Preparation and dynamic color-changing study of fluorescent polymer nanoparticles for individualized and customized anti-counterfeiting application

Preparing new fluorescent materials for individualized and customized anti-counterfeiting applications to meet needs from the rapid development of e-commerce is of great significance. This paper reports the preparation of dynamic color-changing fluorescent polymer nanoparticles (PNPs) by constructing a fluorescence resonance energy transfer (FRET) pair between aggregation-induced emission (AIE) structures and photochromic structures. At first, methyl methacrylate (MMA) was used as the main monomer and tetraphenylethylene (TPE, a typical AIE structure) modified methacrylate (TPE-MA) and photochromic spiropyran (SP) modified methacrylate (SP-MA) as minor monomers were copolymerized to obtain the ternary copolymer PMMA-TPE-SP. Then, two types of PNPs based on this terpolymer was prepared via the reprecipitation method, with and without the addition of an amphiphilic polymer as the surfactant. The photophysical study shows that the fluorescence color of PNPs dynamically changes from blue to light violet and finally to red under UV light irradiation, a process that can be reversed under visible light. The PNPs were alternately irradiated with UV light and visible light for 10 cycles, which proved their good photoswitching reproducibility. The PNPs prepared with addition of surfactant were found to have stronger fluorescence and better stability. Finally, the photochromic fluorescent inks were prepared based on these PNPs. Several anti-counterfeiting scenarios and modes were designed, exhibiting excellent photochromic behavior on cellulose paper, even after 120 days of long-term storage. With simple equipment, desirable anti-counterfeiting effects with dynamic fluorescence color changing was achieved. This study demonstrated a promising hard-to-imitate anti-counterfeiting encryption strategy, which can achieve multiple outputs with simple operation and can be personalized and customized as needed.

Cardiac myosin-binding protein C N-terminal interactions with myosin and actin filaments: Opposite effects of phosphorylation and M-domain mutations

N-terminal cardiac myosin-binding protein C (cMyBP-C) domains (C0-C2) bind to thick (myosin) and thin (actin) filaments to coordinate contraction and relaxation of the heart. These interactions are regulated by phosphorylation of the M-domain situated between domains C1 and C2. In cardiomyopathies and heart failure, phosphorylation of cMyBP-C is significantly altered. We aimed to investigate how cMyBP-C interacts with myosin and actin. We developed complementary, high-throughput, C0-C2 FRET-based binding assays for myosin and actin to characterize the effects due to 5 HCM-linked variants or functional mutations in unphosphorylated and phosphorylated C0-C2. The assays indicated that phosphorylation decreases binding to both myosin and actin, whereas the HCM mutations in M-domain generally increase binding. The effects of mutations were greatest in phosphorylated C0-C2, and some mutations had a larger effect on actin than myosin binding. Phosphorylation also altered the spatial relationship of the probes on C0-C2 and actin. The magnitude of these structural changes was dependent on C0-C2 probe location (C0, C1, or M-domain). We conclude that binding can differ between myosin and actin due to phosphorylation or mutations. Additionally, these variables can change the mode of binding, affecting which of the interactions in cMyBP-C N-terminal domains with myosin or actin take place. The opposite effects of phosphorylation and M-domain mutations is consistent with the idea that cMyBP-C phosphorylation is critical for normal cardiac function. The precision of these assays is indicative of their usefulness in high-throughput screening of drug libraries for targeting cMyBP-C as therapy.

Novel SnO2@Cu3(BTC)2 Composites as a Highly Efficient Photocatalyst and Fluorescent Sensor

A novel SnO2@Cu3(BTC)2 composite was synthesized using a quick and affordable bottom-up approach via impregnation of SnO2 nanoparticles into the porous Cu3(BTC)2 metal-organic framework (MOF). This composite material is characterized by Fourier transform infrared (FTIR) spectroscopy, powder X-ray diffraction (PXRD) spectra, scanning electron microscope (SEM) analysis, and energy-dispersive X-ray spectroscopy (EDS) analysis. SnO2@Cu3(BTC)2 degraded the methylene blue (MB) dye within 80 min under sunlight with a maximum degradation efficiency of 85.12%. This composite easily recyclable up to five cycles with the retention of its MB degradation efficiency. Moreover, SnO2@Cu3(BTC)2 can be also used efficiently for fast sensing of 2,4,6-trinitrophenol (TNP) in water with noticeable turn-off quenching response. Its limits of detection (LOD) for TNP was 2.82 µM with enhanced selectivity toward TNP (over other NACs) as verified by competitive nitro explosive tests. Density functional theory (DFT) calculations and spectral overlap were used to assess the sensing mechanism. This composite fluorescent sensing system for TNP are demonstrated to have high selectivity and sensitivity. Our findings imply that the prepared low cost SnO2@Cu3(BTC)2 composite can be used as a superior fluorescence sensor and photo catalyst for large scale industrial applications.

Construction of nanohybrid Tb@CDs/GSH-CuNCs as a ratiometric probe to detect phosphate anion based on aggregation-induced emission and FRET mechanism

The simple preparation of a nanohybrid of terbium-doped carbon dots/glutathione-capped copper nanoclusters (Tb@CDs/GSH-CuNCs) was for the first time developed for ratiometric detection of phosphate anion (Pi). Blue-emission of Tb@CDs can trigger non-luminescence of GSH-CuNCs for aggregation-induced emission (AIE) performance due to the strong reserved coordination capacity of Tb3+. Thus, Tb@CDs/GSH-CuNCs rapidly generated dual-emission signals at 630 nm and 545 nm by directly mixing the two individual materials via the AIE effect, alongside fluorescence resonance energy transfer (FRET) process. However, by the introduction of Pi, both AIE and FRET processes were blocked because of the stronger binding affinity of Tb3+ and Pi than that of Tb3+ and -COOH on Tb@CDs, thus realizing successful ratiometric detection of Pi. The linear concentration range was 0-16 μM, with the limit of detection (LOD) of 0.32 μM. The proposed method provided new ideas for designing nanohybrid of CDs and nanoclusters (MNCs) as ratiometric fluorescent probes for analytical applications.

Enzyme-trigger ratiometric fluorescent nanoplatform for diagnosis and imaging of oral diseases

Oral health is an essential part of overall health. Matrix metalloproteinase-2 (MMP-2) is a potential biomarker for diseases. The ability to accurately detect MMP-2 in vivo and in vitro is of great importance for the early diagnosis and prognosis, as well as the treatment evaluation, of oral diseases. In this study, cyanine 3 (Cy3) polypeptide containing the specific peptide substrate (PLGVR) of MMP-2 was modified onto SiO₂-coated upconversion nanoparticles to fabricate a fluorescence resonance energy transfer (FRET)-based ratiometric fluorescent nanoplatform (UCNPs@SiO₂@Cy3-pep). The green upconversion luminescence of UCNPs@SiO₂ is quenched by Cy3, while its red upconversion luminescence is undisturbed. After Cy3 is cleaved at the PLGVR peptide by MMP-2, it is detached from the surface of UCNPs@SiO₂, resulting in the recovery of green luminescence. Based on this principle, we applied UCNPs@SiO₂@Cy3-pep to detect MMP-2 activity in different oral disease samples and models. We found that the level of MMP-2 in saliva of patients with oral cancer was 10 times higher than that of healthy individuals. In addition, the MMP-2 level in patients with periodontitis and severe dental caries also increased to varying degrees compared with that in healthy patients. Finally, in vitro and in vivo imaging experiments revealed that the nanoplatform was effective in monitoring MMP-2 level. Together, the developed nanoplatform can be an ideal tool for medical diagnosis of MMP-2-related diseases.

