upon light irradiation, low molecular weight cationic polythiophenes were able to light-sensitize surrounding oxygen into reactive oxygen species (ROS) while the highest were not due to its aggregation in aqueous media. These polymers are also fluorescent, allowing one to visualize their intracellular location through confocal microscopy. The most promising polymers were then used as vectors for siRNA delivery. Due to their cationic and amphipathic features, these polymers were found to effectively self-assemble with siRNA targeting the luciferase gene and deliver it in MDA-MB-231 cancer cells expressing luciferase, leading to 30-50% of the gene-silencing effect. In parallel, the photodynamic therapy (PDT) activity of these cationic polymers was restored after siRNA delivery, demonstrating their potential for combined PDT and gene therapy.

Gas-phase action and fluorescence spectroscopy of mass-selected fluorescein monoanions and two derivatives

Gaseous fluorescein monoanions are weakly fluorescent; they display a broad fluorescence spectrum and a large Stokes shift. This contrasts with the situation in aqueous solution. One explanation of the intriguing behavior in vacuo is based on internal proton transfer from the pendant carboxyphenyl group to one of the xanthene oxygens in the excited state; another that rotation of the carboxyphenyl group relative to the xanthene leads to a partial charge transfer from one chromophore (xanthene) to the other (carboxyphenyl) when the π orbitals start to overlap. To shed light on the mechanism at play, we synthesized two fluorescein derivatives where the carboxylic acid group is replaced with either an ester or a tertiary amide functionality and explored their gas-phase ion fluorescence using the home-built LUminescence iNstrument in Aarhus (LUNA) setup. Results on the fluorescein methyl ester that has no acidic proton clearly disprove the former explanation: The spectrum remains broad, and the band center (at 605 nm) is shifted even more to the red than that of fluorescein (590 nm). Experiments on the other variant that contains a piperidino amide are also in favor of the second explanation as here the piperidino already causes the dihedral angle between the planes defining the xanthene and the benzene ring to be less than 90° in the ground state (i.e., 63°), according to density functional theory calculations. As a result of the closer similarity between the ground-state and excited-state structures, the fluorescence spectrum is narrower than those of the other two ions, and the band maximum is further to the blue (575 nm). In accordance with a more delocalized ground state of the amide derivative, action spectra associated with photoinduced dissociation recorded at another setup show that the absorption-band maximum for the amide derivative is redshifted compared to that of fluorescein (538 nm vs. 525 nm).

Chain length-dependent luminescence in acceptor-doped conjugated polymers

Semiconducting polymers doped with a minority fraction of energy transfer acceptors feature a sensitive coupling between chain conformation and fluorescence emission, that can be harnessed for advanced solution-based molecular sensing and diagnostics. While it is known that chain length strongly affects chain conformation, and its response to external cues, the effects of chain length on the emission patterns in chromophore-doped conjugated polymers remains incompletely understood. In this paper, we explore chain-length dependent emission in two different acceptor-doped polyfluorenes. We show how the binomial distribution of acceptor incorporation, during the probabilistic polycondensation reaction, creates a strong chain-length dependency in the optical properties of this class of luminescent polymers. In addition, we also find that the intrachain exciton migration rate is chain-length dependent, giving rise to additional complexity. Both effects combined, make for the need to develop sensoric conjugated polymers of improved monodispersity and chemical homogeneity, to improve the accuracy of conjugated polymer based diagnostic approaches.

Complexation of a Conjugated Polyelectrolyte and Impact on Optoelectronic Properties

Electrostatic assembly of conjugated polyelectrolytes, which combine a π-conjugated polymer backbone with pendant ionic groups, offer an opportunity for tuning materials properties and a new route for formulating concentrated inks for printable electronics. Complex coacervation, a liquid-liquid phase separation upon complexation of oppositely charged polyelectrolytes in solution, is used to form dense suspensions of π-conjugated material. A model system of a cationic conjugated polyelectrolyte poly(3-[6'-{N-butylimidazolium}hexyl]thiophene) bromide and sodium poly(styrenesulfonate) dissolved in tetrahydrofuran-water mixtures was used to investigate this complexation behavior of conjugated polyelectrolytes in terms of electrostatic strength, solvent quality, and polymer concentration. The balance of electrostatic interaction between the oppositely charged polyelectrolytes together with their charge compensating counterions and solvent quality for the hydrophobic π-conjugated backbone leads to a rich phase diagram of soluble complexes, precipitates, and complex coacervates. The conjugated polyelectrolyte in the polyelectrolyte complexes has an increased π-conjugation length and enhanced emissivity, with ideal chain configurations due to the reduction of kink sites and torsional disorder. The advantageous photophysical properties in the dense liquid phases makes the scheme attractive for the large-scale processing of optoelectronic devices, chemical sensors, and bioelectronics components.

