Publications by authors named "Yong-Beom Lim"

The mRNA delivery vehicle technology is one of the key factors in developing mRNA-based therapeutics and vaccines. The delivery vehicle must protect the mRNA from degradation, accurately deliver it across body barriers into the target tissue or cell, and properly regulate expression of the protein. Even though the stability and performance of mRNA delivery vehicles is highly dependent on their nanostructure, most vehicles were irregular spherical shapes.

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In light of growing global challenge posed by antimicrobial resistance, it is very important to explore alternatives that can target pathogenic microorganisms. One such strategy involves the use of antimicrobial peptides (AMPs) and Stigmurin is one such AMP present in Brazilian scorpion Tityus stigmurus which possesses antimicrobial, antiproliferative and antiparasitic activity. The study commenced with successful synthesis and characterization of Stigmurin and its analogues, designated S1 and S2.

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Background: Curcumin, a well-known wound healing agent, faces clinical limitations due to its poor water solubility, rapid degradation, and short plasma half-life. To address these challenges, we developed a self-assembling peptide incorporating an antioxidant sequence (YGDEY), which is capable of not only delivering curcumin but also exhibiting additional bioactivity to enhance wound healing.

Methods: An antioxidant nanocarrier was developed via peptide self-assembly.

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Breast cancer is one of the leading causes of death among women globally, making its diagnosis and treatment challenging. The use of nanotechnology for cancer diagnosis and treatment is an emerging area of research. To address this issue, multiwalled carbon nanotubes (MWCNTs) were ligand exchanged with butyric acid (BA) to gain hydrophilic character.

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Self-assembly of designed molecules has enabled the construction of a variety of functional nanostructures. Specifically, adaptable self-assembly has demonstrated several advantageous features for smart materials. Here, we demonstrate that an α-helical coiled coil conjugated with a dendrimer can adapt to spatial restriction due to the strong steric repulsion between dendrimer chains.

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Although peptides notoriously have poor intrinsic pharmacokinetic properties, it is well-known that nanostructures with excellent pharmacokinetic properties can be designed. Noticing that peptide inhibitors are generally nonpolar, here, we consolidate the peptide inhibitor targeting intracellular protein-protein interactions (PPIs) as an integral part of biodegradable self-assembled depsipeptide nanostructures (SdPNs). Because the peptide inhibitor has the dual role of PPI inhibition and self-assembly in this design, problems associated with the poor pharmacokinetics of peptides and encapsulation/entrapment processes can be overcome.

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Article Synopsis
  • The quaternary structure of proteins enhances the functionality of individual proteins, and self-assembled protein nanostructures (SPrNs) aim to further improve protein capabilities but are challenging to create.
  • To simplify SPrN fabrication, a strategy involving three steps is proposed: forming equilibrated self-assembled peptide nanostructures (SPeNs), covalently capturing these SPeNs, and then assembling them into SPrNs through protein-peptide interactions.
  • This approach resulted in SPrNs that are significantly larger than the initial peptides and demonstrated that irreversible SPeNs can serve as effective building blocks for creating more complex superstructures, making it a broadly applicable technique for soluble proteins.
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  • The current mRNA delivery technology faces challenges in safety and transport due to low stability of mRNA carriers.
  • Researchers have developed a nanotube delivery platform that improves stability by using self-adjusting supramolecular building blocks (SABs) that provide both dynamic properties and stiffness.
  • The resulting SAB nanotubes enhance cellular uptake and allow for controllable gene expression, paving the way for safer and more stable mRNA vaccines and therapeutics.
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This study presents the development of a β-hairpin (tryptophan zipper, Trpzip)-based molecular tweezer (MT) that can control the folding and binding of α-helical peptides. When an α-helix isolated from the p53 protein was conjugated with Trpzip in an optimized macrocyclic structure, the folded β-hairpin stabilized the helix conformation through the side chain-to-side chain stapling strategy, which notably enhanced target (hDM2) affinity of the peptide. On the other hand, the helicity and binding affinity were significantly reduced when the hairpin was unfolded by a redox stimulus.

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Because organic molecules and materials are generally insensitive or weakly sensitive to magnetic fields, a certain means to enhance their magnetic responsiveness needs to be exploited. Here we show a strategy to amplify the magnetic responsiveness of self-assembled peptide nanostructures by synergistically combining the concepts of perfect α-helix and rod-coil supramolecular building blocks. Firstly, we develop a monomeric, nonpolar, and perfect α-helix (MNP-helix).

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Although interest in stabilized α-helical peptides as next-generation therapeutics for modulating biomolecular interfaces is increasing, peptides have limited functionality and stability due to their small size. In comparison, α-helical ligands based on proteins can make steric clash with targets due to their large size. Here, we report the design of a monomeric pseudo-isolated α-helix (mPIH) system in which proteins behave as if they are peptides.

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Antimicrobial peptides (AMPs) attracted attention as potential source of novel antimicrobials. Multi-drug resistant (MDR) infections have emerged as a global threat to public health in recent years. Furthermore, due to rapid emergence of new diseases, there is pressing need for development of efficient antimicrobials.