An ultrasensitive FRET-based fluorescent low molecular weight heparin nanoprobe for quantifying heparanase activity

Heparanase (HPA) is a multifaceted endo-β-glucuronidase, and its dysregulation facilitates cancer metastasis. Developing techniques for fast and sensitively monitoring HPA enzymatic activity is crucial for searching for molecular therapies targeting HPA. Herein, we developed a novel fluorescence resonance energy transfer (FRET)-based nanoprobe AuNCs-LMWH-AuNRs, with AuNCs@GSH-cys and AuNRs/end-NH₂/side-SiO₂ attached to the non-reducing terminus and reducing terminus of low molecular weight heparin (LMWH), respectively. AuNCs@GSH-cys exhibited an absolute quantum yield of 1.1%. The absorption spectra of AuNRs/end-NH₂/side-SiO₂ (825 nm for maximum longitudinal absorption) and the emission spectra of AuNCs@GSH-cys (824 nm for maximum emission) were precisely overlapping, further enhancing the efficiency of FRET. In the presence of HPA, the LMWH nanoprobe exhibited an ultrasensitive response with excitation/emission wavelength (lambda (ex) = 560 nm, lambda (em) = 824 nm). The probe presented a wide linear dynamic detection range (LDR) of 0.125 ng/μL - 0.01 μg/μL in vitro with a limit of detection (LODs) of 82.15 pM (0.43 pg/μL). The excellent selectivity and good fluorescence turn-on efficiency of the probe made it possible for one-step detection of cellular heparanase activity. High throughput screening of HPA inhibitors also can be accomplished using the highly efficient LMWH nanoprobe.

Rapid and ultrasensitive miRNA detection by combining endonuclease reactions in a rolling circle amplification (RCA)-based hairpin DNA fluorescent assay

MicroRNA (miRNA) sensing strategies employing rolling circle amplification (RCA) coupled with the hairpin DNA (HD) probe-mediated FRET assay have shown promise, but achieving rapid, sensitive, and specific detection of target miRNA remains a challenge in clinical diagnostics. Herein, we incorporate PstI endonuclease cleavage (PEC) into a conventional RCA-based HD probe FRET assay to develop an effective and feasible method. Long single-stranded RCA products are synthesized from miRNA-21 loaded on a circular dumbbell DNA, and the resultant RCA products self-assemble to generate long HD structures with double-stranded stem regions that are specifically recognized and cleaved by PstI endonucleases when incubated with PstI enzymes. This releases large amounts of short single-stranded DNA fragments that hybridize and open to the complementary loop-stem regions of HD probes labeled with FAM at one end and BHQ-1 at the other, resulting in a reduction in FRET efficiency. This assay achieves a 39.7 aM detection limit for target miRNA-21, approximately 37-fold higher than that of the conventional assay (1.5 fM). Moreover, quantitative detection is possible in a wide range from 1 aM to 1 pM within 90 min with high sequence specificity. We demonstrate the assay with the detection of target miRNA-21 in total RNA extracted from MCF-7 cancer cells.

A FRET-based ratiometric fluorescent probe for Hg2+ detection in aqueous solution and bioimaging in multiple samples

Mercury ion, as a metal cation with great toxic effect, is widely present in various production and living environments. It seriously threatens human health and environmental safety. It is of great significance to develop convenient and effective methods for mercury ion detection. Here, we designed and synthesized a new ratiometric fluorescent probe (namely APS-NA) for the detection of mercury ions in the environment and multiple biological samples. The probe is constructed by covalently connecting two fluorophores with lipolic acid to achieve fluorescence resonance energy transfer (FRET). In the molecular structure of APS-NA, acridone is used as an energy donor, 1,8-naphthalimide is used as an energy acceptor, and a dithioacetal group is used as the reaction site for Hg²⁺. The intact APS-NA mainly shows the green fluorescence from the acceptor moiety 1,8-naphthalimide; the presence of Hg²⁺ ions would break the dithioacetal linkage between acridone and 1,8-naphthalimide; the defunctionalization of FRET would lead to bright blue fluorescence emission of acridone; thus ratiometric fluorescent detection of Hg²⁺ can be achieved by this recognition process. The probe not only has a large Stokes shift (Δλ = 110 nm), but also has high selectivity, high sensitivity (low detection limit 30 nM) and naked eye visualization. In addition, we have successfully used this probe for the detection Hg²⁺ of actual samples and imaging of a variety of organisms. These results indicate that the probe has broad application prospects.

A Luminescent Cu(II)-MOF with Lewis Basic Schiff Base Sites for the Highly Selective and Sensitive Detection of Fe3+ Ions and Nitrobenzene

A Schiff base functionalized Cu(II)-based metal-organic framework (MOF) denoted as Cu-L, was developed via a solvothermal method using low-cost starting material, i.e., Schiff base linker, 4,4'-(hydrazine-1,2-diylidenedimethylylidene)dibenzoic acid (L). Good crystallinity and thermal stability of synthesized Cu-L was confirmed by the crystallographic and thermogravimetric studies. An excellent photoluminescent properties of Cu-L ensure their suitability for the ultrafast detection of Fe³⁺ ions and nitrobenzene via a turn-off quenching response. The remarkable sensitivity of Cu-L towards Fe³⁺ ions and nitrobenzene was certified by the low limit of detection (LOD) of 47 ppb and 0.004 ppm, respectively. With incorporated free azine groups, this MOF could selectively capture Fe³⁺ ions and nitrobenzene in aqueous solution. The plausible mechanistic pathway for the quenching in the fluorescence intensity of the Cu-L in the presence of Fe³⁺ ions and nitrobenzene have been explained in detail through the density functional theory calculations, photo-induced electron transfer (PET), fluorescence resonance energy transfer (FRET), and competitive energy adsorption. This present study open a new avenue to synthesize novel crystalline MOF-based sensing materials from cheap Schiff base linkers for fast sensing of toxic pollutants.

Graphene quantum dots based MnFe2O4@SiO2 magnetic nanostructure as a pH-sensitive fluorescence resonance energy transfer (FRET) system to enhance the anticancer effect of the drug

Among the various methods of targeted drug delivery, magnetic nanoparticles been considered for a long time due to local drug delivery, reduction of side effects, and controlled drug release. In this work, fluorescence resonance energy transfer (FRET) system MnFe₂O₄@SiO₂@ graphene quantum dots /DAU with 49.08 emu^-1 magnetism was prepared as pH-sensitive nanoplatform to enhance the anti-cancer effect of daunorubicin (DAU) drug (in the obtained FRET system, DAU act as acceptor molecule and graphene quantum dots act as donor molecule). The efficiency of the drug loaded on the nanoplatform in vitro is 78%. DAU drug release from nanoplatform at pHs of 7.4 and 5.5 during 48 h is 21% and 60%, respectively. Release sensitive to pH facilitates the application of prepared nanoplatform for DAU delivery. The results of MTT-assay and annexin V-FITC/PI show that MnFe₂O₄@SiO₂@ graphene quantum dots /DAU induces cell apoptosis by inhibiting the growth of more than 95% of MCF-7 cells. Also, according to the results, it was found that MnFe₂O₄@SiO₂@ graphene quantum dots /DAU can inhibit 66.65% cell cycle in the sub-G1 phase. Therefore, due to the anti-cancer activity of MnFe₂O₄@SiO₂@ graphene quantum dots /DAU, this biological nanoscale can be considered a candidate for drug delivery.

