Nucleotide and DNA coordinated lanthanides: From fundamentals to applications

MnO2@CeOx-GAMP radiosensitizer with oxygen vacancies depended mimicking enzyme-like activities for radiosensitization-mediated STING pathway activation

Activation of the stimulator of interferon genes (STING) pathway by radiotherapy (RT) has a significant effect on eliciting antitumor immune responses. The generation of hydroxyl radical (·OH) storm and the sensitization of STING-relative catalytic reactions could improve radiosensitization-mediated STING activation. Herein, multi-functional radiosensitizer with oxygen vacancies depended mimicking enzyme-like activities was fabricated to produce more dsDNA which benefits intracellular 2', 3'-cyclic GMP-AMP (cGAMP) generation, together with introducing exogenous cGAMP to activate immune response. MnO2@CeOx nanozymes present enhanced superoxide dismutase (SOD)-like and peroxidase (POD)-like activities due to induced oxygen vacancies accelerate the redox cycles from Ce4+ to Ce3+ via intermetallic charge transfer. CeOx shells not only serve as radiosensitizer, but also provide the conjugation site for AMP/GMP to form MnO2@CeOx-GAMP (MCG). Upon X-ray irradiation, MCG with SOD-like activity facilitates the conversion of superoxide anions generated by Ce-sensitization into H2O2 within tumor microenvironment (TME). The downstream POD-like activity catalyzes the elevated H2O2 into a profusion of ·OH for producing more damage DNA fragments. TME-responsive decomposed MCG could supply exogenous cGAMP, meanwhile the releasing Mn2+ improve the sensitivity of cyclic GMP-AMP synthase to dsDNA for producing more cGAMP, resulting in the promotion of STING pathway activation.

Programmable Lanthanide Metal-Organic Framework for Ultra-Efficient Nucleic Acids Extraction and Interaction Analysis

Efficient, mild, and reversible adsorption of nucleic acids onto nanomaterials represents a promising analytical approach for medical diagnosis. However, there is a scarcity of efficient and reversible nucleic acid adsorption nanomaterials. Additionally, the lack of comprehension of the molecular mechanisms governing their interactions poses significant challenges. These issues hinder the rational design and analytical applications of the nanomaterials. Herein, we propose an ultra-efficient nucleic acid affinity nanomaterial based on programmable lanthanide metal-organic frameworks (Ln-MOFs). Through experiments and density functional theory calculations, a rational design guideline for nucleic acid affinity of Ln-MOF was proposed, and a modular and flexible preparation scheme was provided. Then, Er-TPA (terephthalic acid) MOF emerged as the optimal candidate due to its pore size-independent adsorption and desorption capabilities for nucleic acids, enabling ultra-efficient adsorption (about 150% mass ratio) within 1 min. Furthermore, we elucidate the molecular-level mechanisms underlying the Ln-MOF adsorption of single- and double-stranded DNA and G4 structures. The affinity nanomaterial based on Ln-MOF exhibits robust nucleic acid extraction capability (4-fold higher than commercial reagent kits) and enables mild and reversible CRISPR/Cas9 functional regulation. This method holds significant promise for broad application in DNA/RNA liquid biopsy and gene editing, facilitating breakthroughs in analytical chemistry, pharmacy, and medical research.

A Nanoscale Trans-Platinum(II)-Based Supramolecular Coordination Self-Assembly with a Distinct Anticancer Mechanism

Drug resistance significantly hampers the clinical application of existing platinum-based anticancer drugs. New platinum medications that possess distinct mechanisms of action are highly desired for the treatment of Pt-resistant cancers. Herein, a nanoscale trans-platinum(II)-based supramolecular coordination self-assembly (Pt-TCPP-BA) is prepared via using trans-[PtCl2(pyridine)(NH3)] (transpyroplatin), tetracarboxylporphyrin (TCPP), and benzoic acid (BA) as building blocks to combat drug resistance in platinum-based chemotherapy. Mechanistic studies indicate that Pt-TCPP-BA shows a hydrogen-peroxide-responsive dissociation behavior along with the generation of bioactive trans-Pt(II) and TCPP-Pt species. Different from cisplatin, these degradation products interact with DNA via interstrand cross-links and small groove binding, and induce significant upregulation of cell-death-related proteins such as p53, cleaved caspase 3, p21, and phosphorylated H2A histone family member X in cisplatin-resistant cancer cells. As a result, Pt-TCPP-BA exhibits potent killing effects against Pt-resistant tumors both in vitro and in vivo. Overall, this work not only provides a new platinum drug for combating drug-resistant cancer but also offers a new paradigm for the development of platinum-based supramolecular anticancer drugs.

Self-Calibrating Lanthanide Infinite Coordination Polymer Constructs Fluorescent Probes: A Sensitive Approach for Early Diagnosis of Hepatocellular Carcinoma and Environmental Analysis

The development of a self-calibrating ratio fluorescence probe without the need for additional substrates is a major advancement in biosensing. In this study, at room temperature, a self-calibrating infinite coordination polymer (SSA-Tb-ATP ICPs) has been proposed by self-assembling adenosine triphosphate (ATP) with 5-sulfosalicylic acid (SSA) and Tb3+. Due to the antenna effect, SSA-Tb-ATP ICPs exhibited strong green fluorescence emission of Tb3+ (at 547 nm) and blue fluorescence emission of SSA (at 407 nm). This material offers several advantages over existing detection methods, including simplicity of synthesis and exceptional sensitivity. Our self-calibrating SSA-Tb-ATP ICPs demonstrated excellent performance in detecting alkaline phosphatase (ALP) and phosphate (Pi) in both serum and environmental samples with detection limits of 0.076 U/L and 0.025 μM, respectively. Moreover, we successfully employed the SSA-Tb-ATP ICPs to perform cellular imaging of ALP in both hepatocellular carcinoma cells (HepG2) and normal liver cells (LO2), representing a significant advancement in ALP detection and imaging. The simplicity of the synthesis and high sensitivity make this probe a promising tool for early diagnosis of hepatocellular carcinoma in clinical settings and environment analysis.

