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Dongtak Lee#, Hyo Gi Jung#, Dongsung Park#, Junho Bang, Ji Hye Hong, Seokbeom Roh, Jae Won Jang, Yonghwan Kim, Kyo Seon Hwang, Young-Sun Lee, Jae-Yong Park, In Duk Jung, Jeong Hoon Lee*, Gyudo Lee*, and Dae Sung Yoon*
Abstract
The assembly of α-synuclein (αS) oligomers is recognized as the main pathological driver of synucleinopathies. While the elimination of toxic αS oligomers shows promise for the treatment of Parkinson’s disease (PD), the discovery of αS oligomer degradation drugs has been hindered by the lack of proper drug screening tools. Here, we report a drug screening platform for monitoring the efficacy of αS-oligomer-degrading drugs using amyloid-shelled gold nanocomplexes (ASGNs). We fabricate ASGNs in the presence of dopamine, mimicking the in vivo generation process of pathological αS oligomers. To test our platform, the first of its kind for PD drugs, we use αS-degrading proteases and various small molecular substances that have shown efficacy in PD treatment. We demonstrate that the ASGN-based in vitro platform has strong potential to discover effective αS-oligomer-targeting drugs, and thus it may reduce the attrition problem in drug discovery for PD treatment.
Jae Won Jang#, Hyunji Kim#, Insu Kim#, Hyo Gi Jung, Kyo Seon Hwang, Jeong Hoon Lee, Gyudo Lee, Dongtak Lee*, and Dae Sung Yoon*
Abstract
Colorimetric glucose sensors using enzyme-coronated gold nanoparticles have been developed for high-throughput assays to monitor the blood glucose levels of diabetic patients. Although those sensors have shown sensitivity and wide linear detection ranges, they suffer from poor selectivity and stability in detecting blood glucose, which has limited their practical use. To address this limitation, herein, we functionalized glucose-oxidase-coronated gold nanoparticles with an erythrocyte membrane (EM-GOx-GNPs). Because the erythrocyte membrane (EM) selectively facilitates the permeation of glucose via glucose transporter-1 (GLUT1), the functionalization of GOx-GNPs with EM improved the stability, selectivity (3.3- to 15.8-fold higher), and limit of detection (LOD). Both membrane proteins, GLUT1 and aquaporin-1 (AQP1), on EM were shown to be key components for selective glucose detection by treatment with their inhibitors. Moreover, we demonstrated the stability of EM-GOx-GNPs in high-antioxidant-concentration conditions, under long-term storage (∼4 weeks) and a freeze–thaw cycle. Selectivity of the EM-GOx-GNPs against other saccharides was increased, which improved the LOD in phosphate-buffered saline and human serum. Our results indicated that the functionalization of colorimetric glucose sensors with EM is beneficial for improving selectivity and stability, which may make them candidates for use in a practical glucose sensor.
Insu Kim, Dongtak Lee, Jeong Hoon Lee, Gyudo Lee, and Dae Sung Yoon
Abstract
The fast measurement of fibrinogen is essential in evaluating life-threatening sepsis and cardiovascular diseases. Here, we aim to utilize biomimetic plasmonic Au nanoparticles using red blood cell membranes (RBCM-AuNPs) and demonstrate nanoscale coagulation-inspired fibrinogen detection via cross-linking between RBCM-AuNPs. The proposed biomimetic RBCM-AuNPs are highly suitable for fibrinogen detection because hemagglutination, occurring in the presence of fibrinogen, induces a shift in the localized surface plasmon resonance of the NPs. Specifically, when the two ends of the fibrinogen protein are bound to receptors on separate RBCM-AuNPs, cross-linking of the RBCM-AuNPs occurs, yielding a corresponding plasmon shift within 10 min. This coagulation-inspired fibrinogen detection method, with a low sample volume, high selectivity, and high speed, could facilitate the diagnosis of sepsis and cardiovascular diseases.