Fluorescence turn-on Cu2-xSe@HA-rhodamine 6G FRET nanoprobe for hyaluronidase detection and imaging

The application of nanostructures to design fluorescence resonance energy transfer (FRET) based sensing platforms has been greatly concerned with the demand for sensitive and selective detection of biomolecules. Here, a novel sensitive turn-on fluorescence strategy based on the FRET mechanism has been designed for hyaluronidase (HAase) detection through the modulation of Cu_2-xSe@HA-Rh6G nanoprobe fabricated by self-assembly of rhodamine 6G (Rh6G) together with Cu_2-xSe@HA nanoparticles through electrostatic adsorption. The Cu_2-xSe@HA had extensive localized surface plasma resonance (LSPR) absorption in the wide range of ultraviolet (UV) to near-infrared (NIR) wavelengths and showed good light capture characteristics, which can be acted as good acceptors in the FRET interactions with Rh6G, inducing its efficient fluorescence quenching. In the presence of HAase, the FRET process was disrupted and the fluorescence signal was recovered. In the range of 0.1-10.0 U/mL, the fluorescence recovery of Rh6G showed a good linear relationship with the concentration of HAase, and the detection limit was 0.06 U/mL. The sensing platform has been used for HAase detection in real urine samples and cancer cells imaging.

Synthesis of Copper Metal Organic Framework Based on Schiff Base Tricarboxylate Ligand for Highly Selective and Sensitive Detection of 2,4,6-Trinitrophenol in Aqueous Medium

By using Schiff base tricarboxylate ligand 5-(4-carboxybenzylideneamino)isophthalic acid (H₃CIP), a new imine functionalized copper metal organic framework (MOF) has been synthesized solvothermally. It was fully characterized by Fourier Transform Infrared (FTIR) Spectroscopy, Powder X-Ray Diffraction (PXRD), Scanning Electron Microscopy (SEM), Energy Dispersive X-Ray Spectroscopy (EDS), and elemental mapping techniques. The as-synthesized MOF has been utilized as fluorescent probe for detection of nitro aromatic explosives (NAEs). The results show that the copper MOF can be developed into highly selective and sensitive sensor for detection of TNP in the aqueous medium via the "turn-off" quenching response. The linear fitting of the Stern-Volmer plot for TNP offered large quenching constant of 1.07 × 10⁴ M^-1 for Cu-MOF indicating the high sensitivity of the sensing process. Outstanding sensitivity of prepared material towards TNP detection was further validated by the low detection limit of 80 ppb (0.35 µM). The detailed mechanistic studies for their mode of action and density functional theory (DFT) calculations reveals that photo-induced electron transfer (PET) and fluorescence resonance energy transfer (FRET) processes, as well as electrostatic interactions (i.e. H-bonding) are the key factors for the turn-off response toward TNP by this fluorescent sensor. Thus, this new LMOF owing to their high water stability and remarkable functional features are potential candidates which can be developed into selective and sensitive TNP detection devices.

Cluster dirhenium(III) cis-dicarboxylates with α-amino acids ligands as mighty selective G4s binders

The synthesis of four dirhenium(III) cis-dicarboxylates with the α-amino acids residues Asp (I), Glu (II), Phe (III) and Tyr (IV) is presented. The G-quadruplex stabilization potential was evaluated by fluorescence resonance energy transfer - melting analysis. All derivatives show specific binding to c-kit1 quadruplex, while II and IV have also strong stabilization activity to HTelo21 quadruplex. At the same time, the compounds do not show any stabilization activity for ds26 DNA, which suggests unique mechanisms of molecular DNA recognition for these complexes.

A Simple Determination of Trinitrotoluene (TNT) Based on Fluorescence Quenching of Rhodamine 110 with FRET Mechanism

Sensitive and selective detection of nitroaromatic explosives is an important issue in regard to human health, environment, public security and military issues. In this study, a simple and sensitive fluorescence quenching - based assay utilizing Rhodamine 110 as fluorophore probe was developed for the determination of trinitrotoluene (TNT). This sensitive fluorometric method could measure the decrease in fluorescence of Rhodamine 110 (λ_ex = 490 nm, λ_em = 521 nm) owing to the primary amine groups of Rhodamine 110 (different from other rhodamines) capable of donor-acceptor interaction with TNT. The resulting TNT-amine complex can strongly quench the fluorescence emission of Rhodamine 110 by fluorescence resonance energy transfer (FRET) which occurs as the excited Rhodamine 110 fluorophore (donor) transfers its energy to TNT (acceptor) by non-radiative dipole-dipole interaction. Fluorescence quenching varied linearly with TNT concentration, with LOD and the LOQ of 0.71 and 2.38 mg L^- 1 TNT, respectively. Similar explosives, common soil ions, and possible camouflage materials were found not to interfere with the proposed method, offering significant advantages with its easy methodology, low-cost, sensitivity, and rapidity of analysis. FRET mechanism based on dye donor-TNT acceptor interaction.

Responsive mechanism of 2-fluoro-5-nitrobenzoate based two-photon fluorescent probes for H2Sn detection: A theoretical perspective

Two-photon fluorescent probes with large two-photon absorption (TPA) cross sections have shown wide applications in biomedical domain. However, both the species and amounts of high efficient probes are far from meeting the requirements, one main reason is that the relationship between the molecular structures and the responsive mechanisms are not clear and theoretical framework in this field is not perfect. In this work, the photophysical properties including one- and two-photon absorption and emission of three newly synthesized fluorescent probes for hydrogen polysulfide (H₂S_n) detection are investigated by density functional theory and time-dependent density functional theory with the polarizable continuum model in different solvents. Results indicate that the enhanced fluorescent intensity and enlarged TPA cross section can be found when the probes reacted with H₂S_n. Moreover, the OPA intensity is largest and its fluorescent intensity is largely enhanced when detecting H₂S_n for Pro2, this verifies its superior performance in the detection of H₂S_n than Pro1 and Pro 3. Furthermore, the inner mechanism for the increase of TPA cross section is revealed, the responsive mechanisms for photo induced electron transfer (PET) and fluorescence resonance energy transfer (FRET) processes are revealed through analyzing the energies and distributions of frontier orbitals. Our calculations provide theoretical perspectives for experimental measurements and could sever as a useful reference for developing advanced probes in biomedical fields.

Ultrasensitive ratiometric detection of Pb2+ using DNA tetrahedron-mediated hyperbranched hybridization chain reaction

A fluorescent sensing strategy was developed for rapid, highly sensitive and specific detection of lead (II) ion (Pb²⁺) on the basis of Pb²⁺ DNAzyme-controlled tetrahedral DNA nanostructure (TDN)-mediated hyper-branched hybridization chain reaction (hHCR). In this strategy, DNA hairpins used for HCR amplification are modified on the four vertexes of TDN, which are then used to perform rapid TDN-hHCR in the presence of an initiator strand, producing large-sized cross-linked reaction products and thus giving greatly improved fluorescence resonance energy transfer (FRET) signal output. Pb²⁺ DNAzyme catalyzes the cleavage of the initiator strand, inhibiting the initiation of TDN-hHCR and giving decreased FRET signal. Synergetic signal amplification of Pb²⁺ DNAzyme-catalyzed cleavage reaction and subsequent TDN-hHCR confers the sensing platform with ultrahigh sensitivity. As low as 0.25 pM Pb²⁺ can be detected by using either signal "turn-on" or "turn-off" mode. The whole detection process can be finished within 20 min. Strong anti-interference capacity of FRET-based ratiometric detection and high specificity of Pb²⁺ DNAzyme endow the sensing platform with great practical application potential, which was demonstrated by the accurate detection of Pb²⁺ in real river water, fruit, vegetable and grain samples.

