Preparation of novel fluorescent DNA bio-dots and their application for biothiols and glutathione reductase activity detection

A novel dual-recognition fluorescent biosensor for sialyl-Lewisx sensitive detection

Sialyl-Lewisx (SLex) is a tetrasugar, which plays an important role in initial inflammation and cancer cell metastasis, and can be used as a marker for cancer diagnosis and prognosis or a therapeutic target. Detecting SLex from complex biological media remains a significant challenge. Herein, a single-stranded DNA aptamer of SLex was screened based on the double-stranded DNA library-modified magnetic bead (MB)-SELEX technology. After 14 rounds of screening, 12,639 sequences were obtained and divided into nine families. Three representative sequences were selected based on the number of sequence repeats and Gibbs binding free energy, and the aptamer SLex-Apt2 with 80 nt length (Kd = 23.01 nM) had the best affinity and relatively high specificity for targeting SLex. Then, a novel dual-recognition fluorescent biosensor for SLex-sensitive detection based on aptamer SLex-Apt2 bio-dots and 3-aminobenzoboric acid-modified MB was developed. This method can detect SLex as low as 32 μM and has a good linear response in the range 100 μM to 2 mM. It has the advantages of low preparation cost, good targeting, and avoiding the occurrence of false-positive and false-negative detection results, which makes the biosensor more valuable in biological detection and clinical diagnosis.

A FRET based ultrasensitive fluorescent aptasensor for 6'-sialyllactose detection

As a kind of human milk oligosaccharide, 6'-sialyllactose (6'-SL) plays an important role in promoting infant brain development and improving infant immunity. The content of 6'-SL in infant formula milk powder is thus one of the important nutritional indexes. Since the lacking of efficient and rapid detection methods for 6'-SL, it is of great significance to develop specific recognition elements and establish fast and sensitive detection methods for 6'-SL. Herein, using 6'-SL specific aptamer as the recognition element, catalytic hairpin assembly as the signal amplification technology and quantum dots as the signal label, a fluorescence biosensor based on fluorescence resonance energy transfer (FRET) was constructed for ultra-sensitive detection of 6'-SL. The detection limit of this FRET-based fluorescent biosensor is 0.3 nM, and it has some outstanding characteristics such as high signal-to-noise ratio, low time-consuming, simplicity and high efficiency in the actual sample detection. Therefore, it has broad application prospect in 6'-SL detection.

A novel "off-on" ratiometric fluorescent aptasensor for adenosine detection based on FRET between quantum dots and graphene oxide

A novel "off-on" ratiometric fluorescent aptasensor was established for adenosine detection based on fluorescence resonance energy transfer (FRET) between CdS QDs, DNA QDs as donor and graphene oxide (GO) as acceptor. Amino-riched DNA QDs covalently bonded to the carboxyl group on the edge of the GO, and with the absorption of the TGA-modified CdS QDs with aptamer (CdS QDs-apt) onto the GO surface via the π-π stacking interaction. The fluorescence of both CdS QDs and DNA QDs were efficiently quenched due to FRET (turn off). When adenosine was present, the specific binding of the aptamer to the target preferentially that released the CdS QDs-apt from GO. The process would inhibit the FRET which contribute to the fluorescence of CdS QDs-apt recovery again (turn on), while the fluorescence intensity of DNA QDs only slightly altered and acted as the reference signal. Thus, a novel "off-on" ratiometric fluorescent aptasensor for adenosine detection was constructed accordingly. There was a good linearity relationship between the ratio of the FL intensity (F595 nm/F464 nm) and the concentration of adenosine in the range of 20.00-180.0 nmol/L with a detection limit of 1.3 nmol/L (S/N = 3, n = 9). Importantly, the feasibility of the developed aptasensor for selective detection of adenosine in serum and urine samples with satisfactory results. The recoveries were observed to be 97.04-100.2 %.

A Photoelectrochemical Sensor Based on DNA Bio-Dots-Induced Aggregation of AuNPs for Methionine Detection