DNA methylation detection: recent developments in bisulfite free electrochemical and optical approaches

DNA methylation is one of the significant epigenetic modifications involved in mammalian development as well as in the initiation and progression of various diseases like cancer. Over the past few decades, an enormous amount of research has been carried out for the quantification of DNA methylation in the mammalian genome. Earlier, most of these methodologies used bisulfite treatment. However, the low conversion, false reading, longer assay time and complex chemical reaction are the common limitations of this method that hinder their application in routine clinical screening. Thus, as an alternative to bisulfite conversion-based DNA methylation detection, numerous bisulfite-free methods have been proposed. In this regard, electrochemical biosensors have gained much attention in recent years for being highly sensitive yet cost-effective, portable, and simple to operate. On the other hand, biosensors with optical readouts enable direct real time detection of biological molecules and are easily adaptable to multiplexing. Incorporation of electrochemical and optical readouts into bisulfite free DNA methylation analysis is paving the way for the translation of this important biomarker into standard patient care. In this review, we provide a critical overview of recent advances in the development of electrochemical and optical readout based bisulfite free DNA methylation assays.

Fluorescence Resonance Energy Transfer-Based Wash-Free Bacterial Imaging and Antibacterial Application Using a Cationic Conjugated Polyelectrolyte

The increase in bacterial infection and antibiotic resistance has posed a severe threat to the human health. This threat has warranted an imperative demand for the development of a new and effective bactericidal material to eradicate the antibiotic-resistant pathogenic bacteria. In this work, we report the wash-free imaging of Staphylococcus aureus (Gram-positive) and Escherichia coli (Gram-negative) bacteria using cationic conjugated polyelectrolyte[9,9-bis(6'-methylimidazoliumbromide)hexyl-fluorene- co-4,7-(2,1,3-benzothiadiazole)] (PFBT-MI) based on aggregation-induced fluorescence resonance energy transfer (FRET). Cationic imidazolium group strapped on the polymer side chain not only increases its solubility in water but also helps in binding with the negatively charged bacterial membrane via electrostatic interactions to turn on its bright yellow emission. The change in the fluorescence color of conjugated polyelectrolyte in the presence of bacteria could be visualized very easily via naked eyes under a UV lamp (365 nm). Furthermore, the antibacterial activity of PFBT-MI against both S. aureus and E. coli was observed because of the amphiphilic nature of the conjugated polyelectrolyte which in turn is due to the presence of ionic functionality and conjugated polymer backbone that can intercalate very proficiently into the bacterial membrane, which disrupts the membrane integrity and thus results in toxicity. Morphologically, the membrane damage was perceived via field emission scanning electron microscopy (FESEM) images, which clearly indicated the disruption of cell membrane upon exposure to PFBT-MI. The PFBT-MI acts as an effective antibacterial agent, with a minimum inhibitory concentration (MIC) and minimum bactericidal concentration (MBC) value of (30 μM or 23.7 μg/mL) and (60 μM or 47.7 μg/mL) for S. aureus and for E. coli (60 μM or 47.7 μg/mL) and (100 μM or 79 μg/mL), respectively. Moreover, PFBT-MI shows less cytotoxicity against mammalian cells at concentration greater than MIC.

Fluorogenic PNA probes

Fluorogenic oligonucleotide probes that can produce a change in fluorescence signal upon binding to specific biomolecular targets, including nucleic acids as well as non-nucleic acid targets, such as proteins and small molecules, have applications in various important areas. These include diagnostics, drug development and as tools for studying biomolecular interactions in situ and in real time. The probes usually consist of a labeled oligonucleotide strand as a recognition element together with a mechanism for signal transduction that can translate the binding event into a measurable signal. While a number of strategies have been developed for the signal transduction, relatively little attention has been paid to the recognition element. Peptide nucleic acids (PNA) are DNA mimics with several favorable properties making them a potential alternative to natural nucleic acids for the development of fluorogenic probes, including their very strong and specific recognition and excellent chemical and biological stabilities in addition to their ability to bind to structured nucleic acid targets. In addition, the uncharged backbone of PNA allows for other unique designs that cannot be performed with oligonucleotides or analogues with negatively-charged backbones. This review aims to introduce the principle, showcase state-of-the-art technologies and update recent developments in the areas of fluorogenic PNA probes during the past 20 years.