FRET probe for selective and sensitive detection of vitamin A by cadmium free quantum dots (ZnS)

Vitamin A as a powerful antioxidant plays an important role in human body functions including bone remodeling regulation, healthy immune system and cell growth reproduction. An accurate determination of vitamin A is taken into consideration because of its importance for human health. In this paper, we reported a fluorescence resonance energy transfer (FRET) probe, MPS-capped ZnS QDs, for sensitive and selective detection of vitamin A. The colloidal MPS-capped ZnS QDs were prepared from Zinc acetate and sodium sulfide by employing 3-mercaptopropyltrimethoxysilane (MPS) molecules as the stabilizer or capping agent at the pH condition of 10. The synthesized MPS-capped ZnS QDs were characterized by means of FT-IR, UV-Vis, DLS, and TEM techniques. The sensing behavior of MPS-capped ZnS QDs for selective and sensitive detection of vitamin A, vitamin B₂, vitamin B₆, vitamin E, vitamin K, vitamin H, vitamin D₃ and vitamin C was investigated using fluorescence spectroscopy. The detection mechanism involves photoinduced charge transfer from the surface of ZnS QDs to Vitamin resulting in the fluorescence quenching of ZnS QDs followed by nonradiative fluorescence resonance energy transfer. An excellent selectivity was observed for vitamin A versus other tested species. A linear relationship was observed between the fluorescence intensity of MPS-capped ZnS QDs and the concentration of vitamin A in the range of 3.33-36.66 μM with detection limit of 1.062 μM.

Physical mechanism of concentration-dependent fluorescence resonance energy transfer

We experimentally report fluorescence resonance energy transfer (FRET), using a novel visualization method of excitation-emission mapping. Firstly, both the absorption and fluorescent spectra of donor and acceptor are measured, respectively, under different molecular concentrations for verifying that these two molecules are suitable for exploring FRET. And then, the excitation-emission mappings of FRET are investigated to reveal the internal regular pattern of FRET. Our theoretical calculations strongly support experimental results of FRET. Our experimental results provided a new visualization method to clearly understand the mechanism of FRET.

A glutathione-responsive photosensitizer with fluorescence resonance energy transfer characteristics for imaging-guided targeting photodynamic therapy

Here, we have synthesized and characterized a novel activatable photosensitizer (PS) 8a in which two well-designed boron dipyrromethene (BODIPY) derivatives are utilized as the photosensitizing fluorophore and quencher respectively, which are connected by a disulfide linker via two successive Cu (І) catalyzed click reactions. The fluorescence emission and singlet oxygen production of 8a are suppressed via intramolecular fluorescence resonance energy transfer (FRET) from the excited BODIPY-based PS part to quencher unit, but both of them can be simultaneously switched on by cancer-related biothiol glutathione (GSH) in phosphate buffered saline (PBS) solution with 0.05% Tween 80 as a result of cleavage of disulfide. Also, 8a exhibits a bright fluorescence image and a substantial ROS production in A549 human lung adenocarcinoma, HeLa human cervical carcinoma and H22 mouse hepatoma cells having a relatively high concentration of GSH, thereby leading to a significant photocytotoxicity, with IC₅₀ values as low as 0.44 μM, 0.67 μM and 0.48 μM, respectively. In addition, the photosensitizer can be effectively activated and imaged in H22 transplanted hepatoma tumors of mice and shows a strong inhibition on tumor growth. All these results suggest that such a GSH-responsive photosensitizer based on FRET mechanism may provide a new strategy for tumor-targeted and fluorescence imaging-guided cancer therapy.

Paper sensor of curcumin by fluorescence resonance energy transfer on nitrogen-doped carbon quantum dot

Paper Sensor detection methods are attractive in wide analytical applications. Presented herein is a paper sensor and fluorescence methods that was firstly developed to detect curcumin (Cur) based on fluorescence resonance energy transfer (FRET) between nitrogen-doped carbon quantum dots (NCQDs) and Cur. The facile fluorescent method was demonstrated to detect Cur in the range of 0-2600 μM with a detection limit of 0.13 μM. And facile paper sensor of Cur was fabricated and displayed at concentration of 0 μM, 100 μM, 200 μM, 300 μM, 400 μM, 500 μM and 600 μM, respectively. In additions, it was realized for determination of Cur in real samples including orange juice and curry solution. Compared with the reported methods, the present method is simple, rapid and sensitive for detecting Cur.

Immobilization of gold nanoparticles with rhodamine to enhance the fluorescence resonance energy transfer between quantum dots and rhodamine; new method for downstream sensing of infectious bursal disease virus

Infectious bursal disease virus is a causative agent of one of the most important disease which causes frequent tragic disaster in the poultry industry all over the world. Therefore, in the present study a new fluorescence resonance energy transfer-based technique was developed to detect VP2 gene of infectious bursal disease virus using two oligonucleotide probes labeled with quantum dots and rhodamine- immobilized gold nanoparticles (AuNPs-Rh). Quantum dots labeled with an amino-modified first oligonucleotide, and AuNPs-Rh labeled with thiol-modified second oligonucleotides were added to the DNA targets upon which hybridization occurred. In the presence of target the AuNPs-Rh will be located in the vicinity of the quantum dots and leads to the fluorescence resonance energy transfer to be occurred and subsequently the fluorescence intensity of quantum dots was stimulated. The immobilization of rhodamine to the surface of AuNPs increased the fluorescence intensity of rhodamine. The maximum fluorescence resonance energy transfer efficiency for the developed sensor is monitored at a quantum dots-P_A/AuNPs-Rh-P_T molar ratio of 1:10. Moreover, the feasibility of the developed nanobiosensor was demonstrated by the detection of a synthetic 49-mer nucleotide derived from infectious bursal disease virus and the limit of detection was estimated as 3 × 10^-8 M. The developed DNA detection scheme is a simple, rapid and efficient technique which does not need excessive washing and separation steps.

Fluorometric dopamine assay based on an energy transfer system composed of aptamer-functionalized MoS2 quantum dots and MoS2 nanosheets

The authors describe a fluorometric strategy for the determination of dopamine (DA). It is based on the use of aptamer-functionalized MoS₂ quantum dots (QDs) and MoS₂ nanosheets (NSs). The QDs and NSs were extensively characterized with regard to their physical and chemical properties using methods such as TEM, XRD, FT-IR, EDX and molecular spectroscopies. The aptamer against dopamine was labeled with QDs acting as the energy donor in an energy transfer system, while the NSs serve as the energy acceptor. Under the optimal conditions, the fluorescence (FL) intensity (best measured at excitation/emission peaks of 315/412 nm) increases with increasing DA concentration in the range from 0.1 nM to 1000 nM, with a lower detection limit of 45 pM. The method was successfully applied to the determination of DA in complex matrices. In our perception, the method has a wide scope in that it may be extended to other biomolecules for which respective aptamer are available. The QDs show excellent optical properties, good stability, low cytotoxicity, and may also be applied to fluorometric imaging of live cells. Graphical abstract A "turn-on" fluorometric aptasensor for the determination of dopamine (DA) was established based on aptamer-functionalized molybdenum disulfide quantum dots (MoS₂ QDs) and MoS₂ nanosheets. This assay exhibits high selectivity and sensitivity with a detection limit as low as 45 pM.

A Quantitative FRET Assay for the Upstream Cleavage Activity of the Integral Membrane Proteases Human ZMPSTE24 and Yeast Ste24

The integral membrane protease ZMPSTE24 plays an important role in the lamin A maturation pathway. ZMPSTE24 is the only known enzyme to cleave the last 15 residues from the C-terminus of prelamin A, including a farnesylated and carboxyl methylated cysteine. Mutations in ZMPSTE24 lead to progeroid diseases with abnormal prelamin A accumulation in the nucleus. Ste24 is the yeast functional homolog of ZMPSTE24 and similarly cleaves the a-factor pheromone precursor during its posttranslational maturation. To complement established qualitative techniques used to detect the upstream enzymatic cleavage by ZMPSTE24 and Ste24, including gel-shift assays and mass spectrometry analyses, we developed an enzymatic in vitro FRET-based assay to quantitatively measure the upstream cleavage activities of these two enzymes. This assay uses either purified enzyme or enzyme in crude membrane preparations and a 33-amino acid a-factor analog peptide that is a substrate for both Ste24 and ZMPSTE24. This peptide contains a fluorophore (2-aminobenzoic acid-Abz) at its N-terminus and a quencher moiety (dinitrophenol-DNP) positioned four residues downstream from the cleavage site. Upon cleavage, a fluorescent signal is generated in real time at 420 nm that is proportional to cleavage of the peptide and these kinetic data are used to quantify activity. This assay should provide a useful tool for kinetic analysis and for studying the catalytic mechanism of both ZMPSTE24 and Ste24.