Based on DNA bio-dots-induced aggregation of gold nanoparticles (AuNPs), a methionine (Met) photoelectrochemical (PEC) sensor with CS-GSH-CuNCs/TiO2 NPs as the photoelectric conversion element and AuNPs as the specific recognition element was constructed. First, a TiO2 NPs/ITO electrode and CS-GSH-CuNCs were prepared, and then the CS-GSH-CuNCs/TiO2 NPs/ITO photosensitive electrode was obtained by self-assembly. Next, DNA bio-dots were modified to the upper surface of the electrode using a coupling reaction to assemble the DNA bio-dots/CS-GSH-CuNCs/TiO2 NPs electrode. Amino-rich DNA bio-dots were used to induce the aggregation of AuNPs on the electrode surface via Au-N interactions and prepare the AuNPs/DNA bio-dots/CS-GSH-CuNCs/TiO2 NPs electrode. Due to the fluorescence resonance energy transfer (FRET) between CS-GSH-CuNCs and AuNPs, the complexation chance of electron-hole (e--h+) pair in CS-GSH-CuNCs increased, which, in turn, led to a decrease in photocurrent intensity. When Met was present, AuNPs aggregated on the electrode surface were shed and bound to Met since the Au-S interaction is stronger than the Au-N interaction, resulting in the recovery of the photocurrent signal. Under optimal conditions, the photocurrent intensity of the PEC sensor showed good linearity with the logarithm of Met concentration in the range of 25.0 nmol/L-10.0 μmol/L with the limit of detection (LOD) of 5.1 nmol/L (S/N = 3, n = 10).

Screening of a Sialyllactose-Specific Aptamer and Engineering a Pair of Recognition Elements with Unique Fluorescent Characteristics for Sensitive Detection of Sialyllactose

A single-stranded DNA (ssDNA) aptamer specific for 6'-sialyllactose (6'-SL) was screened through magnetic separation-based SELEX and post-SELEX truncation and used to construct unique aptamer bio-dots for sensitive detection of 6'-SL. Eighteen rounds of screening were conducted during the SELEX process. The ssDNA aptamer Apt9 (K_d = 152.3 nM) with a length of 79 nucleotides (nt) was demonstrated as the optimal aptamer candidate after affinity and specificity evaluation. Then, Apt9 was truncated and optimized according to secondary structure and molecular docking. A 35 nt truncated aptamer Apt9-1 (K_d = 91.75 nM) with higher affinity than Apt9 was finally obtained. Furthermore, Apt9-1 was used to synthesize bio-dots as a new recognition element of 6'-SL, and the aminobenzene boric acid functionalized carbon dots were employed as the other recognition element. With the respective fluorescent characteristics, the two quantum dots (QDs) were made a pair to construct a 6'-SL fluorescent biosensor. The linear detection range of the biosensor is 10 μM to 5 mM, and the detection limit is 0.9 μM. With the advantages of time-saving, high efficiency, and simplicity in the actual sample detection, the screened aptamer and dual-QD-based biosensor have broad application prospects in 6'-SL detection.

Synthesis and Characterization of N-rich Fluorescent Bio-dots as a Reporter in the Design of Dual-labeled FRET Probe for TaqMan PCR: a Feasibility Study

DNA-based analytical techniques have provided an advantageous sensing assay in the realm of biotechnology. Bio-inspired fluorescent nanodots are a novel type of biological staining agent with excellent optical properties widely used for cellular imaging and diagnostics. In the present research, we successfully synthesized bio-dots with excellent optical properties and high-quantum yield from DNA sodium salt through the hydrothermal method. We conjugated the bio-dots with 3' Eclipse® Dark Quencher (Eclipse) labeled single strand oligodeoxyribonucleotide according to carbodiimide chemistry, to design a fluorescence resonance energy transfer (FRET) probe. The results confirmed the prosperous synthesis and surface functionalization of the bio-dot. Analysis of size, zeta potential, and FTIR spectroscopy verified successful bioconjugation of the bio-dots with probes. UV-Visibility analysis and fluorescence intensity profile of the bio-dot and bio-dot@probes represented a concentration-dependent quenching of fluorescent signal of bio-dot by Eclipse after probe conjugation. The results demonstrated that TaqMan PCR was not feasible using the designed bio-dot@probes. Our results indicated that bio-dot can be used as an efficient fluorescent tag in the design of fluorescently labeled oligonucleotides with high biocompatibility and optical features. This article is protected by copyright. All rights reserved.

Ascorbic Acid Sensor Based on CdS QDs@PDA Fluorescence Resonance Energy Transfer

An ascorbic acid (AA) sensor was constructed based on the fluorescence resonance energy transfer (FRET) between CdS quantum dots (CdS QDs) and polydopamine (PDA) to detect trace AA sensitively. FRET occurred due to the broad absorption spectrum of PDA completely overlapped with the narrow emission spectrum of CdS QDs. The fluorescence of CdS QDs was quenched and in the "off" state. When AA was present, the conversion of DA to PDA was hindered and the FRET disappeared, resulting in the fluorescence of CdS QDs in an "on" state. Importantly, the degree of fluorescence recovery of CdS QDs displayed a desirable linear correlation with the concentration of AA in the range of 5.0-100.0 μmol/L, the linear equation is y=0.0119cAA+0.3113, and the detection limit is 1.16 μmol/L (S/N = 3, n = 9). There was almost no interference with common amino acid, glucose and biological sulfhydryl small molecules to AA. Trace amount of AA in vitamin C tablets were determined and satisfactory results were obtained; the recoveries were observed to be 98.01-100.7%.