Spectroscopic and molecular modeling studies of binding interaction between the new complex of yttrium and 1,10-phenanthroline derivatives with DNA and BSA

In this study, the 4,9 diazafluoren-9-one ligand and [Y(Daf)2Cl3.OH2] complex were synthesized. The interaction of this complex with DNA and bovine serum albumin (BSA) was investigated by UV-vis and fluorescence spectroscopy. The molecular docking method was used to confirm the experimental results, investigate the type of interaction, and determine the binding site. The binding constant and Stern-Volmer constant were calculated using spectroscopy techniques. The binding constant of the Y-complex with DNA and BSA obtained using the UV-vis technique was 1.61 × 105 M-1 and 0.49 × 105 M-1, while that obtained using the fluorescence method was 3.39 × 105 M-1 and 3.63 × 105 M-1, respectively. The results of experimental and theoretical data showed that the interaction between the yttrium complex and DNA and BSA is driven by the hydrogen bond and van der Waals interaction, respectively. The yttrium complex communicates with DNA via the groove interaction. This complex has high binding energy with bovine serum albumin. In addition, the molecular docking results showed that the complex binds to the IIA subdomain of BSA (site I). Finally, anticancer activity of the yttrium complex was studied on MCF-7 and A549 cell lines by using the MTT method. The IC50 values obtained showed that the yttrium complex possesses anticancer activity.

Metallic nanoplatforms for COVID-19 diagnostics: versatile applications in the pandemic and post-pandemic era

The COVID-19 pandemic, which originated in Hubei, China, in December 2019, has had a profound impact on global public health. With the elucidation of the SARS-CoV-2 virus structure, genome type, and routes of infection, a variety of diagnostic methods have been developed for COVID-19 detection and surveillance. Although the pandemic has been declared over, we are still significantly affected by it in our daily lives in the post-pandemic era. Among the various diagnostic methods, nanomaterials, especially metallic nanomaterials, have shown great potential in the field of bioanalysis due to their unique physical and chemical properties. This review highlights the important role of metallic nanosensors in achieving accurate and efficient detection of COVID-19 during the pandemic outbreak and spread. The sensing mechanisms of each diagnostic device capable of analyzing a range of targets, including viral nucleic acids and various proteins, are described. Since SARS-CoV-2 is constantly mutating, strategies for dealing with new variants are also suggested. In addition, we discuss the analytical tools needed to detect SARS-CoV-2 variants in the current post-pandemic era, with a focus on achieving rapid and accurate detection. Finally, we address the challenges and future directions of metallic nanomaterial-based COVID-19 detection, which may inspire researchers to develop advanced biosensors for COVID-19 monitoring and rapid response to other virus-induced pandemics based on our current achievements.

Studying the interaction between the new neodymium (Nd) complex with the ligand of 1,10-phenanthroline with FS-DNA and BSA

To learn more about the chemotherapeutic and pharmacokinetic properties of a neodymium complex containing 1,10-phenanthroline (dafone), In vitro binding was investigated with bovine serum albumin and fish-salmon DNA, using a variety of molecular modeling research and biophysical approaches. A variety of spectroscopic techniques including fluorescence and absorption were used to investigate the interplay between DNA/BSA and the neodymium complex. The findings revealed that the Nd complex had a high affinity for BSA and DNA interplays through van der Waals powers. In addition, the binding of the Nd complex to FS-DNA mainly in the groove binding mode clearly reflects with iodide quenching studies, ethidium bromide (EtBr) exclusion assay, ionic strength effect, and viscosity studies. It was observed that the Nd complex binds to FS-DNA through a minor groove with 3.81 × 105 (M-1). Also, Kb for BSA at 298 K was 5.19×105 (M-1), indicating a relatively high affinity of the Nd complex for DNA and BSA. In addition, a competitive study of a docking investigation revealed that the neodymium complex interacts at BSA site III. The results obtained from the binding calculations are well consistent with the experimental findings. Also, cytotoxicity studies of Nd complex were performed in MCF-7 and A-549 cell lines and the results show that this new complex has a selective inhibitory effect on the growth of various cancer cells.

A biomineralized bi-functional hybrid nanoflower to effectively combat bacteria via a glucose-powered cascade catalytic reaction

The bacterial resistance due to the abuse of conventional antibiotics is regarded as a major problem for bacterial-induced infections and chronic wound healing. There is an urgent need to explore alternative antimicrobial strategies and functional materials with excellent antibacterial efficacy. Herein, guanosine monophosphate (GMP) and glucose oxidase (GOD) were coordinated with copper ions to obtain a bi-functional hybrid nanoflower (Cu-GMP/GODNF) as a cascade catalyst for promoting antibacterial efficacy. Besides the efficient conversion of glucose to hydrogen peroxide, the produced gluconic acid by loading GOD can supply a compatible catalytic environment to substantially improve the peroxidase activity for generating more toxic reactive oxygen species (ROS). So, the glucose-powered cascade catalytic reaction effectively killed bacteria. Moreover, H₂O₂ self-supplied by glucose can reduce harmful side effects of exogenous H₂O₂. Meanwhile, the adhesion between the Cu-GMP/GODNF and the bacterial membrane can enhance the antibacterial efficacy. Therefore, the achieved bi-functional hybrid nanoflower exhibited high efficiency and biocompatibility for killing bacteria in diabetes-related infections.