Multiplexed determination of intracellular messenger RNA by using a graphene oxide nanoprobe modified with target-recognizing fluorescent oligonucleotides

A multiplexed graphene oxide (GO) fluorescent nanoprobe is described for quantification and imaging of messenger RNAs (mRNAs) in living cells. The recognizing oligonucleotides (with sequences complementary to those of target mRNAs) were labeled with different fluorescent dyes. If adsorbed on GO, the fluorescence of the recognizing oligonucleotides is quenched. After having penetrated living cells, the oligonucleotides bind to target mRNAs and dissociate from GO. This leads to the recovery of fluorescence. Using different fluorescent dyes, various intracellular mRNAs can be simultaneously imaged and quantified by a high content analysis within a short period of time. Actin mRNA acts as the internal control. This GO-based nanoprobe allows mRNA mimics to be determined within an analytical range from 1 to 400 nM and a detection limit as low as 0.26 nM. Up to 3 intracellular mRNAs (C-myc, TK1, and actin) can be detected simultaneously in a single living cell. Hence, this nanoprobe enables specific distinction of intracellular mRNA expression levels in cancerous and normal cells. It can be potentially applied as a tool for detection of cancer progression and diagnosis. Graphical abstract A multiplexed graphene oxide (GO)-based fluorescent nanoprobe is described for quantification and imaging of intracellular messenger RNAs. After penetrating living cells, the recovered fluorescence of the dissociated recognizing oligonucleotides can be analyzed , and this allows for simultaneous detection of up to 3 intracellular messenger RNAs.

Loss of integrity of doxorubicin liposomes during transcellular transportation evidenced by fluorescence resonance energy transfer effect

The aim of this work was to elucidate the influence of liposome characteristics on the transcellular process by in vitro studies that would enable designing more efficient oral formulations. Various liposomes with different properties were prepared, including 100-500 nm, anionic, cationic and PEGylated liposomes. All liposomes were labeled by fluorescence resonance energy transfer (FRET) probes to evaluate their integrity in cellular uptake and transport. The FRET fluorescent intensity is proportional to the amount of intact liposomes, which was used to calculate the amount of intact liposomes in cellular uptake and transport. The liposomal structures were found to lose their integrity during or after uptake and only about 20% intact liposomes were detected in cells. However, more cationic liposomes were transported integrally across cell monolayer and accounted for 40.49% of total transport by triple culture models of Caco-2/HT29-MTX/Raji B. These results suggest that liposomes could improve cellular uptake and transport of the payloads significantly, but only a small fraction of liposomes are transported integrally across epithelial monolayer. The study is therefore helpful to rationally fabricate more efficient oral liposomes for poorly water-soluble drugs or biomacromolecules.

The interaction of selenoprotein F (SELENOF) with retinol dehydrogenase 11 (RDH11) implied a role of SELENOF in vitamin A metabolism

Background

Selenoprotein F (SELENOF, was named as 15-kDa selenoprotein) has been reported to play important roles in oxidative stress, endoplasmic reticulum (ER) stress and carcinogenesis. However, the biological function of SELENOF is still unclear.

Methods

A yeast two-hybrid system was used to screen the interactive protein of SELENOF in a human fetal brain cDNA library. The interaction between SELENOF and interactive protein was validated by fluorescence resonance energy transfer (FRET), co-immunoprecipitation (co-IP) and pull-down assays. The production of retinol was detected by high performance liquid chromatograph (HPLC).

Results

Retinol dehydrogenase 11 (RDH11) was found to interact with SELENOF. RDH11 is an enzyme for the reduction of all-trans-retinaldehyde to all-trans-retinol (vitamin A). The production of retinol was decreased by SELENOF overexpression, resulting in more retinaldehyde.

Conclusions

SELENOF interacts with RDH11 and blocks its enzyme activity to reduce all-trans-retinaldehyde.

Specific Systems for Evaluation

Fluorescent-based visualization techniques have long been used to monitor biological activity. This chapter explores the delivery of reporter genes as a means to assay and track activity in biological systems. Bioluminescence is the production of light due to biochemical processes. By encoding genes for bioluminescence, biological processes can be visualized based on gene expression. This chapter also discusses the primary applications of bioluminescence as seen through bioluminescent imaging techniques, flow cytometry, and PCR-based methods of gene detection. These techniques are described in terms of researching gene expression, cancer therapy, and protein interactions.

Methods to Study the Roles of Rho GTPases in Dendritic Tree Complexity

Most neurons elaborate a characteristic dendritic arbor which is physiologically important for receiving and processing of synaptic inputs. Pathologically, disturbances in the regulation of dendritic tree complexity are often associated with mental retardation and other neurological deficits. Rho GTPases are major players in the regulation of dendritic tree complexity. They are involved in many signal transduction cascades, activated at the neuronal plasma membrane, and relayed to intracellular proteins that directly rearrange the cytoskeleton. The use of siRNA technology combined with morphometric and imaging techniques allows the roles of individual Rho GTPases, such as Rac1, in dendritic branching to be examined. In this chapter we describe the establishment, transfection, and processing of a primary hippocampal cell culture. Methods to assess the complexity of dendritic arbors like the Sholl analysis, and techniques to investigate Rac1 activity in hippocampal cells, and specifically in neuronal dendrites, such as fluorescence resonance energy transfer (FRET) imaging are presented.

Interaction of the epigenetic integrator UHRF1 with the MYST domain of TIP60 inside the cell

Background

The nuclear epigenetic integrator UHRF1 is known to play a key role with DNMT1 in maintaining the DNA methylation patterns during cell division. Among UHRF1 partners, TIP60 takes part in epigenetic regulations through its acetyltransferase activity. Both proteins are involved in multiple cellular functions such as chromatin remodeling, DNA damage repair and regulation of stability and activity of other proteins. The aim of this work was to investigate the interaction between UHRF1 and TIP60 in order to elucidate the dialogue between these two proteins.

Methods

Biochemical (immunoprecipitation and pull-down assays) and microscopic (confocal and fluorescence lifetime imaging microscopy; FLIM) techniques were used to analyze the interaction between TIP60 and UHRF1 in vitro and in vivo. Global methylation levels were assessed by using a specific kit. The results were statistically analyzed using Graphpad prism and Origin.

Results

Our study shows that UHRF1, TIP60 and DNMT1 were found in the same epigenetic macro-molecular complex. In vitro pull-down assay showed that deletion of either the zinc finger in MYST domain or deletion of whole MYST domain from TIP60 significantly reduced its interaction with UHRF1. Confocal and FLIM microscopy showed that UHRF1 co-localized with TIP60 in the nucleus and confirmed that both proteins interacted together through the MYST domain of TIP60. Moreover, overexpression of TIP60 reduced the DNA methylation levels in HeLa cells along with downregulation of UHRF1 and DNMT1.

Conclusion

Our data demonstrate for the first time that TIP60 through its MYST domain directly interacts with UHRF1 which might be of high interest for the development of novel oncogenic inhibitors targeting this interaction.

Single-molecule fluorescence-based analysis of protein conformation, interaction, and oligomerization in cellular systems

Single-molecule imaging (SMI) of proteins in operation has a history of intensive investigations over 20 years and is now widely used in various fields of biology and biotechnology. We review the recent advances in SMI of fluorescently-tagged proteins in structural biology, focusing on technical applicability of SMI to the measurements in living cells. Basic technologies and recent applications of SMI in structural biology are introduced. Distinct from other methods in structural biology, SMI directly observes single molecules and single-molecule events one-by-one, thus, explicitly analyzing the distribution of protein structures and the history of protein dynamics. It also allows one to detect single events of protein interaction. One unique feature of SMI is that it is applicable in complicated and heterogeneous environments, including living cells. The numbers, location, movements, interaction, oligomerization, and conformation of single-protein molecules have been determined using SMI in cellular systems.

