Metal-organic frameworks for virus detection

Virus severely endangers human life and health, and the detection of viruses is essential for the prevention and treatment of associated diseases. Metal-organic framework (MOF), a novel hybrid porous material which is bridged by the metal clusters and organic linkers, has become a promising biosensor platform for virus detection due to its outstanding properties including high surface area, adjustable pore size, easy modification, etc. However, the MOF-based sensing platforms for virus detection are rarely summarized. This review systematically divided the detection platforms into nucleic acid and immunological (antigen and antibody) detection, and the underlying sensing mechanisms were interpreted. The nucleic acid sensing was discussed based on the properties of MOF (such as metal ion, functional group, geometry structure, size, porosity, stability, etc.), revealing the relationship between the sensing performance and properties of MOF. Moreover, antibodies sensing based on the fluorescence detection and antigens sensing based on molecular imprinting or electrochemical immunoassay were highlighted. Furthermore, the remaining challenges and future development of MOF for virus detection were further discussed and proposed. This review will provide valuable references for the construction of sophisticated sensing platform for the detection of viruses, especially the 2019 coronavirus.

Integrating Target-Triggered Aptamer-Capped HRP@Metal-Organic Frameworks with a Colorimeter Readout for On-Site Sensitive Detection of Antibiotics

Colorimetric analytical strategies exhibit great promise in developing on-site detection methods for antibiotics, while substantial recent research efforts remain problematic due to dissatisfactory sensitivity. Taking this into account, we develop a novel colorimetric sensor for in-field detection of antibiotics by using aptamer (Apt)-capped and horseradish peroxidise (HRP)-embedded zeolitic metal azolate framework-7 (MAF-7) (Apt/HRP@MAF-7) as target recognition and signal transduction, respectively. With the substrate 3,3',5,5'-tetramethylbenzidine (TMB)-impregnated chip attached on the lid, the assay can be conveniently operated in a tube and reliably quantified by a handheld colorimeter. Hydrophilic MAF-7 can not only prevent HRP aggregation but also enhance HRP activity, which would benefit its detection sensitivity. Besides, the catalytic activity of HRP@MAF-7 can be sealed through assembling with Apt and controllably released based on the bioresponsivity via forming target-Apt complexes. Consequently, a significant color signal can be observed owing to the oxidation of colorless TMB to its blue-green oxidized form oxTMB. As a proof-of-concept, portable detection of streptomycin was favorably achieved with excellent sensitivity, which is superior to most reported methods and commercial kits. The developed strategy affords a new design pattern for developing on-site antibiotics assays and immensely extends the application of enzyme embedded metal-organic framework composites.

A nanoplatform based on metal-organic frameworks and coupled exonuclease reaction for the fluorimetric determination of T4 polynucleotide kinase activity and inhibition

A nanoplatform based on metal-organic frameworks (MOFs) and lambda exonuclease (λ exo) for the fluorimetric determination of T4 polynucleotide kinase (T4 PNK) activity and inhibition is described. Fe-MIL-88 was selected as the nanomaterial because of its significant preferential binding ability to single-stranded DNA (ssDNA) over double-stranded DNA (dsDNA) and its quenching property. The synthesized Fe-MIL-88 was characterized by transmission electron microscope, scanning electron microscope, and X-ray photoelectron spectroscopy. In the presence of T4 PNK, FAM-labeled dsDNA (FAM-dsDNA) is phosphorylated on its 5'-terminal. λ exo then recognizes and cleaves the phosphorylated strand yielding FAM-labeled ssDNA (FAM-ssDNA). The fluorescence of the produced FAM-ssDNA is quenched due to Fe-MIL-88's absorbing on FAM-ssDNA. On the contrary, in the absence of T4 PNK, the phosphorylation and cleavage processes cannot take place. Therefore, the fluorescence of FAM-dsDNA still remains. The fluorescence intensity is detected at the maximum emission wavelength of 524 nm using the maximum excitation wavelength of 488 nm. The assay of T4 PNK based on the fluorescence quenching of FAM-ssDNA achieves a linear relationship in the range 0.01-5.0 U mL^-1 with a detection limit of 0.0089 U mL^-1 in buffer. The assay exhibits excellent performance for T4 PNK activity determination in a complex biological matrix. The results also reveal the ability of the assay for T4 PNK inhibitor screening. Graphical abstract Schematic presentation of a nanoplatform based on Fe-MIL-88 and coupled exonuclease reaction for the fluorimetric determination of T4 polynucleotide kinase activity. FAM-ssDNA, FAM-labeled single-stranded DNA; cDNA, complementary DNA; λ exo, lambda exonuclease;T4 PNK, T4 polynucleotide kinase.