Synthesis and characterization of two self-assembled [Cu6Gd3] and [Cu5Dy2] complexes exhibiting the magnetocaloric effect, slow relaxation of magnetization, and anticancer activity

Two new paths for coordination driven self-assembly reactions under the binding support of 2-((1-hydroxy-2-methylpropan-2-ylimino)methyl)-6-methoxyphenol (H₂L) have been discovered from the reactions of Cu(ClO₄)₂·6H₂O, NEt₃ and GdCl₃/DyCl₃·6H₂O in MeOH/CHCl₃ (2 : 1) medium. A similar synthetic protocol is useful to provide two different types of self-aggregated molecular clusters [Cu₆Gd₃(L)₃(HL)₃(μ₃-Cl)₃(μ₃-OH)₆(OH)₂]ClO₄·4H₂O (1) and [Cu₅Dy₂(L)₂(HL)₂(μ-Cl)₂(μ₃-OH)₄(ClO₄)₂(H₂O)₆](ClO₄)₂·2NHEt₃Cl·21H₂O (2). The adopted reaction procedure established the importance of the HO^- and Cl^- ions in the mineral-like growth of the complexes, derived from solvents and metal ion salts. In the case of complex 1, one Gd^III center has been trapped at the central position of the core upheld by six μ₃-OH and three μ₃-Cl groups, whereas for complex 2 one Cu^II center was trapped using four μ₃-hydroxo and two μ-chlorido groups. The magnetothermal behavior of 1 has been examined for a magnetocaloric effect of -ΔS_m = 11.3 J kg^-1 K^-1 at 2 K for ΔH = 7 T, whereas the magnetic susceptibility measurements of 2 showed slow magnetic relaxation with U_eff = 15.8 K and τ₀ = 9.8 × 10^-7 s in zero external dc field. Cancer cell growth inhibition studies proved the potential of both the complexes with interestingly high activity for the Cu₆Gd₃ complex against human lung cancer cells. Both complexes 1 and 2 also exhibited DNA and human serum albumin (HSA) binding abilities in relation to the involved binding sites and thermodynamics.

A fluorescent and scattering dual-mode probe based on a carbon dot@cerium-guanosine monophosphate coordination polymer network for tetracycline detection

Dual-mode sensing with a two-signal read-out is conducive to the improvement of detection accuracy. Herein, a fluorescent and scattering dual-mode chemosensor for tetracycline (TC) is proposed based on a carbon dot@cerium-guanosine monophosphate (CD@GMP-Ce) coordination polymer network. The inexpensive CD@GMP-Ce was prepared by exploiting the adaptive inclusion capability of coordination polymers and possessed remarkable fluorescence and strong Rayleigh scattering. The functional CD@GMP-Ce demonstrated fluorescence and scattering, the two optical-signal responses to TC simultaneously. Based on TC-specific fluorescence and scattering decline, the dual-mode detection of TC was established and the probe's detection limits were 43 nM in the fluorescence mode and 77 nM in the scattering mode, respectively. Furthermore, the potential application of the dual-mode sensor was verified by measuring TC in milk and tap-water samples. The study not only provides a new perspective for the development of assay methods for TC but also expands the applications of cerium coordination polymers.

Metal-Organic Cage as Single-Molecule Carrier for Solid-State Nanopore Analysis

The ability to detect biomolecules at the single-molecule level is at the forefront of biological research, precision medicine, and early diagnosis. Recently, solid-state nanopore sensors have emerged as a promising technique for label-free and precise diagnosis assay. However, insufficient sensitivity and selectivity for small analytes are a great challenge for clinical diagnosis applications via solid-state nanopores. Here, for the first time, a metal-organic cage, PCC-57, is employed as a carrier to increase the sensitivity and selectivity of solid-state nanopores based on the intrinsic interaction of the nanocage with biomolecules. Firstly, it is found that the carrier itself is undetectable unless bound with the target analytes and used oligonucleotides as linkers to attach PCC-57 and target analytes. Secondly, two small analytes, oligonucleotide conjugated angiopep-2 and polyphosphoric acid, are successfully distinguished using the molecular carrier. Finally, selectivity of nanopore detection is achieved by attaching PCC-57 to oligonucleotide-tailed aptamers, and the human alpha-thrombin sample is successfully detected. It is believed that the highly designable metal-organic cage could serve as a rich carrier repository for a variety of biomolecules, facilitating single-molecule screening of clinically relevant biomolecules based on solid-state nanopores in the future.

Heavy Metal Ions Detection Using Nanomaterials-Based Aptasensors

Heavy metals ions as metallic pollutants are a growing global issue due to their adverse effects on the aquatic ecosystem, and human health. Unfortunately, conventional detection methods such as atomic absorption spectrometry exhibit a relatively low limit of detection and hold numerous disadvantages, and therefore, the development of an efficient method for in-situ and real-time detection of heavy metal residues is of great importance. The aptamer-based sensors offer distinct advantages over antibodies and emerged as a robust sensing platform against various heavy metals due to their high sensitivity, ease of production, simple operations, excellent specificity, better stability, low immunogenicity, and cost-effectiveness. The nucleic acid aptamers in conjugation with nanomaterials can bind to the metal ions with good specificity/selectivity and can be used for on-site monitoring of metal ion residues. This review aimed to provide background information about nanomaterials-based aptasensor, recent advancements in aptamer conjunction on nanomaterials surface, the role of nanomaterials in improving signal transduction, recent progress of nanomaterials-based aptasening procedures (from 2010 to 2022), and future perspectives toward the practical applications of nanomaterials-based aptasensors against hazardous metal ions for food safety and environmental monitoring.