The binding efficiency of RPA to telomeric G-strands folded into contiguous G-quadruplexes is independent of the number of G4 units

Replication protein A (RPA) is a single-stranded DNA binding protein involved in replication and in telomere maintenance. During telomere replication, G-quadruplexes (G4) can accumulate on the lagging strand template and need to be resolved. It has been shown that human RPA is able to unfold a single G4. Nevertheless, the G-strand of human telomeres is prone to fold into higher-order structures formed by contiguous G-quadruplexes. To understand how RPA deals with these structures, we studied its interaction with telomeric G-strands folding into an increasing number of contiguous G4s. The aim of this study was to determine whether the efficiency of binding/unfolding of hRPA to telomeric G-strands depends on the number of G4 units. Our data show that the number n of contiguous G4 units (n ≥ 2) does not affect the efficiency of hRPA to coat transiently exposed single-stranded telomeric G-strands. This feature may be essential in preventing instability due to G4 structures during telomere replication.

Insight into the interaction of inhaled corticosteroids with human serum albumin: A spectroscopic-based study

It is well known that the safety and efficacy profile of an inhaled cortocosteroid (ICS) is influenced by the pharmacokinetic properties and associated pharmacodynamic effects of the drug. Freely circulating, protein unbound, and active ICS can cause systemic adverse effects. Therefore, a detailed investigation of drug-protein interaction could be of great interest to understand the pharmacokinetic behaviour of corticosteroids and for the design of new analogues with effective pharmacological properties. In the present work, the interaction between some corticosteroids and human serum albumin (HSA) has been studied by spectroscopic approaches. UV–Vis spectroscopy confirmed that all the investigated corticosteroids can bind to HSA forming a protein-drug complex. The intrinsic fluorescence of HSA was quenched by all the investigated drugs, which was rationalized in terms of a static quenching mechanism. The thermodynamic parameters determined by the Van’t Hoff analysis of the binding constants (negative ΔH and ΔS values) clearly indicate thathydrogen bonds and van der Waals forces play a major role in the binding process between albumin and betamethasone, flunisolide and prednisolone, while hydrophobic forces may play a major role in stabilizing albumin-triamcinolone complexes.

Acriflavine-immobilized eggshell membrane as a new solid-state biosensor for Sudan I-IV detection based on fluorescence resonance energy transfer

A novel solid-surface fluorescence biosensor for rapid detection of Sudan I-IV was proposed based on fluorescence resonance energy transfer (FRET). The biosensor was fabricated by immobilizing acriflavine (AY) on the eggshell membrane (ESM) with glutaraldehyde as cross-linking agent. FRET mechanism was demonstrated by using AY and Sudan dyes as donor and acceptor respectively, an efficient energy transfer in the present system was indicated by the sufficient spectral overlap integral (J) and proper Förster critical distance (R₀). Under optimum conditions, the fluorescence of the AY-ESM could be efficiently quenched by Sudan I-IV and the corresponding linear range was 0.5-60μM with the detection limits (3σ/slope) of 0.16, 0.26, 0.21 and 0.17μM respectively. Compared to the detection of Sudan dyes in solution-state, the membrane biosensor exhibited advantages of low detection limits, high sensitivity and selectivity, as well as excellent stability. Recovery tests in spiked real samples also achieved satisfactory results.

A novel fluorescent biosensor for Adenosine Triphosphate detection based on the polydopamine nanospheres integrating with enzymatic recycling amplification

Based on the protective performance of polydopamine nanospheres (PDANSs) for DNA against nuclease digestion and the specific recognition characteristic of aptamer, we have developed an enzymatic recycling signal amplification method for highly sensitive and selective detection of adenosine triphosphate (ATP). Fluorescence measurements were carried out to verify the DNA polymerase and exonuclease III (Exo III) assisted target recycling process and fluorescence signal amplification. In the absence of the ATP, initially, the signal DNA-PDANSs complex was in the "off" state due to the efficient fluorescence quenching of 6-carboxyfluorescein (FAM) adjacent to the surface of PDANSs. Due to the binding of the aptamer by ATP, it trigger DNA polymerase and Exo III assisted target recycling process by the product of release, the complex would change into the "on" state as a result of the dissociation of the FAM from the surface of PDANSs, thus providing greatly enhanced fluorescence emission intensity. The method allows quantitative detection of ATP in the range of 20-600nM with a detection limit of 8.32nM. This biosensor requires no complex operations, and is a new high efficiency method for ATP detection.

Measuring ERK Activity Dynamics in Single Living Cells Using FRET Biosensors

Fluorescence resonance energy transfer (FRET)-based biosensors are powerful tools for measuring spatio-temporal signaling dynamics in single living cells with subcellular resolution. There are quite a number of already existing sensors and this technology is increasingly used to obtain quantitative dynamic datasets. In this chapter, we describe the analysis of endogenous extracellular signal-regulated kinase (ERK) activity in living cells using the EKAR2G (ERK activity reporter second generation) probe. We focus on the generation of stable cell lines expressing the EKAR2G sensor as well as data acquisition and analysis.

Nanostructured biosensor for detecting glucose in tear by applying fluorescence resonance energy transfer quenching mechanism

In this paper, a nanostructured biosensor is developed to detect glucose in tear by using fluorescence resonance energy transfer (FRET) quenching mechanism. The designed FRET pair, including the donor, CdSe/ZnS quantum dots (QDs), and the acceptor, dextran-binding malachite green (MG-dextran), was conjugated to concanavalin A (Con A), an enzyme with specific affinity to glucose. In the presence of glucose, the quenched emission of QDs through the FRET mechanism is restored by displacing the dextran from Con A. To have a dual-modulation sensor for convenient and accurate detection, the nanostructured FRET sensors were assembled onto a patterned ZnO nanorod array deposited on the synthetic silicone hydrogel. Consequently, the concentration of glucose detected by the patterned sensor can be converted to fluorescence spectra with high signal-to-noise ratio and calibrated image pixel value. The photoluminescence intensity of the patterned FRET sensor increases linearly with increasing concentration of glucose from 0.03mmol/L to 3mmol/L, which covers the range of tear glucose levels for both diabetics and healthy subjects. Meanwhile, the calibrated values of pixel intensities of the fluorescence images captured by a handhold fluorescence microscope increases with increasing glucose. Four male Sprague-Dawley rats with different blood glucose concentrations were utilized to demonstrate the quick response of the patterned FRET sensor to 2µL of tear samples.

Synthesis and Spectroscopic Investigation of Diketopyrrolopyrrole - Spiropyran Dyad for Fluorescent Switch Application

We report the synthesis and characterization of a new fluorescent dyad SP-DPP-SP(9) via efficient palladium-catalyzed Sonogashira coupling of prop-2-yn-1-yl 3-(3',3'dimethyl-6-nitrospiro[chromene-2,2'-indolin]-1'-yl)propanoatespiropyran, SP(8), a well known photochromic accepter, with 3,6-bis(5-bromothiophen-2-yl)-2,5-bis((R)-2-ethylhexyl)-2,5-dihydropyrrolo[3,4-c]pyrrole-1,4-dione, DPP(4), a highly fluorescent donor. Under visible light exposure the SP unit is in a closed hydrophobic form, whereas under UV irradiation it converts to a polar, hydrophilic open form named Merocyanine (MC), which is responsible for functioning of photo-switch application. The photochemistry pertaining to fluorescence switch, 'on/off' behaviour, of model dyad SP-DPP-SP(9) is experimentally analyzed in solution as well as in solid state in polymer matrices by photoluminescence(PL) and absorption spectroscopy. After absorption of UV light the spiropyran unit of the dyad under goes the rupture of the spiro C-O bond leading to the formation of MC. The absorption band of MC fairly overlaps to the fluorescence of DPP unit resulting quenching of fluorescence via fluorescence resonance energy transfer from exited DPP unit to ground state MC. In contrary, the fluorescence of DPP is fully regained upon transformation of MC to SP by exposure to visible light or thermal stimuli. Hence, the fluorescence intensity of dyad 9 is regulated by reversible conversion among the two states of the photochromic spiropyran units and the fluorescence resonance energy transfer (FRET) between the MC form of SP and the DPP unit. Conversely, these scrutiny of the experiment express that the design of dyad 9 is viable as efficient fluorescent switch molecule in many probable commercial applications, such as, logic gates and photonic and optical communications.