Recent Progress on Luminescent Metal-Organic Framework-Involved Hybrid Materials for Rapid Determination of Contaminants in Environment and Food

The high speed of contaminants growth needs the burgeoning of new analytical techniques to keep up with the continuous demand for monitoring and legislation on food safety and environmental pollution control. Metal-organic frameworks (MOFs) are a kind of advanced crystal porous materials with controllable apertures, which are self-assembled by organic ligands and inorganic metal nodes. They have the merits of large specific surface areas, high porosity and the diversity of structures and functions. Latterly, the utilization of metal-organic frameworks has attracted much attention in environmental protection and the food industry. MOFs have exhibited great value as sensing materials for many targets. Among many sensing methods, fluorometric sensing is one of the widely studied methods in the detection of harmful substances in food and environmental samples. Fluorometric detection based on MOFs and its functional materials is currently one of the most key research subjects in the food and environmental fields. It has gradually become a hot research direction to construct the highly sensitive rapid sensors to detect harmful substances in the food matrix based on metal-organic frameworks. In this paper, we introduced the synthesis and detection application characteristics (absorption, fluorescence, etc.) of metal-organic frameworks. We summarized their applications in the MOFs-based fluorometric detection of harmful substances in food and water over the past few years. The harmful substances mainly include heavy metals, organic pollutants and other small molecules, etc. On this basis, the future development and possible application of the MOFs have prospected in this review paper.

Recent advances in fluorescence sensors based on DNA-MOF hybrids

In this review, the recent advances in the development of fluorescence sensors based on DNA and metal-organic framework hybrids have been reported for nucleic acid, metal ion and amino acid detection. The main detection mechanism depends on different adsorption capacities of MOFs towards different DNA structures (single-stranded DNA, double-stranded DNA), and consequently the fluorescence intensity of probe DNA is changed. These results might open up a way to study their potential application in material science and clinical diagnosis of some related diseases.

Nanoscale metal-organic frameworks in detecting cancer biomarkers

Following the efficient performance of metal-organic frameworks (MOFs) as recognition elements in gas sensors, biosensors based on MOFs are now being investigated to capture and quantify potential cancer biomarkers, such as circulating tumor cells (CTCs), nucleic acids and proteins. The current status of MOF-based biosensors in the detection of early stages of cancer is in its infancy, although it has significantly emerged since the beginning of this decade. That said, salient research has been conducted in the past five years to utilize the distinctive porous crystalline structure of MOFs for highly sensitive and selective detection of cancer biomarkers. In this pursual, MOFs designed with bimetallic assembly, doped with magnetic nanoparticles, coated with polymers, and even conjugated with peptides or oligonucleotides have shown promising outcomes in detecting CTCs, nucleic acids and proteins. In particular, aptamer-conjugated MOFs are able to perform at a lower limit of detection down to the femtomolar, implying their efficacy for the point of care testing in clinical trials. In this way, aptasensors based on aptamer-conjugated MOFs present a newer sub-branch, to be coined as a MOFTA sensor in the current review. Considering the emerging progress and promising outcomes of MOFTA sensors as well as a variety of MOF-based techniques of detecting cancer biomarkers, this review will highlight their significant advances and related aspects in the recent five years on the context of detecting CTCs, nucleic acids and proteins for the early-stage detection of cancer.

