Detection of small molecules by fluorescence intensity using single dye labeled aptamers and quencher transition metal ions

A novel strategy for enhancing the stability of aptamer conformations in heavy metal ion detection

BACKGROUND

Detection methods based on aptamer probes have great potential and progress in the field of rapid detection of heavy metal ions. However, the unstable conformation of aptamers often results in poor sensitivity due to the dissociation of aptamer-target complex in real environments.

RESULTS

In this study, we developed a locking aptamer probe and combined it with AgInZnS quantum dots for the first time to detect cadmium ions. When cadmium ions are combined with the probe, the cadmium ions are fixed in the core-locking position, forming a stable cavity structure. The limit of detection (LOD) was achieved at a concentration of 6.9 nmol L-1, with a broad detection range from 10 nmol L-1 to 1000 μmol L-1, and good recovery rates (92.93%-102.8 %) were achieved in aquatic product testing. The locking aptamer probe with stable conformation effectively enhances the stability of the aptamer-target complex and remains good stability in four buffer environments as well as a 600 mmol L-1 salt solution; it also exhibits good stability at pH 6.5-7.5 and temperatures ranging from 25 °C to 35 °C.

SIGNIFICANCE

Overall, our study presented a general, simple, and cost-effective strategy for stabilizing aptamer conformations, and used for highly sensitive detection of cadmium ions.

Tris buffer-accelerated ligand exchange rate for instant fluorescence detection of trivalent chromium ion

Functional nucleic acids (FNAs) have attracted a lot of attention for the rapid detection of metal ions. Cr3+ is one of the major heavy metal ions in natural waters. Due to the slow ligand exchange rate of Cr3+, the FNA-based Cr3+ sensors require long assay times, limiting the on-site applications. In this study, we report that the good's buffers containing amino and polyhydroxy groups greatly increase the ligand exchange rate of Cr3+. Using EDTA as a model coordinate ligand, the Tris buffer (100 mM, pH 7.0) showed the best acceleration effect among the eight buffers. It improved the rate constant ∼20-fold, shorten the half-time 19-fold, and lowered the activation energy ∼70% at 40 °C. The Tris buffer was then applied for sensor based on the Cr3+-binding induced fluorescence quenching of fluorescein (FAM)-labeled and single-stranded DNA (ssDNA), which shortened the assay time from 1 h to 1 min. The Tris buffer also ∼100% enhanced the fluorescence intensity of FAM, achieving the 11.4-fold lower limit of detection (LOD = 6.97 nM, S/N = 3). By the combination use of the Tris buffer and ascorbic acid, the strong interference from Cu2+, Pb2+, and Fe3+ suffered in many previous reported Cr3+ sensors was avoided. The practical application of the sensor for the detection of Cr3+ spiked in the real water samples were demonstrated with high recovery percentages. The Tris buffer could be applied for other metal ions with slow ligand exchange rate (such as V2+, Co3+ and Fe2+) to solve diverse issues such as long assay time and low synthesis yield of metal complexes, without the need of heating treatment.

Deciphering DOM-metal binding using EEM-PARAFAC: Mechanisms, challenges, and perspectives

Dissolved organic matter (DOM) is a pivotal component of the biogeochemical cycles and can combine with metal ions through chelation or complexation. Understanding this process is crucial for tracing metal solubility, mobility, and bioavailability. Fluorescence excitation emission matrix (EEM) and parallel factor analysis (PARAFAC) has emerged as a popular tool in deciphering DOM-metal interactions. In this review, we primarily discuss the advantages of EEM-PARAFAC compared with other algorithms and its main limitations in studying DOM-metal binding, including restrictions in spectral considerations, mathematical assumptions, and experimental procedures, as well as how to overcome these constraints and shortcomings. We summarize the principles of EEM to uncover DOM-metal association, including why fluorescence gets quenched and some potential mechanisms that affect the accuracy of fluorescence quenching. Lastly, we review some significant and innovative research, including the application of 2D-COS in DOM-metal binding analysis, hoping to provide a fresh perspective for possible future hotspots of study. We argue the expansion of EEM applications to a broader range of areas related to natural organic matter. This extension would facilitate our exploration of the mobility and fate of metals in the environment.