Fluorescence Resonance Energy Transfer Microscopy for Measuring Chromatin Complex Structure and Dynamics

The Polycomb group (PcG) proteins form regulatory complexes that modify the chromatin structure and silence their target genes. Recent works have found that the composition of Polycomb complexes is highly dynamic. Defining the different protein components of each complex is fundamental for better understanding their biological functions. Fluorescent resonance energy transfer (FRET) is a powerful tool to measure protein-protein interactions, in nanometer order and in their native cellular environment. Here we describe the preparation and execution of a typical FRET experiment using CFP-tagged protein as donor and YFP-tagged protein as acceptor. We further show that FRET can be used in a competition assay to measure binding affinities of different components of the same chromatin complex.

A fluorescence turn-on biosensor based on graphene quantum dots (GQDs) and molybdenum disulfide (MoS2) nanosheets for epithelial cell adhesion molecule (EpCAM) detection

This paper presents a "turn-on" fluorescence biosensor based on graphene quantum dots (GQDs) and molybdenum disulfide (MoS₂) nanosheets for rapid and sensitive detection of epithelial cell adhesion molecule (EpCAM). PEGylated GQDs were used as donor molecules, which could not only largely increase emission intensity but also prevent non-specific adsorption of PEGylated GQD on MoS₂ surface. The sensing platform was realized by adsorption of PEGylated GQD labelled EpCAM aptamer onto MoS₂ surface via van der Waals force. The fluorescence signal of GQD was then quenched by MoS₂ nanosheets via fluorescence resonance energy transfer (FRET) mechanism. In the presence of EpCAM protein, the stronger specific affinity interaction between aptamer and EpCAM protein could detach GQD labelled EpCAM aptamer from MoS₂ nanosheets, leading to the restoration of fluorescence intensity. By monitoring the change of fluorescence signal, the target EpCAM protein could be detected sensitively and selectively with a linear detection range from 3nM to 54nM and limit of detection (LOD) around 450pM. In addition, this nanobiosensor has been successfully used for EpCAM-expressed breast cancer MCF-7 cell detection.

DNA-stabilized silver nanoclusters and carbon nanoparticles oxide: A sensitive platform for label-free fluorescence turn-on detection of HIV-DNA sequences

Based on the remarkable difference between the interactions of carbon nanoparticles (CNPs) oxide with single-stranded DNA (ssDNA) and double-stranded DNA (dsDNA), and the fact that fluorescence of DNA-stabilized silver nanoclusters (AgNCs) can be quenched by CNPs oxide, DNA-functionalized AgNCs were applied as label-free fluorescence probes and a novel fluorescence resonance energy transfer (FRET) sensor was successfully constructed for the detection of human immunodeficiency virus (HIV) DNA sequences. CNPs oxide were prepared with the oxidation of candle soot, hence it is simple, time-saving and low-cost. The strategy of dual AgNCs probes was applied to improve the detection sensitivity by using dual- probe capturing the same target DNA in a sandwich mode and as the fluorescence donor, and using CNPs oxide as the acceptor. In the presence of target DNA, a dsDNA hybrid forms, leading to the desorption of the ssDNA-AgNCs probes from CNPs oxide, and the recovering of fluorescence of the AgNCs in a HIV-DNA concentration-dependent manner. The results show that HIV-DNA can be detected in the range of 1-50nM with a detection limit of 0.40nM in aqueous buffer. The method is simple, rapid and sensitive with no need of labeled fluorescent probes, and moreover, the design of fluorescent dual-probe makes full use of the excellent fluorescence property of AgNCs and further improves the detection sensitivity.

Sarcomere length dependent effects on the interaction between cTnC and cTnI in skinned papillary muscle strips

Sarcomere length dependent activation (LDA) of myocardial force development is the cellular basis underlying the Frank-Starling law of the heart, but it is still elusive how the sarcomeres detect the length changes and convert them into altered activation of thin filament. In this study we investigated how the C-domain of cardiac troponin I (cTnI) functionally and structurally responds to the comprehensive effects of the Ca(2+), crossbridge, and sarcomere length of chemically skinned myocardial preparations. Using our in situ technique which allows for simultaneous measurements of time-resolved FRET and mechanical force of the skinned myocardial preparations, we measured changes in the FRET distance between cTnI(167C) and cTnC(89C), labeled with FRET donor and acceptor, respectively, as a function of [Ca(2+)], crossbridge state and sarcomere length of the skinned muscle preparations. Our results show that [Ca(2+)], cross-bridge feedback and sarcomere length have different effects on the structural transition of the C-domain cTnI. In particular, the interplay between crossbridges and sarcomere length has significant impacts on the functional structural change of the C-domain of cTnI in the relaxed state. These novel observations suggest the importance of the C-domain of cTnI and the dynamic and complex interplay between various components of myofilament in the LDA mechanism.

Spectroscopic analysis on the binding interaction of biologically active pyrimidine derivative with bovine serum albumin

A biologically active antibacterial reagent, 2-amino-6-hydroxy-4-(4-N, N-dimethylaminophenyl)-pyrimidine-5-carbonitrile (AHDMAPPC), was synthesized. It was employed to investigate the binding interaction with the bovine serum albumin (BSA) in detail using different spectroscopic methods. It exhibited antibacterial activity against Escherichia coli and Staphylococcus aureus which are common food poisoning bacteria. The experimental results showed that the fluorescence quenching of model carrier protein BSA by AHDMAPPC was due to static quenching. The site binding constants and number of binding sites (n≈1) were determined at three different temperatures based on fluorescence quenching results. The thermodynamic parameters, enthalpy change (ΔH), free energy (ΔG) and entropy change (ΔS) for the reaction were calculated to be 15.15 kJ/mol, -36.11 kJ/mol and 51.26 J/mol K according to van't Hoff equation, respectively. The results indicated that the reaction was an endothermic and spontaneous process, and hydrophobic interactions played a major role in the binding between drug and BSA. The distance between donor and acceptor is 2.79 nm according to Förster's theory. The alterations of the BSA secondary structure in the presence of AHDMAPPC were confirmed by UV-visible, synchronous fluorescence, circular dichroism (CD) and three-dimensional fluorescence spectra. All these results indicated that AHDMAPPC can bind to BSA and be effectively transported and eliminated in the body. It can be a useful guideline for further drug design.

Genetically Encoded Fluorescent Indicators to Visualize Protein Phosphorylation in Living Cells

Protein phosphorylation by intracellular kinases plays one of the most pivotal roles in signaling pathways within cells. To reveal the biological processes related to the kinase proteins, electrophoresis, immunocytochemistry, and in vitro kinase assay have been used. However, these conventional methods do not provide enough information about spatial and temporal dynamics of the signal transduction based on protein phosphorylation and dephosphorylation in living cells. To overcome the limitation for investigating the kinase signaling, we developed genetically encoded fluorescent indicators for visualizing the protein phosphorylation in living cells. Using these indicators, we visualized under a fluorescence microscope when, where, and how the protein kinases are activated in single living cells.