A magnetic nanoscale metal-organic framework (MNMOF) as a viable fluorescence quencher material for ssDNA and for the detection of mercury ions via a novel quenching-quenching mechanism

A novel fluorescent biosensor has been designed and synthesized comprising a magnetic nanoscale metal-organic framework (MNMOF) functionalized with fluorescein amidite (FAM)-labeled ssDNA. It exhibits good sensitivity and selectivity for Hg(ii) cations over other co-existing metal ions. MNMOF was fabricated by a one-pot synthetic method and it was successfully characterized with various techniques such as UV-visible spectroscopy, fluorescence spectroscopy, Fourier-transform infrared (FT-IR) spectrometry, X-ray diffraction (XRD), scanning electron microscopy (SEM), transmission electron microscopy (TEM) and X-ray photoelectron spectroscopy (XPS). The FAM-labeled ssDNA was adsorbed onto the surface of MNMOF through π-π stacking and electrostatic interactions, which resulted in the partial quenching of its fluorescence intensity (65%). Upon the subsequent addition of Hg(ii) ions, the fluorescence intensity was further quenched at 52%, due to the re-adsorption of dsDNA onto the surface of MNMOF. Thus, the FAM-labeled ssDNA showed a drastic decrease in fluorescence intensity with Hg(ii). This quenching-quenching mechanism led to a linear response in the fluorescence intensity to Hg(ii) concentration (R 2 = 0.934) with a low detection limit of 8 nM. The specific merits of MNMOF make it an ideal platform for mercury sensor applications.

The interaction of an amorphous metal–organic cage-based solid (aMOC) with miRNA/DNA and its application on a quartz crystal microbalance (QCM) sensor

The interaction between an aMOC and miRNA/DNA is studied and the use of the aMOC as an effective amplifier in a QCM sensor to detect miRNA is developed for the first time.

A new amplification strategy for a quartz crystal microbalance miRNA sensor based on selective interactions between a metal–organic framework and miRNA

UiO-66 is used as an effective amplifier in a QCM miRNA sensor to detect Let-7a.

Ensuring high selectivity for preconcentration and detection of ultra-trace cadmium using a phage-functionalized metal–organic framework

A phage functionalized metal–organic framework for selective preconcentration and detection of trace cadmium.

Zirconium metal-organic framework assisted miniaturized solid phase extraction of phenylurea herbicides in natural products by ultra-high-performance liquid chromatography coupled with quadrupole time-of-flight mass spectrometry

The zirconium metal-organic framework (Zr-MOF) was used as a novel and effective adsorbent material for the enrichment of five phenylurea herbicides (fenuron, monuron, diuron, linuron and pencycuron) in natural products. The target analytes were determined by ultra-high-performance liquid chromatography coupled with quadrupole time-of-flight mass spectrometry. Some crucial experimental parameters, such as type of adsorbents, amount of adsorbent, type of eluent solvents and adsorption capacity were investigated and optimized. Under the optimum extraction conditions, the enrichment factors of fenuron, monuron, diuron, linuron and pencycuron were 90, 128, 148, 204 and 295 times, respectively. A good linearity was obtained in different concentration levels of target analytes with the determination coefficients (r²) larger than 0.993. In addition, the limits of detection varied from 0.05 to 0.36 ng/mL and the recoveries of the analytes were in the range of 85.19-99.13 %. The results demonstrated that the proposed miniaturized solid-phase extraction procedure coupled with Zr-MOF could become an effective tool to analyze phenylurea herbicides and would have the vast application prospect for the extraction of pesticide residue and more organic pollutants from Hawthorn, Dendrobii Officinalis Caulis and Salviae Miltiorrhizae Radix et Rhizoma samples.

Thiazole- and Thiadiazole-Based Metal–Organic Frameworks and Coordination Polymers for Luminescent Applications

This mini-review focuses on the 2015–2019 literature survey of thiazole- and thiadiazole-containing Metal–Organic Frameworks (MOFs) and Coordination Polymers (CPs) exploited in the applicative field of luminescent sensing.

Efficient polymerase chain reaction assisted by metal-organic frameworks

As a powerful tool for obtaining sufficient DNA from rare DNA resources, polymerase chain reaction (PCR) has been widely used in various fields, and the optimization of PCR is still in progress due to the dissatisfactory specificity, sensitivity and efficiency. Although many nanomaterials have been proven to be capable of optimizing PCR, their underlying mechanisms are still unclear. So far, the scientifically compelling and functionally evolving metal–organic framework (MOF) materials with high specific surface area, tunable pore sizes, alterable surface charges and favourable thermal conductivity have not been used for PCR optimization. In this study, UiO-66 and ZIF-8 were used to optimize error-prone two round PCR. The results demonstrated that UiO-66 and ZIF-8 not only enhanced the sensitivity and efficiency of the first round PCR, but also increased the specificity and efficiency of the second round PCR. Moreover, they could widen the annealing temperature range of the second round PCR. The interaction of DNA and Taq polymerase with MOFs may be the main reason. This work provided a candidate enhancer for PCR, deepened our understanding on the enhancement mechanisms of nano-PCR, and explored a new application field for MOFs.