Iron-doped cerium/nucleotide coordination polymer as highly efficient peroxidase mimic for colorimetric detection of fluoride ion

A new coordination polymer (Ce-Fe-GMP) with excellent catalytic activity was prepared by a facile route, which was further applied to the detection of F^- with high sensitivity and selectivity. The simple doping of Fe³⁺ into the coordination network can easily modulate the mixing ratio of Ce³⁺ and Ce⁴⁺ in the presence of H₂O₂, which can extremely improve the catalytic ability of Ce-Fe-GMP. Based on the synergistic effect, the Ce-Fe-GMP with dual-active sites shows better peroxidase activity than that of Ce-GMP. In addition, we found that F^- can inhibit the peroxidase activity of Ce-Fe-GMP because of the coordination structure fragmentation and the regulation of Ce³⁺/Ce⁴⁺ ratio. Therefore, different concentrations of F^- can be detected by the colorimetric reaction based on this mechanism. The absorption at 652 nm displays a good linear relationship versus the concentration of F^- over the range 2.0 to 100.0 μM. Furthermore, F^- in real mineral-mixed samples can be measured with satisfactory results. The colorimetric strategy based on the peroxidase activity of Ce-Fe-GMP is simple and low-cost, which shows the potential applications in the field of on-site environment measurement.

Encapsulation of lipases by nucleotide/metal ion coordination polymers: enzymatic properties and their applications in glycerolysis and esterification studies

BACKGROUND

In the present study, lipases of TLL (lipase from Thermomyces lanuginosus), AOL (lipase from Aspergillus oryzae), RML (lipase from Rhizomucor miehei), BCL (lipase from Burkholderia cepacia), CALA (Candida antarctica lipase A) and LU (Lecitase® Ultra) were encapsulated into nucleotide-hybrid metal coordination polymers (CPs). Enzyme concentration was optimized for encapsulation and the enzymatic properties of the obtained lipases were investigated. In addition, their performance in glycerolysis and esterification was evaluated, and glycerolysis conditions (water content, temperature and time) were optimized.

RESULTS

Hydrolysis activity over 10 000 U g^-1 and activity recovery over 90% were observed from AOL@GMP/Tb, TLL@GMP/Tb and RML@GMP/Tb. GMP/Tb encapsulation (of AOL, TLL, RML and LU) improved their thermostability when incubated in air. The encapsulated lipases exhibited moderate [triacylglycerols (TAG) conversion 30-50%] and considerable glycerolysis activity (TAG conversion over 60%). TAG conversions from 69.37% to 82.35% and diacylglycerols (DAG) contents from 58.62% to 64.88% were obtained from CALA@GMP/metal samples (except for CALA@GMP/Cu). Interestingly, none of the encapsulated lipases initiated the esterification reaction. AOL@GMP/Tb, TLL@GMP/Tb, RML@GMP/Tb and CALA@GMP/Tb showed good reusability in glycerolysis, with 88.80%, 94.67%, 89.85% and 78.16% of their initial glycerolysis activity, respectively, remaining after five cycles of reuse. The relationships between temperature and TAG conversion were LnV₀  = 6.5364-3.7943/T and LnV₀  = 13.8820-6.4684/T for AOL@GMP/Tb and CALA@GMP/Tb, respectively; in addition, their activation energies were 31.55 and 53.78 kJ mol^-1 , respectively.

CONCLUSION

Most of the present encapsulated lipases exhibited moderate and considerable glycerolysis activity. In addition, AOL@GMP/Tb, TLL@GMP/Tb, RML@GMP/Tb and CALA@GMP/Tb exhibited good reusability in glycerolysis reactions and potential in practical applications. © 2022 Society of Chemical Industry.

Universal "Three-in-One" Matrix to Maximize Reactive Oxygen Species Generation from Food and Drug Administration-Approved Photosensitizers for Photodynamic Inactivation of Biofilms

Biofilms, an accumulation of microorganisms, cause persistent bacterial infection and low cure rate due to the remarkable drug resistance. Photodynamic inactivation (PDI) is a promising treatment modality for bacterial infections, but the formation of biofilms raises new challenges for photosensitizers (PSs), particularly the reactive oxygen species (ROS) generation efficiency. Herein, through targeting the Jablonski energy diagram, we proposed a universal "three-in-one" matrix of Gd³⁺-ADP assembly for encapsulation and fixing of PSs to inhibit non-radiative transitions and promoting intersystem crossing (ISC) by the heavy atom and paramagnetic effects of Gd³⁺, eventually resulted in boosted ROS generation from the existing PSs (1.5-9.0-fold). Particularly, photophysical studies indicated that the matrix resulted in simultaneous ISC promotion and triplet-state lifetime lengthening, which is essential for ROS boosting. The PDI performance of the matrix was confirmed through fast and effective elimination of bacterial biofilms in 10-30 min. Moreover, successful therapy of a Pseudomonas aeruginosa biofilm-infected all-thickness third-degree burn wound was achieved within 11 days with Ce 6@CNs (matrix) but not feasible for matrix-free PSs (Ce 6 only), which highlighted the role of "three-in-one" matrix in ROS boosting.

Encapsulation of CALB by nucleotide/metal ions coordination nanoparticles: highly selective catalysis of esterification while poor performance in glycerolysis reaction

BACKGROUND

Enzymatic esterification is attracting for particular high-acid oil deacidification. In this study, Candida antarctica lipase B (CALB) was encapsulated into a series of nucleotide-hybrid metal coordination polymers (CPs), which were constructed by guanosine 5'-monophosphate (GMP) and various metals.

RESULTS

We here found that, most of the present CPs encapsulated CALB (CALB@CPs) samples were highly selective for esterification while poor in glycerolysis reaction. They exhibited quite poor performance in glycerolysis, with triacylglycerols (TAGs) conversion lower than 5%, despite this considerable enzymatic hydrolysis activities were observed. However, they (most of them) showed good performance in esterification of fatty acids and glycerol for TAG synthesis. In addition, the GMP/Tb (CPs constructed by GMP and Tb³⁺ ) encapsulated CALB (CALB@GMP/Tb) transformed over 98% of oleic acid into glycerides in the high-acid oil deacidification process, and TAG content from 87 to 89% was obtained. Moreover, the CALB@GMP/Tb showed good reusability in the esterification system.