Toll-Like Receptor Interactions Measured by Microscopic and Flow Cytometric FRET

Protein-protein interactions regulate biological networks. The most proximal events that initiate signal transduction frequently are receptor dimerization or conformational changes in receptor complexes. Toll-like receptors (TLRs) are transmembrane receptors that are activated by a number of exogenous and endogenous ligands. Most TLRs can respond to multiple ligands and the different TLRs recognize structurally diverse molecules ranging from proteins, sugars, lipids, and nucleic acids. TLRs can be expressed on the plasma membrane or in endosomal compartments and ligand recognition thus proceeds in different microenvironments. Not surprisingly, distinctive mechanisms of TLR receptor activation have evolved. A detailed understanding of the mechanisms of TLR activation is important for the development of novel synthetic TLR activators or pharmacological inhibitors of TLRs. Confocal laser scanning microscopy combined with GFP technology allows the direct visualization of TLR expression in living cells. Fluorescence resonance energy transfer (FRET) measurements between two differentially tagged proteins permit the study of TLR interaction, and distances between receptors in the range of molecular interactions can be measured and visualized. Additionally, FRET measurements combined with confocal microscopy provide detailed information about molecular interactions in different subcellular localizations. These techniques permit the dynamic visualization of early signaling events in living cells and can be utilized in pharmacological or genetic screens.

Exploring the Protein Composition of the Plant Nuclear Envelope

Due to rather limited sequence similarity, targeted identification of plant nuclear envelope and nuclear pore complex proteins has mainly followed two routes: (1) advanced computational identification followed by experimental verification and (2) immunoaffinity purification of complexes followed by mass spectrometry. Following candidate identification, fluorescence recovery after photobleaching (FRAP) and fluorescence resonance energy transfer (FRET) provide powerful tools to verify protein-protein interactions in situ at the NE. Here, we describe these methods for the example of Arabidopsis thaliana nuclear pore and nuclear envelope protein identification.

Using Biosensors to Study Free Fatty Acid Receptor Pharmacology and Function

The free fatty acid (FFA) family of G protein coupled receptors (GPCRs) has generated significant interest for exploiting its members as potential drug targets. However, unravelling the complex pharmacology of this family of receptors has proven challenging. In recent years the use of biosensor technologies capable of assessing biological functions in living cells, and in real time, has greatly enhanced our ability to study GPCR pharmacology and function. These include genetically encoded sensors that change the intensity or wavelength of light emitted from a bioluminescent or fluorescent protein in response to a stimulus, as well as non-genetically encoded sensors able to measure more global cellular changes, such as mass redistribution within a cell. This chapter will examine how these sensors can be used to study GPCRs, and in particular how they are helping uncover the pharmacology of the FFA family of receptors.

Sequence-function correlations and dynamics of ERG isoforms. ERG8 is the black sheep of the family

The transcription factor ERG is known to have divergent roles. On one hand, it acts as differentiation factor of endothelial cells. On the other hand, it has pathological roles in various cancers. Genomic analyses of the ERG gene show that it gives rise to several isoforms. However, functional differences between these isoforms, representing potential reasons for distinct effects in diverse cell types have not been addressed in detail so far. We set out to investigate the major protein isoforms and found that ERG8 contains a unique C-terminus. This isoform, when expressed as GFP-fusion protein, localized mainly to the cytosol, whereas the other major isoforms (ERG1-4) were predominantly nuclear. Using site directed mutagenesis and laser scanning microscopy of live cells, we could identify nuclear localization (NLS) and nuclear export sequences (NES). These analyses indicated that ERG8 lacks a classical NLS and the DNA-binding domain, but holds an additional NES within its distinctive C-terminus. All the tested isoforms were shuttling between nucleus and cytosol and showed a high degree of mobility. ERG’s 1 to 4 were transcriptionally active on ERG-promoter elements whereas ERG8 was inactive, which is in line with the absence of a DNA-binding domain. Fluorescence resonance energy transfer (FRET) microscopy revealed that ERG8 can bind to the transcriptionally active ERG’s. Knockdown of ERG8 in endothelial cells resulted in upregulation of endogenous ERG-transcriptional activity implying ERG8 as an inhibitor of the active ERG isoforms. Quantitative PCR revealed a different ratio of active ERG’s to ERG8 in cancer- versus non-transformed cells.

Alcohol binding in the C1 (C1A+C1B) domain of protein kinase C epsilon

BACKGROUND

Alcohol regulates the expression and function of protein kinase C epsilon (PKCε). In a previous study we identified an alcohol binding site in the C1B, one of the twin C1 subdomains of PKCε (Das et al., Biochem. J., 421, 405-13, 2009).

METHODS

In this study, we investigated alcohol binding in the entire C1 domain (combined C1A and C1B) of PKCε. Fluorescent phorbol ester, SAPD and fluorescent diacylglycerol (DAG) analog, dansyl-DAG were used to study the effect of ethanol, butanol, and octanol on the ligand binding using fluorescence resonance energy transfer (FRET). To identify alcohol binding site(s), PKCεC1 was photolabeled with 3-azibutanol and 3-azioctanol, and analyzed by mass spectrometry. The effects of alcohols and the azialcohols on PKCε were studied in NG108-15 cells.

RESULTS

In the presence of alcohol, SAPD and dansyl-DAG showed different extent of FRET, indicating differential effects of alcohol on the C1A and C1B subdomains. Effects of alcohols and azialcohols on PKCε in NG108-15 cells were comparable. Azialcohols labeled Tyr-176 of C1A and Tyr-250 of C1B. Inspection of the model structure of PKCεC1 reveals that these residues are 40Å apart from each other indicating that these residues form two different alcohol binding sites.

CONCLUSIONS

The present results provide evidence for the presence of multiple alcohol-binding sites on PKCε and underscore the importance of targeting this PKC isoform in developing alcohol antagonists.

The interaction between the hepatitis C proteins NS4B and NS5A is involved in viral replication

Hepatitis C virus (HCV) replicates in membrane associated, highly ordered replication complexes (RCs). These complexes include viral and host proteins necessary for viral RNA genome replication. The interaction network among viral and host proteins underlying the formation of these RCs is yet to be thoroughly characterized. Here, we investigated the association between NS4B and NS5A, two critical RC components. We characterized the interaction between these proteins using fluorescence resonance energy transfer and a mammalian two-hybrid system. Specific tryptophan residues within the C-terminal domain (CTD) of NS4B were shown to mediate this interaction. Domain I of NS5A, was sufficient to mediate its interaction with NS4B. Mutations in the NS4B CTD tryptophan residues abolished viral replication. Moreover, one of these mutations also affected NS5A hyperphosphorylation. These findings provide new insights into the importance of the NS4B-NS5A interaction and serve as a starting point for studying the complex interactions between the replicase subunits.

A fluorescence resonance energy transfer (FRET) biosensor based on graphene quantum dots (GQDs) and gold nanoparticles (AuNPs) for the detection of mecA gene sequence of Staphylococcus aureus

In this work, a novel fluorescence resonance energy transfer (FRET) biosensor based on graphene quantum dots (GQDs) and gold nanoparticles (AuNPs) pairs was developed for Staphylococcus aureus specific gene sequence detection. This FRET biosensor platform was realized by immobilization of capture probes on GQDs and conjugation of reporter probes on AuNPs. Target oligos then co-hybridized with capture probes and reporter probes to form a sandwich structure which brought GQDs and AuNPs to close proximity to trigger FRET effect. The fluorescence signals before and after addition of targets were measured and the fluorescence quenching efficiency could reach around 87% with 100 nM target oligo. The limit of detection (LOD) of this FRET biosensor was around 1 nM for S.aureus gene detection. Experiments with both single-base mismatched oligos and double-base mismatched oligos demonstrated the good sequence selectivity of this FRET biosensor.