Insu Kim, Chaeyeon Kim, Dongtak Lee, Gyudo Lee, and Dae Sung Yoon
Abstract
In the development of enzymatic glucose sensors, accurate glucose sensing has been a challenging task because of the existence of numerous interfering molecules in the blood. Meanwhile, red blood cells (RBCs) selectively uptake glucose via a membrane protein called glucose transporter-1. In this study, we developed the RBC membrane (RBCM)-coated enzymatic glucose sensors that mimic the glucose uptake. The RBCM-coated sensors were examined via scanning electron microscopy, atomic force microscopy, and ATR-FTIR. We optimized the glucose permeability of the RBCM filter by controlling the thickness of the filter. The sensing range of the optimized sensor was 1–15 mM, the detection limit was 0.66 mM, and the sensitivity was 2.978 μA/mM. Intriguingly, the RBCM-coated sensor was highly accurate and precise, despite the coexistence of glucose and interfering molecules (e.g., mannose, galactose, ascorbic acid, uric acid, and cysteine). For each interfering molecule, the errors of our sensor were 0.8 to 2.3%, which was 4.8–14.2 times more accurate than the uncoated one. A similar result was verified for a human serum sample containing countless interfering molecules. Also, the sensing performance of the sensor was consistent after 4 weeks of storage. The results suggest that applying RBCM may improve the selectivity of various types of glucose sensors including the continuous monitoring system.
Hyungbeen Lee, Gyudo Lee, Wonseok Lee, Kihwan Nam, Jeong Hoon Lee, Kyo Seon Hwang, Jaemoon Yang, Hyeyoung Lee, Sangsig Kim, Sang Woo Lee, and Dae Sung Yoon
Abstract
Here, we demonstrate a powerful method to discriminate DNA mismatches at single-nucleotide resolution from 0 to 5 mismatches (χ0 to χ5) using Kelvin probe force microscopy (KPFM). Using our previously developed method, we quantified the surface potentials (SPs) of individual DNA-capped nanoparticles (DCNPs, ∼100 nm). On each DCNP, DNA hybridization occurs between ∼2200 immobilized probe DNA (pDNA) and target DNA with mismatches (tDNA, ∼80 nM). Thus, each DCNP used in the bioassay (each pDNA–tDNA interaction) corresponds to a single ensemble in which a large number of pDNA–tDNA interactions take place. Moreover, one KPFM image can scan at least dozens of ensembles, which allows statistical analysis (i.e., an ensemble average) of many bioassay cases (ensembles) under the same conditions. We found that as the χn increased from χ0 to χ5 in the tDNA, the average SP of dozens of ensembles (DCNPs) was attenuated owing to fewer hybridization events between the pDNA and the tDNA. Remarkably, the SP attenuation vs. the χn showed an inverse-linear correlation, albeit the equilibrium constant for DNA hybridization exponentially decreased asymptotically as the χn increased. In addition, we observed a cascade reaction at a 100-fold lower concentration of tDNA (∼0.8 nM); the average SP of DCNPs exhibited no significant decrease but rather split into two separate states (no-hybridization vs. full-hybridization). Compared to complementary tDNA (i.e., χ0 ), the ratio of no-hybridization/full-hybridization within a given set of DCNPs became ∼1.6 times higher in the presence of tDNA with single mismatches (i.e., χ1). The results imply that our method opens new avenues not only in the research on the DNA hybridization mechanism in the presence of DNA mismatches but also in the development of a robust technology for DNA mismatch detection.
Seungyeop Choi, Gyudo Lee, In Soo Park, Myeonggu Son, Woong Kim, Hyungbeen Lee, Sei-Young Lee, Sungsoo Na, Dae Sung Yoon, Rashid Bashir, Jinsung Park, and Sang Woo Lee
Abstract
Understanding of the interactions of silver ions (Ag+) with polynucleotides is important not only to detect Ag+ over a wide range of concentrations in a simple, robust, and high-throughput manner but also to investigate the intermolecular interactions of hydrogen and coordinate interactions that are generated due to the interplay of Ag+, hydrogen ions (H+), and polynucleotides since it is critical to prevent adverse environmental effects that may cause DNA damage and develop strategies to treat this damage. Here, we demonstrate a novel approach to simultaneously detect Ag+ satisfying the above requirements and examine the combined intermolecular interactions of Ag+–polycytosine and H+–polycytosine DNA complexes using dielectrophoretic tweezers-based force spectroscopy. For this investigation, we detected Ag+ over a range of concentrations (1 nM to 100 μM) by quantifying the rupture force of the combined interactions and examined the interplay between the three factors (Ag+, H+, and polycytosine) using the same assay for the detection of Ag+. Our study provides a new avenue not only for the detection of heavy metal ions but also for the investigation of heavy metal ions–polynucleotide DNA complexes using the same assay.