CONCLUSION

The present CALB@CPs samples are selective for esterification and suitable for high-acid oils deacidification. This work provides a new system for enzymatic selectivity improvement study. © 2021 Society of Chemical Industry.

Molecular Probes, Chemosensors, and Nanosensors for Optical Detection of Biorelevant Molecules and Ions in Aqueous Media and Biofluids

Synthetic molecular probes, chemosensors, and nanosensors used in combination with innovative assay protocols hold great potential for the development of robust, low-cost, and fast-responding sensors that are applicable in biofluids (urine, blood, and saliva). Particularly, the development of sensors for metabolites, neurotransmitters, drugs, and inorganic ions is highly desirable due to a lack of suitable biosensors. In addition, the monitoring and analysis of metabolic and signaling networks in cells and organisms by optical probes and chemosensors is becoming increasingly important in molecular biology and medicine. Thus, new perspectives for personalized diagnostics, theranostics, and biochemical/medical research will be unlocked when standing limitations of artificial binders and receptors are overcome. In this review, we survey synthetic sensing systems that have promising (future) application potential for the detection of small molecules, cations, and anions in aqueous media and biofluids. Special attention was given to sensing systems that provide a readily measurable optical signal through dynamic covalent chemistry, supramolecular host-guest interactions, or nanoparticles featuring plasmonic effects. This review shall also enable the reader to evaluate the current performance of molecular probes, chemosensors, and nanosensors in terms of sensitivity and selectivity with respect to practical requirement, and thereby inspiring new ideas for the development of further advanced systems.

Organic-Inorganic Hybrid Luminescent Hydrogel Glued by a Cationic Polymeric Binder

Luminescent hydrogels have shown great potential in many fields, such as lighting, display, imaging, and sensing, because of their unique optical properties, biocompatibility, and easy processing. Organic-inorganic hybrid self-assembly can not only enhance the hydrogels' mechanical strength, but also retain their self-healing ability. Herein, a luminescent supramolecular hydrogel is reported, which is formed via self-assembly of the negatively charged Laponite nanosheets and cationic lanthanide coordination polymer. The corresponding results reveal that the multiple binding interaction between Laponite and the polymeric binder is vital for improving the mechanical performance of the obtained luminescent supramolecular hydrogel.

Zn2+ -Coordination-Driven RNA Assembly with Retained Integrity and Biological Functions

Metal-coordination-directed biomolecule crosslinking in nature has been used for synthesizing various biopolymers, including DNA, peptides, proteins, and polysaccharides. However, the RNA biopolymer has been avoided so far, as due to the poor stability of the RNA molecules, the formation of a biopolymer may alter the biological function of the molecules. Herein, for the first time, we report Zn²⁺ -driven RNA self-assembly forming spherical nanoparticles while retaining the integrity and biological function of RNA. Various functional RNAs of different compositions, shapes, and lengths from 20 to nearly 1000 nucleotides were used, highlighting the versatility of this approach. The assembled nanospheres possess a superior RNA-loading efficiency, pharmacokinetics, and bioavailability. In-vitro and in-vivo evaluation demonstrated mRNA delivery for expressing GFP proteins, and microRNA delivery to triple-negative breast cancer. This coordination-directed self-assembly behavior amplifies the horizons of RNA coordination chemistry and the application scope of RNA-based therapeutics.

Metal-Doped Polydopamine Nanoparticles for Highly Robust and Efficient DNA Adsorption and Sensing

Controlling DNA adsorption on nanomaterials is crucial for a wide range of applications in analytical and biomedical sciences. Polydopamine (PDA) is a versatile material that can be coated on nearly any surface, and thus adsorbing DNA onto PDA can be a general method for indirect DNA functionalization of surfaces. Polyvalent metal ions were reported to promote DNA adsorption on PDA nanoparticles (NPs), but previous works added the metal ions after the formation of PDA. Herein, we compared the effect of polyvalent metal ions added during the synthesis of PDA NPs (called metal-doped) with the effect of polyvalent metal ions added after the synthesis (metal-adsorbed). A series of metal ions including Ca²⁺, Zn²⁺, Ni²⁺, Fe³⁺, and Gd³⁺ were tested, and Zn²⁺ was studied in detail due to its excellent ability for promoting DNA adsorption. With 100 μM Zn²⁺, metal-doped NPs were ∼30% more efficient than metal-adsorbed NPs for DNA adsorption in buffer attributable to a higher metal loading on the surface of the metal-doped NPs. Metal leaching was negligible from the metal-doped NPs, and they showed a remarkably higher robustness than the metal-adsorbed NPs, resulting in a 20-fold higher DNA extraction efficiency from serum. Based on the desorption studies, a higher adsorption affinity for the metal-doped NPs was confirmed. Finally, the Zn²⁺-doped PDA NPs were used for sensitive DNA detection with a limit of detection of 0.45 nM, and the sensor was highly resistant to nonspecific protein and phosphate displacement.

A Nanoporous Supramolecular Metal-Organic Framework Based on a Nucleotide: Interplay of the π···π Interactions Directing Assembly and Geometric Matching of Aromatic Tails

Self-assembly is the most powerful force for creating ordered supramolecular architectures from simple components under mild conditions. π···π stacking interactions have been widely explored in modern supramolecular chemistry as an attractive reversible noncovalent tool for the nondestructive fabrication of materials for different applications. Here, we report on the self-assembly of cytidine 5’-monophosphate (CMP) nucleotide and copper metal ions for the preparation of a rare nanoporous supramolecular metal-organic framework in water. π···π stacking interactions involving the aromatic groups of the ancillary 2,2’-bipyridine (bipy) ligands drive the self-assemblies of hexameric pseudo-amphiphilic [Cu6(bipy)6(CMP)2(µ-O)Br4]²⁺ units. Owing to the supramolecular geometric matching between the aromatic tails, a nanoporous crystalline phase with hydrophobic and hydrophilic chiral pores of 1.2 and 0.8 nanometers, respectively, was successfully synthesized. The encoded chiral information, contained on the enantiopure building blocks, is transferred to the final supramolecular structure, assembled in the very unusual topology 8T6. These kinds of materials, owing to chiral channels with chiral active sites from ribose moieties, where the enantioselective recognition can occur, are, in principle, good candidates to carry out efficient separation of enantiomers, better than traditional inorganic and organic porous materials.