A Conjugated Polyelectrolyte with Pendant High Dense Short-Alkyl-Chain-Bridged Cationic Ions: Analyte-Induced Light-Up and Label-Free Fluorescent Sensing of Tumor Markers

A novel cationic water-soluble conjugated polyelectrolyte (CPE) of polyfluorene that contains 15% fraction of 2,1,3-benzothiadiazole (BT) units (PFC3NBT) has been obtained. PFC3NBT demonstrates intramolecular energy transfer from the fluorene segments to BT sites when negatively charged species (SDS or DNAs) are added, following by a shift in emission color from blue to green, has been developed. The high density of positive charges and pendent short alkyl chains of N-propyltrimethylammoniums endow PFC3NBT with high solubility and high fluorescence quantum efficiency of 33.6% in water. The fluorescence emission properties were investigated in the presence of adverse buffer solutions, different surfactants and DNA strands. Interesting fluorescence emission quenching at short wavelength and fluorescence resonance energy transfer (FRET) induced light-on at BT sites were observed and discussed in detail. Very different from previous reports, the fluorescence emission spectra transition happens with an enhancement of integrated fluorescent intensity. The analytes induced a light-up sensing system was studied with a PFC3NBT/SDS complex mode and confirmed with DNA/DNA-FAM sensing systems. More exciting preliminary results on label-free sensing of tumor markers were also reported by investigating the unique fluorescence response to 11 kinds of proteins. These results provide a new insight view for designing CPEs with light-up and label-free features for biomolecular sensing.

Subnanomolar Detection of Oligonucleotides through Templated Fluorogenic Reaction in Hydrogels: Controlling Diffusion to Improve Sensitivity

Oligonucleotide-templated reactions are valuable tools for nucleic acid sensing both in vitro and in vivo. They are typically carried out under conditions that make any reaction in the absence of template highly unfavorable (most commonly by using a low concentration of reactants), which has a negative impact on the detection sensitivity. Herein, we report a novel platform for fluorogenic oligonucleotide-templated reactions between peptide nucleic acid probes embedded within permeable agarose and alginate hydrogels. We demonstrate that under conditions of restricted mobility (that is, limited diffusion), non-specific interactions between probes are prevented, thus leading to lower background signals. When applied to nucleic acid sensing, this accounts for a significant increase in sensitivity (that is, lower limit of detection). Optical nucleic acid sensors based on fluorogenic peptide nucleic acid probes embedded in permeable, physically crosslinked, alginate beads were also engineered and proved capable of detecting DNA concentrations as low as 100 pm.

Emergence through delicate balance between the steric factor and molecular orientation: a highly bright and photostable DNA marker for real-time monitoring of cell growth dynamics

A bright and biostable molecular fluorogenic material for real-time monitoring of in vitro cellular growth dynamics.

A sandwich-like strategy for the label-free detection of oligonucleotides by surface plasmon fluorescence spectroscopy (SPFS)

Cutting surface-bound optical molecular beacons results in a sandwich-like detection strategy with lower background fluorescence.

For the detection of oligonucleotides a sandwich-like detection strategy has been developed by which the background fluorescence is significantly lowered in comparison with surface-bound molecular beacons. Surface bound optical molecular beacons are DNA hairpin structures comprising a stem and a loop. The end of the stem is modified with a fluorophore and a thiol anchor for chemisorption on gold surfaces. In the closed state the fluorophore is in close proximity to the gold surface, and most of the fluorescence is quenched. After hybridization with a target the hairpin opens, the fluorophore and surface become separated, and the fluorescence drastically increases. Using this detection method the sensitivity is limited by the difference in the fluorescence intensity in the closed and open state. As the background fluorescence is mainly caused by non-quenched fluorophores, a strategy to reduce the background fluorescence is to cut the beacon in two halves. First a thiolated ssDNA capture probe strand (first half) is chemisorbed to a gold surface together with relatively short thiol spacers. Next the target is hybridized by one end to the surface-anchored capture probe and by the other to a fluorophore-labeled reporter probe DNA (second half). The signal readout is done by surface plasmon fluorescence spectroscopy (SPFS). Using this detection strategy the background fluorescence can be significantly lowered, and the detection limit is lowered by more than one order of magnitude. The detection of a target takes only a few minutes and the sensor chips can be used for multiple detection steps without a significant decrease in performance.