Wonseok Lee, Insu Kim, Hyungbeen Lee, Gyudo Lee, Sangsig Kim, Sang Woo Lee, and Dae Sung Yoon
Abstract
Ascorbic acid, which is widely used as a therapeutic agent for various disorders (e.g. chronic diseases and cancers), has potential therapeutic roles for neurodegenerative disease such as Huntington’s, Parkinson’s and Alzheimer’s diseases. The ability to impede amyloid fibril formation has a great demand on developing clinical medicine with respect to successfully preventing neurodegenerative diseases. Here, we report that L-ascorbic acid inhibits β-lactoglobulin amyloid formation in vitro. For quantitative characterization of the inhibitory effect of L-ascorbic acid on fibrillation, we performed high-resolution atomic force microscopy and thioflavin T fluorescence assay. Fourier transform infrared spectra indicated secondary structure differences of fibrils formed with and without ascorbic acid. These results suggest great potential of ascorbic acid for use in the prevention or treatment of amyloidogenic diseases.
Hyungbeen Lee, Gyudo Lee, Wonseok Lee, Jeong Hoon Lee, Kyo Seon Hwang, Jaemoon Yang, Sang Woo Lee, and Dae Sung Yoon
Abstract
Kelvin probe force microscopy (KPFM) is a robust toolkit for profiling the surface potential (SP) of biomolecular interactions between DNAs and/or proteins at the single molecule level. However, it has often suffered from background noise and low throughput due to instrumental or environmental constraints, which is regarded as limiting KPFM applications for detection of minute changes in the molecular structures such as single-nucleotide polymorphism (SNP). Here, we show KPFM imaging of DNA-capped nanoparticles (DCNP) that enables SNP detection of the BRCA1 gene owing to sterically well-adjusted DNA–DNA interactions that take place within the confined spaces of DCNP. The average SP values of DCNP interacting with BRCA1 SNP were found to be lower than the DCNP reacting with normal (non-mutant) BRCA1 gene. We also demonstrate that SP characteristics of DCNP with different substrates (e.g., Au, Si, SiO2, and Fe) provide us with a chance to attenuate or augment the SP signal of DCNP without additional enhancement of instrumentation capabilities.
In Soo Park, Jaewoo Lee, Gyudo Lee, Kihwan Nam, Taewoo Lee, Woo-Jin Chang, Hansung Kim, Sei-Young Lee, Jongbum Seo, Dae Sung Yoon, and Sang Woo Lee
Abstract
Quantitative detection of the biological properties of living cells is essential for a wide range of purposes, from the understanding of cellular characteristics to the development of novel drugs in nanomedicine. Here, we demonstrate that analysis of cell biological properties within a microfluidic dielectrophoresis device enables quantitative detection of cellular biological properties and simultaneously allows large-scale measurement in a noise-robust and probeless manner. Applying this technique, the static and dynamic biological responses of live B16F10 melanoma cells to the small-molecule drugs such as N-ethylmaleimide (NEM) and [(dihydronindenyl)oxy]alkanoic acid (DIOA) were quantitatively and statistically examined by investigating changes in movement of the cells. Measurement was achieved using subtle variations in dielectrophoresis (DEP) properties of the cells, which were attributed to activation or deactivation of K+/Cl– cotransporter channels on the cell membrane by the small-molecule drugs, in a microfluidic device. On the basis of quantitative analysis data, we also provide the first report of the shift of the complex permittivity of a cell induced by the small-molecule drugs. In addition, we demonstrate interesting quantifiable parameters including the drug effectiveness coefficient, antagonistic interaction coefficient, kinetic rate, and full width at half-maximum, which corresponded to changes in biological properties of B16F10 cells over time when NEM and DIOA were introduced alone or in combination. Those demonstrated parameters represent very useful tools for evaluating the effect of small-molecule drugs on the biological properties of cells.
Kihwan Nam, Kilho Eom, Jaemoon Yang, Jinsung Park, Gyudo Lee, Kuewhan Jang, Hyungbeen Lee, Sang Woo Lee, Dae Sung Yoon, Chang Young Lee, and Taeyun Kwon
Abstract
We have developed a horizontally aligned carbon nanotube sensor that enables not only the specific detection of biomolecules with ultra-sensitivity, but also the quantitative characterization of binding affinity between biomolecules and/or interaction between a carbon nanotube and a biomolecule, for future applications in early diagnostics. In particular, we have fabricated horizontally aligned carbon nanotubes, which were functionalized with specific aptamers that are able to specifically bind to biomolecules (i.e. thrombin). Our detection system is based on scanning probe microscopy (SPM) imaging for horizontally aligned aptamer-conjugated carbon nanotubes (ACNTs) that specifically react with target biomolecules at an ultra-low concentration. It is shown that the binding affinity between thrombin molecule and ACNT can be quantitatively characterized using SPM imaging. It is also found that the smart carbon nanotube sensor coupled with SPM imaging permits us to achieve the high detection sensitivity even up to ∼1 pM, which is much higher than that of other bioassay methods. Moreover, we have shown that our method enables a quantitative study on small molecule-mediated inhibition of specific biomolecular interactions. In addition, we have shown that our ACNT-based system allows for the quantitative study of the effect of chemical environment (e.g. pH and ion concentration) on the binding affinity. Our study sheds light on carbon nanotube sensor coupled with SPM imaging, which opens a new avenue to early diagnostics and drug screening with high sensitivity.