Many new materials have the ability to optimize polymerase chain reaction (PCR). Metal-organic frame materials UiO-66 and ZIF-8 can enhance sensitivity, specificity and efficiency of PCR, indicating their potential as PCR enhancers.

Regulating Fluorescent Aptamer-Sensing Behavior of Zeolitic Imidazolate Framework (ZIF-8) Platform via Lanthanide Ion Doping

Nanoscale metal-organic frameworks (NMOFs) have been proved to be effective quenching platforms for fluorescent detection of DNA via fluorophore-quencher pairs. Zeolitic imidazolate framework-8 (ZIF-8) is one type of the most promising NMOFs because of its excellent biocompatibility and easy preparation. However, ZIF-8 is rarely used as platforms for fluorescence sensing of DNA because of its bad fluorescence quenching property. In this study, lanthanide ions were doped into ZIF-8 to regulate its fluorescence quenching behavior. The La³⁺ doped ZIF-8 (ZIF-8-La) showed the best quenching efficiency on dye-labeled DNA. The signal-to-background ratio was around 3 times higher than ZIF-8. Furthermore, a core-shell La³⁺-doped ZIF-8 (CS-ZIF-8-La) was designed to modify more La³⁺ on the surface of ZIF-8. Compared with ZIF-8-La, the CS-ZIF-8-La exhibited the same fluorescence sensing behavior toward positive-dye-labeled DNA, but showed completely contrary quenching property on the negative-dye-labeled DNA. On the basis of this phenomenon, CS-ZIF-8-La was successfully used as quenching platform for designing a ratiometric sensor for DNA and microRNA.

Advances in DNA/RNA detection using nanotechnology

Specific nucleic acid detection in vitro or in vivo has become increasingly important in the discovery of genetic diseases, diagnosing pathogen infection and monitoring disease treatment. One challenge, however, is that the amount of target nucleic acid in specimens is limited. Furthermore, direct sensing methods are also unable to provide sufficient sensitivity and specificity. Fortunately, due to advances in nanotechnology and nanomaterials, nanotechnology-based bioassays have emerged as powerful and promising approaches providing ultra-high sensitivity and specificity in nucleic acid detection. This chapter presents an overview of strategies used in the development and integration of nanotechnology for nucleic acid detection, including optical and electrical detection methods, and nucleic acid assistant recycling amplification strategies. Recent 5 years representative examples are reviewed to demonstrate the proof-of-concept with promising applications for DNA/RNA detection and the underlying mechanism for detection of DNA/RNA with the higher sensitivity and selectivity. Furthermore, a brief discussion of common unresolved issues and future trends in this field is provided both from fundamental and practical point of view.

Luminescent switch sensors for the detection of biomolecules based on metal-organic frameworks

Metal-organic frameworks (MOFs) as sensing materials have experienced explosive growth in recent years due to their intrinsic merits, such as structural diversity, high porosity, large surface area, extraordinary adsorption affinities, etc. Biomolecules such as DNA, protein, and vitamins play vital roles in metabolism. Moreover, the sensitive detection of biomolecules is of importance in the disease prevention and treatment. This review intends to provide an update on the recent progress in the detection of various biomolecules via MOF-based luminescent sensors. MOFs are successful in the detection of DNA, RNA, protein, and other biomolecules. MOF-based luminescent sensors function by utilizing different mechanisms, including luminescent responses of enhancement and quenching, which are defined as "turn-on" and "turn-off" responses, respectively. Then, a short comparison of the "turn-on" and "turn-off" types of sensors is also made.

Fluorescence proximity assay based on a metal–organic framework platform

A novel fluorescence proximity assay (FPA) based on a metal–organic framework (MOF) platform was developed for target protein detection.