Highly sensitive detection of copper ions by densely grafting fluorescein inside polyethyleneimine core-silica shell nanoparticles

In this work, polyethyleneimine (PEI) core-silica shell nanoparticles were synthesized and used for densely grafting fluorescent receptor units inside the core of these particles to result in multi-receptor units collectively sensing a target. Herein, copper ion quenching of the fluorescence intensity of a fluorescein isothiocyanate (FITC) system was selected as a model to confirm our proof-of-concept strategy. Our results showed that, compared to free FITC in solution, a 10-fold enhancement of the Stern-Volmer constant value for Cu(2+) quenching of the fluorescence intensity of the grafted state of FITC in PEI core-silica shell nanoparticles was achieved. Furthermore, compared to a previous collective sensing scheme by densely grafting fluorescent receptor units on a silica nanoparticle surface, the proposed scheme, which grafted fluorescent receptor units inside a polymer nano-core, was simple, highly efficient and presented higher sensitivity.

Selenium Incorporated Cationic Organochalcogen: Live Cell Compatible and Highly Photostable Molecular Stain for Imaging and Localization of Intracellular DNA

Successful integration of selenium unit into a newly designed cationic chemical architecture led to the development of a highly photostable molecular maker PA5 to be used in fluorescence microscopy as cellular nucleus staining agent for longer duration imaging under continuous laser illumination. Adaptation of a targeted single-atom modification strategy led to the development of a series of proficient DNA light-up probes (PA1-PA5). Further, their comparative photophysical studies in the presence of DNA revealed the potential of electron rich heteroatoms of chalcogen family in improving binding efficiency and specificity of molecular probes toward DNA. The findings of cell studies confirmed the outstanding cell compatibility of probe PA5 in terms of cell permeability, biostability, and extremely low cytotoxicity. Moreover, the photostability experiment employing continuous laser illumination in solution phase as well as in cell assay (both fixed and live cells) revealed the admirable photobleaching resistance of PA5. Finally, while investigating the phototoxicity of PA5, the probe was found not to exhibit light-induced toxicity even when irradiated for longer duration. All these experimental results demonstrated the promising standing of PA5 as a futuristic cell compatible potential stain for bioimaging and temporal profiling of DNA.

Parallel folding topology-selective label-free detection and monitoring of conformational and topological changes of different G-quadruplex DNAs by emission spectral changes via FRET of mPPE-Ala-Pt(ii) complex ensemble

The formation of supramolecular assemblies between [Pt(bzimpy-Et){C[triple bond, length as m-dash]CC6H4(CH2NMe3-4)}]Cl2 (1) and mPPE-Ala and the FRET properties of the ensemble have been revealed from the UV-vis absorption, steady-state emission and time-resolved emission decay studies. The two-component mPPE-Ala-1 ensemble has been employed in a "proof-of-principle" concept for label-free detection of G-quadruplex DNAs with the intramolecular propeller parallel folding topology, such as c-myc, in aqueous buffer solution. By the modulation of the aggregation/deaggregation of the polymer-metal complex aggregates and hence the FRET from the mPPE-Ala donor to the aggregated 1 as acceptor, the ensemble has been demonstrated for sensitive and selective label-free detection of c-myc via the monitoring of emission spectral changes of the ensemble. Ratiometric emission of the ensemble at 461 and 662 nm has been shown to distinguish the intramolecular propeller parallel G-quadruplex folding topology of c-myc from other G-quadruplex-forming sequences of different folding topologies, owing to the strong and specific interactions between c-myc and 1 as suggested by the UV-vis absorption and UV melting studies. In addition, the formation of high-order intermolecular multimeric G-quadruplexes from c-myc under molecular crowding conditions has been successfully probed by the ratiometric emission of the ensemble. The conformational and topological transition of human telomeric DNA from the mixed-hybrid form to the intramolecular propeller parallel form, as observed from the circular dichroism spectroscopy, has also been monitored by the ratiometric emission of the ensemble. The ability of the ensemble to detect these conformational and topological transitions of G-quadruplex DNAs has been rationalized by the excellent selectivity and sensitivity of the ensemble towards the intramolecular propeller parallel G-quadruplex DNAs and their high-order intermolecular multimers, which are due to the extra stabilization gained from Pt···Pt and π-π interactions in addition to the electrostatic and hydrophobic interactions found in the polymer-metal complex aggregates.