AIEE Active Azomethine-Based Rhodamine Derivative For Ultrasensitive Multichannel Detection of Au3+ Through a Fluorimetrically, Electrochemically, and RGB-Based Sensing Assay

In this study, a novel rhodamine-based optically and electrochemically active chemosensor, integrated with a p-DMAC moiety, demonstrated extremely selective identification of Au³⁺ ions relative to other metal species, including (Li⁺, Na⁺, K⁺, Ba²⁺, Ca²⁺, Mg²⁺, Co²⁺, Mn²⁺, Zn²⁺, Pb²⁺, Ni²⁺, Fe²⁺, Hg²⁺, Fe³⁺, Cd²⁺, Pd²⁺, Al³⁺, Cr³⁺, Cu²⁺, and nitrate salt of Ag⁺). These compounds demonstrated a novel and outstanding aggregation-induced emission enhancement (AIEE) behavior by aggregating in DMF/H₂O medium. Furthermore, the degree of quenching was varying linearly with a Au³⁺ concentration from 0 to 40 nM, with a lower detection limit by RH-DMAC nanoaggregates of 118.79 picomolar (40.35 ppm). The Stern-Volmer plots, Job's plot, Benesi-Hildebrand plot, ¹H NMR titrations, ESI-mass, and FTIR all revealed significant interactions between the sensor and Au³⁺. Moreover, the proposed electrochemical sensor afforded a linear correlation before the peak current and concentration of Au³⁺ in the range of 0-40 nM, with a detection limit of 483.73 pM or 164.36 ppt (by cyclic voltammetry method) and 298.0 pM or 101.24 ppt (by the Differential Pulse Voltammetry method). Furthermore, the proposed sensing assay was used to measure Au³⁺ ion in spiked water samples (tap, drinking, waste, and river water), achieving acceptable accuracy and precision with high recovery rates. Furthermore, RH-DMAC-coated fluorescence paper test strips were designed for on-site Au³⁺ detection. Apart from this, the use of smartphone-based RGB (Red Green Blue) color analysis shortened the operating process, accelerated the detection technique, and provided a novel methodology for the instantaneous, real-time examination of Au³⁺ in real water samples.

Monitoring leaching of Cd2+ from cadmium-based quantum dots by an Cd aptamer fluorescence sensor

Quantum Dots (QDs) have been demonstrated with outstanding optical properties and thus been widely used in many biological and biomedical studies. However, previous studies have shown that QDs can cause cell toxicity, mainly attributable to the leached Cd2+. Therefore, identifying the leaching kinetics is very important to understand QD biosafety and cytotoxicity. Toward this goal, instrumental analyses such as inductively coupled plasma mass spectrometry (ICP-MS) have been used, which are time-consuming, costly and do not provide real-time or spatial information. To overcome these limitations, we report herein a fast and cost-effective fluorescence sensor based a Cd2+-specific aptamer for real-time monitoring the rapid leaching kinetics of QDs in vitro and in living cells. The sensor shows high specificity towards Cd2+ and is able to measure the Cd2+ leached either from water-dispersed CdTe QDs or two-layered CdSe/CdS QDs. The sensor is then used to study the stability of these two types of QDs under conditions to mimic cellular pH and temperature and the results from the sensor are similar to those obtained from ICP-MS. Finally, the sensor is able to monitor the leaching of Cd2+ from QDs in HeLa cells. The fluorescence aptamer sensor described in this study may find many applications as a tool for understanding biosafety of numerous other Cd-based QDs, including leaching kinetics and toxicity mechanisms in living systems.