Colorimetric recognition of lanthanide ions with a complexometric indicator array

A colorimetric sensor array based on complexometric indicators is proposed for pattern recognition of lanthanide ions. The complexometric indicators have abundant functional groups and can act as a platform for chromogenic reaction with various metal ions, including lanthanide ions. The subtle difference of the lanthanide ions' structure results in the difference of absorbance response between lanthanide ions and two chromogenic indicators (Alizarin Red and Erichrome Black T) in Tris-HCl buffer with two different pHs (i.e., pH 7.4 and pH 8.5, colorimetric sensor array). Fourteen lanthanide ions were distinguished well with the newly designed colorimetric sensor array. The sensor array has the potential to distinguish between different concentrations of lanthanide ions and their mixtures. Moreover, the results in actual samples indicate the future practical applications of this sensor array in environmental analysis.

Nucleoside-based fluorescent carbon dots for discrimination of metal ions

Carbon dots (Cdots) play an important role in many biological and chemical applications. To prepare strongly fluorescent Cdots, the starting material should contain nitrogen in addition to carbon. Nucleobases are nitrogen rich with interesting metal binding properties. In this work, we prepared a series of Cdots with citrate as the carbon source, and ethylenediamine, adenosine, cytidine, thymidine or guanosine as the respective nitrogen sources. The resulting Cdots were all fluorescent with the ethylenediamine sample being the most strongly emissive. These Cdots were then tested for their metal sensitivity and all tested metal ions can quench their fluorescence. The fluorescence of the G-Cdots prepared with guanosine was quenched most efficiently by Cu2+, while the Cdots prepared with ethylenediamine were more sensitive to Hg2+. With the differential quenching by different metal ions, we prepared a sensor array to discriminate multiple metal ions, and quantified Cu2+ and Hg2+ at the same time. Our work has expanded the range of starting materials for preparing Cdots and showed that by tuning the precursor composition, Cdots with different optical and metal binding properties can be obtained, which is useful in constructing a sensing platform for a large number of metal ions.

Controllable synthesis of two adenosine 5'-monophosphate nucleotide coordination polymers via pH regulation: crystal structure and chirality

Two types of Cu(ii)-AMP-4,4'-bipy coordination polymers, {[Cu(AMP)(4,4'-bipy)(H₂O)₃]·5H₂O}n (1) and {[Cu₂(HAMP)₂(4,4'-bipy)₂(H₂O)₄]·2NO₃·11H₂O}n (2) (Na₂AMP = adenosine 5'-monophosphate disodium salt), were synthesised through pH control. X-ray single-crystal diffraction analysis revealed that 1 and 2 are one-dimensional (1D) coordinating coordination polymers. The nucleotide in 1 was not protonated whereas that in 2 was protonated. With the protonated NO₃^- in 2 entering the crystal lattice, it plays a role in balancing the charge. The chirality was studied using solid-state circular dichroism (CD) spectroscopy based on the analysis of crystal structures.

In vitro selection and application of lanthanide-dependent DNAzymes

Highly sensitive and selective detection of lanthanide ions is a major analytical challenge. In recent years, the use of DNA for this purpose has been pursued. For such highly charged cations, it is difficult to select their aptamers due to strong nonspecific binding. On the other hand, the use of catalytic DNA or DNAzymes has an advantage to overcome this problem, especially DNAzymes with RNA-cleaving activity. In this chapter, a few such DNAzymes are introduced and methods for in vitro selection of lanthanide-dependent RNA-cleaving DNAzymes are described in detail, including the selection protocols, the DNA sequences used, the characterization of selected DNAzymes and their conversion into biosensors. All of the experiments use only fluorophore-labeled DNA, and radioisotope labeling is completely avoided. The resulting DNAzymes can distinguish lanthanides from non-lanthanide metals, tell the difference between light and heavy lanthanides, and can be used together to discriminate individual lanthanides.

Metalloenzyme-mimic innate G-quadruplex DNAzymes using directly coordinated metal ions as active centers

G-quadruplex DNAs (G4s) have been reported to exhibit the DNAzyme activities by binding with some metal complexes and functional organic ligands. However, there is a challenge to develop metalloenzyme-mimic G4-based innate DNAzymes using the complexed metal ions directly serving as the active centers. This will diversify DNAzymes for developing novel devices since G4 structures are more polymorphic than the other DNA foldings. In this work, we found that the lanthanide trivalent cerium ion of Ce3+ can bind to the human telomere G4 (htG4) according to a 1 : 2 binding mode favorable for creating metalloenzymes-mimic G4 DNAzymes. This Ce3+-G4 entity exhibits a peroxidase activity towards the oxidation of the substrate of 3,3,5,5-tetramethylbenzidine (TMB) by hydrogen peroxide. The 5' G4 tetrads with the orderly arranged carbonyl oxygen atoms are believed to be the coordination sites for Ce3+ and favor the conversion between Ce3+ and Ce4+. Our work provides an alternative feasibility in developing the G4-based innate DNAzymes for variant applications.