Synthesis and fluorescence properties of 3,6-diaminocarbazole-modified pyrrolidinyl peptide nucleic acid

Diaminocarbazole-labeled acpcPNA as a self-reporting probe for determination of DNA sequences.

Tunable nanothermometer based on short poly(phenylene ethynylene)

We report a self-referencing ratiometric nanothermometer based on short conjugated polyelectrolytes (CPEs).

Nanohybrid conjugated polyelectrolytes: highly photostable and ultrabright nanoparticles

We present a general and straightforward one-step approach to enhance the photophysical properties of conjugated polyelectrolytes. Upon complexation with an amphiphilic polymer (polyvinylpyrrolidone), an anionic conjugated polyelectrolyte (poly[5-methoxy-2-(3-sulfopropoxy)-1,4-phenylenevinylene]) was prepared into small nanoparticles with exceptional photostability and brightness. The polymer fluorescence intensity was enhanced by 23 -fold and could be easily tuned by changing the order of addition. Single molecule experiments revealed a complete suppression of blinking. In addition, after only losing 18% of the original intensity, a remarkable amount of photons were emitted per particle (∼10(9), on average). This number is many folds greater than popular organic fluorescent dyes. We believe that an intimate contact between the two polymers is shielding the conjugated polyelectrolyte from the destructive photooxidation. The prepared nanohybrid particles will prove instrumental in single particle based fluorescent assays and can serve as a probe for the current state-of-the-art bioimaging fluorescence techniques.

Polyelectrolyte-graphene Nanocomposites for Biosensing Applications

Due to their unique structure, the optical and mechanical properties graphene and its derivatives (e.g. graphene oxide, reduced graphene oxide) have captured the attention of a constantly increasing number of scientists with regards to biomolecule sensing. This mini review focuses on one specific type of sensor, that consisting of graphene and polyelectrolytes. Polyelectrolyte-graphene nanocomposites exhibit outstanding detection capabilities by synergistically combining the characteristics of both components, outperforming traditional sensors in many cases. Characteristics and mechanistic details of the most important polyelectrolyte-graphene based sensors will be discussed in detail in addition to some current challenges and future perspectives.

Organic-Inorganic Composites of Semiconductor Nanocrystals for Efficient Excitonics

Nanocomposites of colloidal semiconductor nanocrystals integrated into conjugated polymers are the key to soft-material hybrid optoelectronics, combining advantages of both plastics and particles. Synergic combination of the favorable properties in the hybrids of colloidal nanocrystals and conjugated polymers offers enhanced performance and new functionalities in light-generation and light-harvesting applications, where controlling and mastering the excitonic interactions at the nanoscale are essential. In this Perspective, we highlight and critically consider the excitonic interactions in the organic-inorganic nanocomposites to achieve highly efficient exciton transfer through rational design of the nanocomposites. The use of strong excitonic interactions in optoelectronic devices can trigger efficiency breakthroughs in hybrid optoelectronics.

Fluorescence array-based sensing of metal ions using conjugated polyelectrolytes

Array-based sensing offers several advantages for detecting a series of analytes with common structures or properties. In this study, four anionic conjugated polyelectrolytes (CPEs) with a common poly(p-pheynylene ethynylene) (PPE) backbone and varying pendant ionic side chains were designed. The conjugation length, repeat unit pattern, and ionic side chain composition were the main factors affecting the fluorescence patterns of CPE polymers in response to the addition of different metal ions. Eight metal ions, including Pb(2+), Hg(2+), Fe(3+), Cr(3+), Cu(2+), Mn(2+), Ni(2+), and Co(2+), categorized as water contaminants by the Environmental Protection Agency, were selected as analytes in this study. Fluorescence intensity response patterns of the four-PPE sensor array toward each of the metal ions were recorded, analyzed, and transformed into canonical scores using linear discrimination analysis (LDA), which permitted clear differentiation between metal ions using both two-dimensional and three-dimensional graphs. In particular, the array could readily differentiate between eight toxic metal ions in separate aqueous solutions at 100 nM. Our four-PPE sensor array also provides a practical application to quantify Pb(2+) and Hg(2+) concentrations in blind samples within a specific concentration range.