Turn-on signal fluorescence sensor based on DNA derived bio-dots/polydopamine nanoparticles for the detection of glutathione

A convenient, fast, sensitive and highly selective fluorescence sensor for the detection of glutathione (GSH) based on DNA derived bio-dots (DNA bio-dots)/polydopamine (PDA) nanoparticles was constructed. The fluorescent switch of DNA bio-dots was induced to turn off because of fluorescence resonance energy transfer (FRET) reactions between DNA bio-dots and PDA. The presence of GSH blocked the spontaneous oxidative polymerization of dopamine (DA) to PDA, leading the fluorescent switch of DNA bio-dots to be "turned on". The degree of fluorescence recovery of DNA bio-dots is linearly correlated with the concentration of GSH within the range of 1.00-100 μmol L-1, and the limit of detection (LOD) is 0.31 μmol L-1 (S/N = 3, n = 9). Furthermore, the fluorescence sensor was successfully used to quantify GSH in human urine and glutathione whitening power, indicating the fluorescence sensor has potential in the detection of human body fluids and pharmaceutical preparations.

Detection of biological mercaptan by DNA functionalized room temperature phosphorescent quantum dot nanocomposites

In this study, green low-toxicity Mn-doped Zns (Mn-Zns) room-temperature phosphorescent (RTP) quantum dots (QDs) (PQDs) nanocomposites (DNA-PQDs) were prepared under the optimal conditions by using single-stranded DNA (PS-C-ssDNA) rich of cytosine C and Thioguanine G (PS) as the template. DNA-PQDs interact with Ag⁺ to form AgN bonds and further produce C-Ag⁺-C conjugates. As a result, DNA-PQDs cluster together and induce the phosphorescent exciton energy transfer (PEET), resulting in quenching of room-temperature phosphorescent of DNA-PQDs. Nevertheless, Ag⁺ tends to form AgS bonds with biological mercaptan when it is added in, so that Ag⁺ falls from C-Ag⁺-C. DNA-PQDs changed from aggregation to looseness and RTP is recovered accordingly. On this basis, RTP detection of biological mercaptan is realized. Since this sensor system has RTP properties based on DNA-PQDs, it is very applicable to detection of mercaptan compounds in biological fluids.

DNA biodots based targeted theranostic nanomedicine for the imaging and treatment of non-small cell lung cancer

The light absorption and emission characteristics of DNA biodots (DNA-BD), along with biocompatibility, give them a high potential for use in various medical applications, particularly in diagnostic purpose. DNA, under high pressure and temperature, condenses to form luminescent biodots. The objective of this research is to develop DNA-biodots (BD) loaded and cetuximab conjugated targeted theranostic liposomes of etoposide for lung cancer imaging and therapy. Theranostic liposomes were prepared by using the solvent injection method and characterized for their particle size, polydispersity, zeta potential, encapsulation efficiency, and pH-dependent in-vitro release, SEM, TEM AFM, EDX, and XRD. The t₅₀% (time at which 50% of the drug releases from the preparation) of the formulations was pH-dependent, with a significant increase in the release at lower pH (5.5). To kill A549 adenocarcinoma cells, the etoposide (control) required significantly (p < 0.05) higher drug concentrations in comparison to non-targeted and; the non-targeted formulation required more concentrations in comparison to targeted liposomes. The in-vivo results demonstrated that CTX-TPGS decorated theranostic liposomes could be a promising carrier for lung theranostics due to their nano-size and selectivity towards EGFR overexpressed cells which provided an improved NSCLC targeted delivery of ETP in comparison to the non-targeted and control formulations.