A smartphone-based platform for point-of-use determination of alkaline phosphatase as an indicator of water eutrophication

A smartphone-based detection platform for the determination of alkaline phosphatase (ALP) is described. The method is based on the rational design of the stimulus-response of 7-methoxycoumarin-3-carboxylic acid (7-MC-3-COOH)-functionalized Eu-AMP infinite coordination polymer (ICP) nanoparticles. The blue fluorescence of 7-MC-3-COOH at 403 nm was suppressed, while the red fluorescence of Eu³⁺ at 615 nm was sensitized after the formation of 7-MC-3-COOH@Eu-AMP ICP. Upon exposure to ALP, the dephosphorylation of AMP resulted in the destruction of 7-MC-3-COOH@Eu-AMP ICP, and thereby, the blue fluorescence of 7-MC-3-COOH recovered; in the meantime, the sensitized red fluorescence was quenched. With the fluorescence intensity ratio F₆₁₅/F₄₃₀ as the signal readout, ALP can be detected within a concentration range 0.001 to 0.15 U mL^-1, and the limit of detection (LOD) was 0.00035 U mL^-1. Moreover, fluorescence color changes from red to blue could also be recognized by a portable device with the smartphone as a signal reader, and direct point-of-use testing (POUT) for ALP within a concentration range 0.005 to 0.7 U mL^-1 could be realized, with LOD of 0.0015 U mL^-1. Endowed with high sensitivity and superior reliability, the assay enabled direct monitoring of P-related water eutrophication in a freshwater lake with ALP as an indicator. Graphical abstract A smartphone-based platform for point-of-use determination of alkaline phosphatase.

Europium-Pyridinedicarboxylate-Adenine Light-Up Fluorescence Nanoprobes for Selective Detection of Phosphate in Biological Fluids

Phosphate (Pi) plays important roles in various physiological processes. Its quantification in biological fluids is highly crucial for timely warning of Pi accumulation. Herein, an europium (Eu)-based coordination polymer nanoprobe (Eu/DPA/Ade) is prepared by coordinating 2,6-pyridinedicarboxylic acid (2,6-DPA) and adenine (Ade) with Eu³⁺. Eu/DPA/Ade exhibits light-up fluorescence response to Pi. The strong coordinating interaction between Eu³⁺ and O atoms in the Pi group not only shortens the Eu³⁺-ligand distance to improve the energy transfer from 2,6-DPA to Eu³⁺ but also attenuates the fluorescence quenching from water molecules in the coordinating sphere of Eu³⁺. Eu/DPA/Ade produces red emission at λ_em 618 nm via the "antenna effect". The coligand Ade further promotes the fluorescent emission. The selective recognition of Pi within 10-60 μM is achieved with a detection limit of 4.65 μM. In addition, a certain level of Pi (100-170 μM) causes an exponential increment on the fluorescence of Eu/DPA/Ade and makes it feasible for visual estimation of Pi under irradiation by an ultraviolet lamp at 254 nm. The quantitative detection and visual estimation of Pi in human urine and saliva have been demonstrated.

A high local DNA concentration for nucleating a DNA/Fe coordination shell on gold nanoparticles

Preparing DNA/Fe coordination nanoparticles in solution requires a high concentration of DNA. Herein we grew a DNA/Fe shell on DNA-functionalized gold nanoparticles. Taking advantage of the high local DNA density, the required DNA concentration decreased 60-fold, and the size can be controlled. This hybrid material allowed drug loading and colorimetric sensing.

Incorporating a Tetrapeptide into Lyotropic Direct Hexagonal Mesophase

An approach to incorporate a bioactive hydrophobic substance, C₂₂H₃₂N₄O₇ tetrapeptide (TP), into the structure of the hexagonal mesophases C₁₂EO₁₀/H₂O and C₁₂EO₁₀/La(III)/H₂O was proposed. Concentration and temperature ranges of mesophases in the C₁₂EO₁₀/H₂O/TP and C₁₂EO₁₀/La(III)/H₂O/TP systems were established. The analysis of the X-ray diffraction data revealed a change in the structural characteristics of mesophases in the presence of tetrapeptide. Formation of a denser packing of molecules in the mesophases with TP was detected. Based on the FTIR spectroscopy data, intermolecular changes in the systems were examined. Pulsed-gradient spin-echo NMR self-diffusion experiments were performed to characterize the structure of lyomesophases depending on system composition and temperature. The degree of hydration of water molecules in lyomesophases was analyzed. The data confirmed successful incorporation of tetrapeptide into the structure of lyomesophase and, therefore, the possibility of using hexagonal mesophases for both incapsulation and delivery of biomolecules.

Yttrium Oxide as a Strongly Adsorbing but Nonquenching Surface for DNA Oligonucleotides

A large number of nanomaterials can strongly adsorb DNA and quench fluorescence, such as graphene oxide, gold nanoparticles, and most metal oxides. On the other hand, noncationic nanomaterials that adsorb DNA but cannot quench fluorescence are less known. These materials are attractive for studying the mechanism of DNA-based surface reactions. Y₂O₃ was found to have this property. Herein, we used fluorescently labeled oligonucleotides as probes to study the mechanism of DNA adsorption. The fluorescence was quenched at low concentrations of Y₂O₃ and then recovered and even enhanced with higher Y₂O₃ concentrations. The reason was attributed to the intermolecular quenching by the DNA bases of the neighboring strands. The fluorescence enhancement was due to breaking of the intramolecular fluorophore/DNA interactions, and the most enhancement was observed with a Cy3-labeled DNA. DNA adsorption followed the Langmuir isotherm on Y₂O₃. Desorption experiments suggested that DNA was adsorbed through the phosphate backbone, with FAM-G₁₅ and FAM-C₁₅ adsorbed more strongly than the other two DNA homopolymers. With a high salt concentration, no fluorescence change was observed, suggesting that the DNA adsorbed in a folded state reducing intermolecular quenching. Overall, Y₂O₃ might be useful as a model surface for investigating DNA hybridization on a surface.