Graphene oxide-assisted nucleic acids assays using conjugated polyelectrolytes-based fluorescent signal transduction

In this work, we investigated the interactions between graphene oxide (GO) and conjugated polyelectrolytes (CPEs) with different backbone and side chain structures. By studying the mechanism of fluorescence quenching of CPEs by GO, we find that the charge and the molecular structure of CPEs play important roles for GO-CPEs interactions. Among them, electrostatic interaction, π-π interaction, and cation-π bonding are dominant driving forces. By using a cationic P2, we have developed a sensitive homogeneous sensor for DNA and RNA detection with a detection limit of 50 pM DNA and RNA, which increased the sensitivity by 40-fold as compared to GO-free CPE-based sensors. This GO-assisted CPE sensing strategy is also generic and shows a high potential for biosensor designs based on aptamers, proteins, peptides, and other biological probes.

Aggregation behavior of sodium lauryl ether sulfate with a positively bicharged organic salt and effects of the mixture on fluorescent properties of conjugated polyelectrolytes

The aggregation behavior of anionic single-chain surfactant sodium lauryl ether sulfate containing three ether groups (SLE3S) with positively bicharged organic salt 1,2-bis(2-benzylammoniumethoxy)ethane dichloride (BEO) has been investigated in aqueous solution, and the effects of the BEO/SLE3S aggregate transitions on the fluorescent properties of anionic conjugated polyelectrolyte MPS-PPV with a larger molecular weight and cationic conjugated oligoelectrolyte DAB have been evaluated. Without BEO, SLE3S does not affect the fluorescent properties of MPS-PPV and only affects the fluorescent properties of DAB at a higher SLE3S concentration. With the addition of BEO, SLE3S and BEO form gemini-like surfactant (SLE3S)2-BEO. When the BEO/SLE3S molar ratio is fixed at 0.25, with increasing the BEO/SLE3S concentration, the BEO/SLE3S mixture forms large, loosely arranged aggregates and then transforms to closely packed spherical aggregates and finally to long thread-like micelles. The photoluminescence (PL) intensity of MPS-PPV varies with the morphologies of the BEO/SLE3S aggregates, while the PL intensity of DAB is almost independent of the aggregate morphologies. The results demonstrate that gemini-like surfactants formed through intermolecular interactions can effectively adjust the fluorescent properties of conjugated polyelectrolytes.

Electrochemical DNA hybridization sensors based on conducting polymers

Conducting polymers (CPs) are a group of polymeric materials that have attracted considerable attention because of their unique electronic, chemical, and biochemical properties. This is reflected in their use in a wide range of potential applications, including light-emitting diodes, anti-static coating, electrochromic materials, solar cells, chemical sensors, biosensors, and drug-release systems. Electrochemical DNA sensors based on CPs can be used in numerous areas related to human health. This review summarizes the recent progress made in the development and use of CP-based electrochemical DNA hybridization sensors. We discuss the distinct properties of CPs with respect to their use in the immobilization of probe DNA on electrode surfaces, and we describe the immobilization techniques used for developing DNA hybridization sensors together with the various transduction methods employed. In the concluding part of this review, we present some of the challenges faced in the use of CP-based DNA hybridization sensors, as well as a future perspective.

Diphenylether based derivatives as Fe(iii) chemosensors: spectrofluorimetry, electrochemical and theoretical studies

Differential pulse voltammetric studies on DPE-I and DPE-II indicating selective response to Fe³⁺, supported by DFT studies using Gaussian software.

Synthesis and spectral characterization of photoswitchable oligo(p-phenylenevinylene)–spiropyran dyad

A novel dyad molecule coupling oligo(p-phenylenevinylene) (OPV) with spiropyran (SP) was synthesized and characterized in solution and in solid phase. Light-driven reversible transformations between isomers ofSPmodulate the fluorescence ofOPV.