Gyudo Lee, Kilho Eom, Joseph Park, Jaemoon Yang, Seungjoo Haam, Yong-Min Huh, Joo Kyung Ryu, Nam Hee Kim, Jong In Yook, Sang Woo Lee, Dae Sung Yoon, and Taeyun Kwon
Abstract
A bioassay using a resonant peptide-functionalized microcantilever enables the quantitative characterization of the proteolytic activity of membrane type-1 matrix metalloproteinase (MT1-MMP). In this assay, shifts in the frequency of the cantilever after specific proteolytic cleavage of the target peptides by MT1-MMP are measured.
Kilho Eom, Harold S. Park, Dae Sung Yoon, and Taeyun Kwon
Abstract
Recent advances in nanotechnology have led to the development of nano-electro-mechanical systems (NEMS) such as nanomechanical resonators, which have recently received significant attention from the scientific community. This is not only due to their capability of label-free detection of bio/chemical molecules at single-molecule (or atomic) resolution for future applications such as the early diagnosis of diseases like cancer, but also due to their unprecedented ability to detect physical quantities such as molecular weight, elastic stiffness, surface stress, and surface elastic stiffness for adsorbed molecules on the surface. Most experimental works on resonator-based molecular detection have been based on the principle that molecular adsorption onto a resonator surface increases the effective mass, and consequently decreases the resonant frequencies of the nanomechanical resonator. However, this principle is insufficient to provide fundamental insights into resonator-based molecular detection at the nanoscale; this is due to recently proposed novel nanoscale detection principles including various effects such as surface effects, nonlinear oscillations, coupled resonance, and stiffness effects. Furthermore, these effects have only recently been incorporated into existing physical models for resonators, and therefore the universal physical principles governing nanoresonator-based detection have not been completely described. Therefore, our objective in this review is to overview the current attempts to understand the underlying mechanisms in nanoresonator-based detection using physical models coupled to computational simulations and/or experiments. Specifically, we will focus on issues of special relevance to the dynamic behavior of nanoresonators and their applications in biological/chemical detection: the resonance behavior of micro/nanoresonators; resonator-based chemical/biological detection; physical models of various nanoresonators such as nanowires, carbon nanotubes, and graphene. We pay particular attention to experimental and computational approaches that have been useful in elucidating the mechanisms underlying the dynamic behavior of resonators across multiple and disparate spatial/length scales, and the resulting insight into resonator-based detection that has been obtained. We additionally provide extensive discussion regarding potentially fruitful future research directions coupling experiments and simulations in order to develop a fundamental understanding of the basic physical principles that govern NEMS and NEMS-based sensing and detection applications.
Kilho Eom, Huihun Jung, Gyudo Lee, Jinsung Park, Kihwan Nam, Sang Woo Lee, Dae Sung Yoon, Jaemoon Yang, and Taeyun Kwon
Abstract
We report the reversible nanomechanical actuation of a microcantilever driven by the light irradiation-induced conformational changes of i-motif DNA chains, which are functionalized on the cantilever's surface. It is shown that light irradiation-driven nanomechanical actuation can be manipulated using DNA hybridization and/or ionic concentrations.
Sang Hyun Baek, Woo-Jin Chang, Ju-Yeoul Baek, Dae Sung Yoon, Rashid Bashir, and Sang Woo Lee
Abstract
We present a novel dielectrophoretic technique that can be used to characterize molecular interactions inside a microfluidic device. Our approach allows functionalized beads which are initially at rest on a functionalized surface to be pulled away from the surface by the dielectrophoretic force acting on the beads. As a result, the interaction between the molecules on the surface and the beads can be quantitatively examined. We report detailed experimental results and validate the results with a model to show that the technique can be used to measure forces of interaction between molecules under various experimental conditions.
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