Synchronous sensing of three conserved sequences of Zika virus using a DNAs@MOF hybrid: experimental and molecular simulation studies

A metal–organic framework of Cu(ii) has been prepared and impregnated with three dye-labeled DNA sequences. The hybrid material formed is capable of synchronous detection of three conserved Zika virus RNA sequences.

The Fabrication of 2D Cu-Based MOF Nanosheets for DNA Detection

The Cu-based metal–organic framework (MOF) analogues, copper 1,4-benzenedicarboxylate (CuBDC), copper 2,6-naphthalenedicarboxylate (Cu(2,6-NDC)), and copper 1,4-naphthalenedicarboxylate (Cu(1,4-NDC)) MOF nanosheets, are prepared as biosensor nanoplatforms for DNA detection by a spray method. With the ultrathin 2D structure, the fabricated MOF nanosheets exhibited better detection of target DNA, in particular when compared with the corresponding 3D MOF bulky crystals, when used as a DNA biosensor platform. The Cu(1,4-NDC) nanosheets display a distinct sensitivity with a detection limit of 0.3nM and linear range of 0–20nM, and selectivity for the target DNA or target DNA mixture. The feasible biosensor nanoplatform composed of 2D MOF nanosheets broadens the application scope of MOF nanosheets.

Immobilization of ssDNA on a metal–organic framework derived magnetic porous carbon (MPC) composite as a fluorescent sensing platform for the detection of arsenate ions

In this work, we fabricated a metal–organic framework derived magnetic porous carbon (MPC) and with ssDNA achieved specific and efficient recognition of harmful arsenate ions. The detection limit was achieved at 630 pM.

A Novel Fluorescent Biosensor for Adenosine Triphosphate Detection Based on a Metal⁻Organic Framework Coating Polydopamine Layer

In this work, a novel and sensitive fluorescent biosensor based on polydopamine coated Zr-based metal–organic framework (PDA/UiO-66) is presented for adenosine triphosphate (ATP) detection. This PDA/UiO-66 nanoparticle which holds a great potential to be excellent fluorescence quencher can protect the 6-carboxyfluorescein (FAM)-labeled probe from cleaved by DNase I dispersed in solution and the flurescence of labeled FAM is quenched. When ATP molecules exist, aptamers on the PDA/UiO-66 nanoparticles can hybridize with ATP molecule to form complex structure that will be desorbed from the PDA/UiO-66 and digested by DNase I. After that, the released ATP molecule can react with another aptamer on the PDA/UiO-66 complexes, then restarts a new cycle. Herein, the excellent strong fluorescence quenching ability and uploading more amount of aptamer probes of PDA/UiO-66 composites make them efficient biosensors, leading to a high sensitivity with detection limit of 35 nM. Compared with ATP detection directly by UiO-66-based method, the LOD is about 5.7 times higher with PDA/UiO-66 nanoparticle. Moreover, the enhanced biocompatibility and bioactivity with PDA layer of the composites render a proposed strategy for clinical diagnosis field of detecting small biological molecules in vivo in the future.

Nanoscale Metal-Organic Frameworks for Therapeutic, Imaging, and Sensing Applications

Nanotechnology has played an important role in drug delivery and biomedical imaging over the past two decades. In particular, nanoscale metal-organic frameworks (nMOFs) are emerging as an important class of biomedically relevant nanomaterials due to their high porosity, multifunctionality, and biocompatibility. The high porosity of nMOFs allows for the encapsulation of exceptionally high payloads of therapeutic and/or imaging cargoes while the building blocks-both ligands and the secondary building units (SBUs)-can be utilized to load drugs and/or imaging agents via covalent attachment. The ligands and SBUs of nMOFs can also be functionalized for surface passivation or active targeting at overexpressed biomarkers. The metal ions or metal clusters on nMOFs also render them viable candidates as contrast agents for magnetic resonance imaging, computed tomography, or other imaging modalities. This review article summarizes recent progress on nMOF designs and their exploration in biomedical areas. First, the therapeutic applications of nMOFs, based on four distinct drug loading strategies, are discussed, followed by a summary of nMOF designs for imaging and biosensing. The review is concluded by exploring the fundamental challenges facing nMOF-based therapeutic, imaging, and biosensing agents. This review hopefully can stimulate interdisciplinary research at the intersection of MOFs and biomedicine.