Electronic Structure and Photoluminescence Properties of Eu(η9-C9H9)2

The electronic structure of Eu²⁺ compounds results from a complex combination of strongly correlated electrons and relativistic effects as well as weak ligand-field interaction. There is tremendous interest in calculating the electronic structure as nowadays the Eu²⁺ ion is becoming more and more crucial, for instance, in lighting technologies. Recently, interest in semiempirical methods to qualitatively evaluate the electronic structure and to model the optical spectra has gained popularity, although the theoretical methods strongly rely upon empirical inputs, hindering their prediction capabilities. Besides, ab initio multireference models are computationally heavy and demand very elaborative theoretical background. Herein, application of the ligand-field density functional theory (LFDFT) method that is recently available in the Amsterdam Modeling Suite is shown: (i) to elucidate the electronic structure properties on the basis of the multiplet energy levels of Eu configurations 4f⁷ and 4f⁶5d¹ and (ii) to model the optical spectra quite accurately if compared to the conventional time-dependent density functional theory tool. We present a theoretical study of the molecular Eu(η⁹-C₉H₉)₂ complex and its underlying photoluminescence properties with respect to the Eu 4f-5d electron transitions. We model the excitation and emission spectra with good agreement with the experiments, opening up the possibility of modeling lanthanides in complex environment like nanomaterials by means of LFDFT at much-reduced computational resources and cost.

Luminescent EuIIIand TbIIIbimetallic complexes of N,N′-heterocyclic bases and tolfenamic acid: structures, photophysical aspects and biological activity

The isostructural bimetallic luminescent Eu^IIIand Tb^IIIdimers containing N,N′-heterocyclic bases and tolfenamic acid as a bridging ligands were evaluated for their structures, cellular imaging capability and photocytotoxicity.

Multiresponsive Supramolecular Luminescent Hydrogels Based on a Nucleoside/Lanthanide Complex

Supramolecular luminescent hydrogels based on natural molecules have shown high potential for a variety of applications because of unique optical properties and biocompatibility, particularly serving as advanced biomaterials for bioimaging, biosensing, cell engineering, and so forth. A lanthanide complex-based system provides a promising way to prepare supramolecular luminescent hydrogels. Herein, we realize the creation of a luminescent hydrogel assembled from lanthanides and nucleosides. Nucleosides, the essential components of nucleic acids, functioning as the ligands, successfully chelate with lanthanides and form complexes in water. The complexes subsequently serve as building-blocks to form supramolecular hydrogels, which exhibit characteristic luminescent emission of lanthanides. The coordination modes and forming mechanism are studied by electrospray ionization time-of-flight mass spectrometry, matrix-assisted laser desorption/ionization time of flight mass spectrometry, ¹H NMR spectroscopy, and Fourier transform infrared spectroscopy; the corresponding molecular simulations are presented, and macro-/micro-morphologies, mechanical properties, and luminescent performances of hydrogels are systemically studied. Remarkably, these luminescent hydrogels show fluorochromic properties in response to external stimuli, including pH, temperature, anions, and cations, which are thus adopted to design smart luminescent switches and detect specific species such as Cu²⁺. Our work provides a feasible strategy to prepare stimuli-responsive luminescent hydrogels, reveals the diverse potential of nucleoside-based hydrogels, and exhibits a novel pathway for the preparation of smart optical materials.

Fluorescein-Stabilized i-Motif DNA and Its Unfolding Leading to a Stronger Adsorption Affinity

Several previous studies have indicated that polydeoxycytidine (poly-C) DNA has an anomalously high affinity for different types of surfaces. It was hypothesized that the formation of an i-motif structure could be a factor responsible for this enhanced affinity, but this is against the notion that a folded molecule should have fewer interactions with a surface. Herein, the properties of poly-C DNA were examined in detail, focusing on the presence or absence of a FAM (carboxyfluorescein) label and its subsequent adsorption on graphene oxide. Fluorescence and CD spectroscopy studies indicated that FAM can stabilize an i-motif structure in C15 DNA. In particular, the fluorescence of FAM is drastically quenched when the DNA is folded. This structure is irreversibly unfolded upon heating. Furthermore, the unfolded structure has an even higher affinity for graphene oxide than the folded structure. Finally, a large portion of the folded C15 unfolds upon desorption from graphene oxide, and unfolding could happen upon adsorption or desorption of the DNA. This study provides a method to further enhance the adsorption stability of poly-C DNA and calls for care when investigating the potential effects of dye labels on DNA.

Growing a Nucleotide/Lanthanide Coordination Polymer Shell on Liposomes

Coating liposomes with a shell is a useful strategy to increase membrane stability and prevent leakage or fusion. Nucleotide/lanthanide coordination nanoparticles (NPs) are formed by a simple mixing at ambient conditions. Because some lipid headgroups contain lanthanide binding ligands, they may direct the growth of such coordination NPs. Herein, a gadolinium/adenosine monophosphate (Gd³⁺/AMP) shell was formed on liposomes (liposome@Gd³⁺/AMP) using lipids containing phosphoserine (PS) or cholinephosphate (CP) headgroups, while phosphocholine liposomes did not support the shell. Liposome binding Gd³⁺ is confirmed by transmission electron microscopy (TEM). The negatively charged CP and PS liposomes reversed to positive upon Gd³⁺ binding, while other metals such as Ca²⁺ and Zn²⁺ did not reverse the charge. Binding of Gd³⁺ did not leak the PS liposomes. Then, AMP was further added to cross-link Gd³⁺ on the liposome surface. A shell was formed as indicated by TEM, and the content inside the liposome remained for the PS liposomes. While adding Triton X-100 still induced leakage of the encapsulated liposomes, the shell protected the liposomes from leakage induced by ZnO NPs, suggesting a porous structure of the Gd³⁺/AMP shell which allowed penetration of Triton X-100 but not the larger ZnO NPs. This work provides a simple method to coat liposomes, and also offers a fundamental understanding of liposome adsorption of lanthanide ions.