Nucleotide-derived theranostic nanodots with intrinsic fluorescence and singlet oxygen generation for bioimaging and photodynamic therapy

Nucleic acids are important molecules of life and have recently emerged as important functional materials to synthesize, organize and assemble inorganic nanoparticles for various technological applications. In this study, we have systematically investigated the four basic nucleotides of DNA as precursors to form fluorescent nucleotide derived biodots (N-dots) with unique singlet oxygen generation properties by one-pot hydrothermal synthesis. It has been discovered for the first time that the nitrogenous base adenine accounts for the bright fluorescence, while the sugar and phosphate groups of the nucleotide endow the N-dots with good photo-stability. Among the N-dots synthesized in this study, adenosine triphosphate (ATP)-dots were found to exhibit the highest fluorescence quantum yield (QY) of 13.9%, whereas adenosine diphosphate (ADP)-dots exhibited the best photo-stability maintaining 97.6% photoluminescence intensity after continuous UV excitation for 30 min. Overall, deoxyadenosine monophosphate (dAMP)-dots display both high fluorescence QY (12.4%) and good photo-stability (91.9%). Most critically, dAMP-dots show the highest singlet oxygen generation with a remarkable singlet oxygen (¹O₂) quantum yield of 1.20 surpassing the ¹O₂ quantum yield of the conventional photosensitizer Rose Bengal (0.75). Further cellular experiments reveal that dAMP-dots possess excellent cellular uptake ability for successful fluorescent labeling with the ability to kill >60% HeLa cancer cells under white light treatment within 10 minutes. Additionally, N-dots possess excellent stability against both UV irradiation and DNase enzymatic action. These results demonstrate the unique physiochemical properties of N-dots, including an ultra-small size for cellular uptake, tunable photoluminescence for bioimaging, excellent aqueous solubility, high chemical stability and photo-stability as well as excellent singlet oxygen quantum yield with inherent biocompatibility for photodynamic therapy, which are important factors contributing to the promising theranostic applications in future personalized nanomedicine.

Biomolecule-derived quantum dots for sustainable optoelectronics

The diverse chemical functionalities and wide availability of biomolecules make them essential and cost-effective resources for the fabrication of zero-dimensional quantum dots (QDs, also known as bio-dots) with extraordinary properties, such as high photoluminescence quantum yield, tunable emission, photo and chemical stability, excellent aqueous solubility, scalability, and biocompatibility. The additional advantages of scalability, tunable optical features and presence of heteroatoms make them suitable alternatives to conventional metal-based semiconductor QDs in the field of bioimaging, biosensing, drug delivery, solar cells, photocatalysis, and light-emitting devices. Furthermore, a recent focus of the scientific community has been on QD-based sustainable optoelectronics due to the primary concern of partially mitigating the current energy demand without affecting the environment. Hence, it is noteworthy to focus on the sustainable optoelectronic applications of biomolecule-derived QDs, which have tunable optical features, biocompatibility and the scope of scalability. This review addresses the recent advances in the synthesis, properties, and optoelectronic applications of biomolecule-derived QDs (especially, carbon- and graphene-based QDs (C-QDs and G-QDs, respectively)) and discloses their merits and disadvantages, challenges and future prospects in the field of sustainable optoelectronics. In brief, the current review focuses on two major issues: (i) the advantages of two families of carbon nanomaterials (i.e. C-QDs and G-QDs) derived from biomolecules of various categories, for instance (a) plant extracts including fruits, flowers, leaves, seeds, peels, and vegetables; (b) simple sugars and polysaccharides; (c) different amino acids and proteins; (d) nucleic acids, bacteria and fungi; and (e) biomasses and their waste and (ii) their applications as light-emitting diodes (LEDs), display systems, solar cells, photocatalysts and photo detectors. This review will not only bring a new paradigm towards the construction of advanced, sustainable and environment-friendly optoelectronic devices using natural resources and waste, but also provides critical insights to inspire researchers ranging from material chemists and chemical engineers to biotechnologists to search for exciting developments of this field and consequently make an advance step towards future bio-optoelectronics.

“Turn-On” Fluorescent Assay of Biothiols Based on Nitrogen-Rich Polymer Carbon Nanostrips and Its Application in Cell Imaging

In this work, a sensitive and selective turn-on fluorimetric method has been developed for the determination of biothiols based on blocking Ag+-induced fluorescence quenching of nitrogen-rich polymer carbon nanostrips (NRPCNSs). Ag+ion can induce the fluorescence quenching of NRPCNSs due to the formation of nonfluorescent coordination complexes via robust Ag-N interaction. Once addition of biothiols, such as cysteine (Cys) and glutathione (GSH), Ag+ions prefer to interact with biothiols rather than NRPCNSs, which could be attribute to the formation of Ag-S bond, thus leading to effective fluorescent recovery of NRPCNSs. Under the optimized conditions, excellent linear relationships existed between the recovery degree of the NRPCNSs and the concentrations of Cys and GSH in the range of 0.05 μM to 10 μM and 0.2 μM to 30 μM, respectively. And, the limits of detection (LODs) for Cys and GSH are 16.5 nM and 65.1 nM, respectively. The detection system also shows high selectivity against other non-thiol amino acids. Moreover, the potential in practical applications of this proposed method has been demonstrated by detecting biothiols in human serum and fluorescence imaging of biothiols in living cells.