Fluorescent Disulfide-functional Coordination Polymers for Sensitive Detection of Hydrogen Peroxide

A new type of fluorescent coordination polymer (NCP_Cd) based on disulfide carboxylate ligand was prepared by using one-pot synthesis for sensitive detection of reactive oxygen species (ROS). With the reaction between NCP_Cd and ROS, the morphology of the NCP_Cd was transformed from nanorods to hexagon particles, then broken into nano-fragments. Meanwhile, the fluorescence of NCP_Cd (at 421 nm) was quenched accordingly. For designing the highly sensitive probe for ROS, Rhodamine 6G (R6G) was doped in NCP_Cd. In the presence of ROS, the fluorescence of NCP_Cd moiety at 421 nm was quenched, but the R6G moiety was released from the broken nanorods and the fluorescence at 555 nm from R6G moiety was recovered. The R6G doped NCP_Cd (NCP_Cd-R) can be used as a highly sensitive and selective probe for hydrogen peroxide (H₂O₂) with detection limit of 12.4 nM. Moreover, the NCP_Cd-R was further extended to the glucose sensing combined with glucose oxidase (GOx) to oxidate glucose and generate H₂O₂, demonstrating the potential for practical applications.

"Three-in-one" Nanohybrids as Synergistic Nanoquenchers to Enhance No-Wash Fluorescence Biosensors for Ratiometric Detection of Cancer Biomarkers

Purpose: Early diagnosis of cancer enables extended survival and reduced symptoms. To this end, a "three-in-one" nanohybrid of MOF@AuNP@GO is designed as synergistic nanoquencher to develop a novel fluorescence biosensor for rapid and sensitive detection of cancer-related biomarkers. Methods: The ssDNA absorption affinities and fluorescence quenching abilities of the MOF@AuNP@GO were evaluated using FAM-labeled single-stranded DNA (ssDNA). Then, two specific dye-labeled ssDNA and aptamer probes were designed for the recognition of p53 gene and prostate specific antigen (PSA), respectively. Fluorescence spectra were recorded and ratiometric signal processing was performed. Results: The designed nanohybrids exhibit enhanced ssDNA binding affinities and fluorescence quenching abilities, which significantly decrease the background signal and increase the signal-to-noise (S/N) ratio, thus lowering the detection limit (LOD). Accordingly, with ratiometric measurement, this developed nanosensor can sensitively measure p53 gene and PSA with LODs of 0.005 nM and 0.01 ng mL-1, respectively. Besides, this method also displays excellent performances with respect to universality, multiplexed detection, specificity, and practicality in human serum. Conclusion: The designed MOF@AuNP@GO-based fluorescence biosensor can serve as a promising platform for washing-free, rapid and sensitive measurement of cancer biomarkers, making this method well-suited for point-of-care (POC) diagnosis.

A novel covalent post-synthetically modified MOF hybrid as a sensitive and selective fluorescent probe for Al3+ detection in aqueous media

A modified MOF named UiO-66-NH₂-SA was synthesized based on the covalent post synthetic attachment of the MOFs (UiO-66-NH₂) and salicylaldehyde via a Schiff-base reaction. The as-prepared functionalized UiO-66-NH₂-SA not only maintains its structural integrity during the PSM process, but also shows excellent luminescence and good fluorescence stability in water. It was further utilized as a novel fluorescent probe for detecting of Al³⁺. The fluorescence intensity of UiO-66-NH₂-SA increased linearly upon increasing the concentration of Al³⁺ in the range of 0-500 μM with a detection limit of 6.98 μM. The possible mechanism is discussed. This study presents a new ratiometric and colorimetric Al³⁺ fluorescent sensor. The good fluorescence stability of UiO-66-NH₂-SA in aqueous media, the low detection limit and the broad linear in sensing Al³⁺ indicate its high potential in practical applications.

Synthesis of spiny metal–phenolic coordination crystals as a sensing platform for sequence-specific detection of nucleic acids

Metal–phenolic coordination crystals with a spiny surface and tunable compositions are synthesized, and can be used as DNA sensors.