A label-free fluorimetric detection of biothiols based on the oxidase-like activity of Ag+ ions

In this work, a label-free and sensitive fluorimetric method has been developed for the detections of biothiols including cysteine (Cys), homocysteine (Hcy), and glutathione (GSH), based on the specific biothiol-induced inhibition of the oxidase-like activity of silver ions (Ag⁺). It is well established that o-phenylenediamine (OPD) can be oxidized by Ag⁺ ions to generate fluorescent 2,3-diaminophenazine (OPDox). The introduction of biothiols would inhibit the oxidation of OPD by Ag⁺ due to the strong coordination between biothiols and Ag⁺. The changes of fluorescence intensities obtained in the Ag⁺-OPD system exhibited good linear correlations in the ranges of 0.50-30.0μM for Cys, 1.0-45.0μM for Hcy and 0.50-40.0μM for GSH. The detection limits (S/N=3) of Cys, Hcy and GSH were 110nM, 200nM and 150nM, respectively. Subsequently, the developed fluorimetric method was successfully applied for the detection of biothiols in human serum.

In situ preparation of cubic Cu2O-RGO nanocomposites for enhanced visible-light degradation of methyl orange

There has been a growing interest in gathering together photocatalysis of semiconductors, like cuprous oxide (Cu2O), and the excellent electron transmittability of graphene to produce a graphene-based semiconductor for photocatalytic degradation. In this paper, a mild one-pot in situ synthesis of cubic cuprous oxide-reduced graphene oxide (Cu2O-RGO) nanocomposites has been proposed for the removal of methyl orange. In contrast to pure cubic Cu2O particles under similar preparation conditions, the cubic Cu2O-RGO nanocomposites demonstrate enhanced visible-light-driven photocatalytic activity for methyl orange dye with a 100% degradation rate in 100 min. The enhanced photocatalytic performance is mainly attributed to the increased charge transportation, effective separation of photoelectrons from vacancies, and the improved contact area.

A novel nanosensor composed of aptamer bio-dots and gold nanoparticles for determination of thrombin with multiple signals

Thrombin is a crucial multifunctional enzyme involved in many physiological and pathological processes. Its detection is of great importance. In this work, a novel bio-dots nanosensor for detection of thrombin with colorimetric, fluorometric and light-scattering signals is developed. This nanosensor is composed of thrombin-binding aptamer bio-dots (TBA-dots) and gold nanoparticles (AuNPs), where TBA-dots serve as fluorometric reporter and AuNPs function as multiple roles as colorimetric reporter, light scattering reporter and fluorescence quencher. TBA-dots retain inherent structures of aptamer to specifically interact with thrombin and simultaneously induce the aggregation of AuNPs. The mechanism of the sensing system is based on distance-dependent aggregation of AuNPs and fluorescence resonance energy transfer (FRET). The nanosensor needs no further surface functionalization required for the as-prepared bio-dots and AuNPs, which provides a sensitive method for the selective detection of thrombin with a detection limit as low as 0.59nM. In addition, it provides a brand new perspective for bio-dots and its potential use in bioanalysis.

Electrochemical detection of glutathione based on Hg(2+)-mediated strand displacement reaction strategy

Glutathione (GSH) plays an important role in numerous cellular functions, and the abnormal GSH expression is closely related with many dangerous human diseases. In this work, we have proposed a simple but sensitive electrochemical method for quantitative detection of GSH based on an Hg(2+)-mediated strand displacement reaction. Owing to the specific binding of Hg(2+) with T-T mismatches, helper DNA can bind to 3' terminal of probe DNA 1 and initiate the displacement of probe DNA 2 immobilized on an electrode surface. However, Hg(2+)-mediated strand displacement reaction can be inhibited by the chelation of GSH with Hg(2+), thereby leading to an obvious electrochemical response obtained from methylene blue that is modified onto the probe DNA. Our method can sensitively detect GSH in a wide linear range from 0.5nM to 5μM with a low detection limit of 0.14nM, which can also easily distinguish target molecules in complex serum samples and even cell extractions. Therefore, this method may have great potential to monitor GSH in the physiological and pathological condition in the future.