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Article Synopsis
  • Scientists are exploring new tiny carriers called peptidesomes, which are made from peptides and can deliver medicine more effectively than some other tiny carriers.
  • Peptidesomes can both build themselves and help in treating diseases, especially cancer, but they need more development to work well.
  • Researchers are figuring out how to control different factors, like size and how well they target cells, to make peptidesomes work better as cancer treatments.
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The maximum degree of bending that can be tolerated by the rigid rod-like α-helix remains unknown; however, it should be very difficult or even impossible to make α-helices with varying degrees of curvature in folded proteins. As an experimentally tractable model, here we utilize cyclic proteins and peptides to determine the maximum possible bending in the α-helix. We artificially enforced bending in the α-helices by using variously sized macrocycles and compared the structural characteristics of the macrocycles with those of their linear counterparts.

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There is growing evidence that the accumulation of DNA damage induced by fine particulate matter (PM) exposure is an underlying mechanism of pulmonary disease onset and progression. However, there is a lack of experimental evidence on whether common factors (age, gender) affect PM induced genomic damage. Here, we assessed the DNA damage potency of PM using conventional genotoxicity testing in old male and female mice aged 8 and 40 weeks.

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Article Synopsis
  • - Several studies indicate that inhaling diesel exhaust particles (DEP) raises the risk of lung cancer, prompting research into the genetic damage caused by DEP exposure.
  • - Most previous studies focused on cancerous cell models, while this research examines the impact of DEP on normal embryonic human lung fibroblast cells.
  • - The findings revealed that DEP exposure leads to significant DNA damage and changes in gene expression, particularly in pathways related to responding to harmful substances and DNA repair.
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The aggregation and accumulation of amyloid-β (Aβ) peptides is a characteristic pathology for Alzheimer's disease (AD). Although noninvasive therapies involving stimulation by electric field (EF) have been reported, the efficiency of Aβ disaggregation needs to be further improved for this strategy to be used in clinical settings. In this study, we show that an electrode based on a vertical nanowire electrode array (VNEA) is far more superior to a typical flat-type electrode in disaggregating Aβ plaques.

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Article Synopsis
  • Developed a 3D sensor using silicon micropillar electrodes to detect amyloid beta (Aβ) in unpurified blood plasma for Alzheimer's disease diagnosis.
  • The sensor utilizes synthesized artificial peptide and impedance analysis to enhance sensitivity and selectivity, validated through tests on human blood serum samples.
  • It aims to provide a reliable method for diagnosing Alzheimer's by monitoring blood plasma and has the potential for use as a self-health care tool for patients.
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Aim: Colon cancer is one of the leading causes of cancer-related mortality. However, specific biomarkers for its diagnosis or treatment are not established well.

Methods: We developed a colon-cancer specific peptide probe using phage display libraries.

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  • Understanding intermediates in organic reactions has led to advancements in synthesizing important compounds, yet peptide/protein self-assembly intermediates remain poorly understood.
  • The study shows that linear heterochiral peptides assemble more slowly than homochiral peptides, allowing observation of unique assembly intermediates like mixed helical and overtwisted forms.
  • This research also enabled the creation of a functional NMR alignment medium to measure residual dipolar couplings, enhancing the understanding of self-assembly pathways in linear heterochiral peptides and guiding the development of advanced materials.
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Self-assembling peptides are biomedical materials with unique structures that are formed in response to various environmental conditions. Governed by their physicochemical characteristics, the peptides can form a variety of structures with greater reactivity than conventional non-biological materials. The structural divergence of self-assembling peptides allows for various functional possibilities; when assembled, they can be used as scaffolds for cell and tissue regeneration, and vehicles for drug delivery, conferring controlled release, stability, and targeting, and avoiding side effects of drugs.

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  • This paper introduces the first CMOS VEGF sensor designed for cancer diagnosis using human blood samples.
  • The sensor utilizes a peptide aptamer-based microneedle to detect electrochemical reactions with VEGF, subsequently read by a two-step capacitance-to-digital converter (CDC) that enhances measurement accuracy.
  • The prototype, built on a 65-nm CMOS process, exhibits low power consumption, high dynamic range, and impressive sensitivity in detecting VEGF, even in complex biological fluids like human blood serum.
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  • Understanding the intermolecular interactions and hydration states of self-assembled peptide nanostructures (SPNs) is essential for grasping their molecular assembly behaviors.
  • The study utilized advanced electron paramagnetic resonance spectroscopy to investigate hydrogen bonding, geometry, and hydrophobicity in SPNs at various spin-labeled sites.
  • Findings provide valuable insights into the local structures of SPNs, enhancing the understanding of their formation and potential applications in bioactive materials.
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  • The study presents a new biosensor capable of real-time detection of specific disease markers like cholera toxin and mercury(II) ions in blood without needing skin incisions.
  • The researchers developed silicon micropillar array electrodes that are functionalized with artificial peptides to target these markers, enabling high sensitivity detection.
  • This innovative technology may enhance early diagnosis of diseases and infections by providing a robust method for monitoring various molecular species in the bloodstream.
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Peptide-oligonucleotide conjugates (POCs) are interesting molecules as they covalently combine 2 of the most important biomacromolecules. Sometimes, the synthesis of POCs involves unexpected difficulties; however, POCs with self-assembling propensity are even harder to synthesize and purify. Here, we show that solid-phase peptide fragment condensation combined with thiol-maleimide or copper-catalyzed azide-alkyne cycloaddition click chemistries is useful for the syntheses of self-assembling POCs.

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Synopsis of recent research by authors named "Yong-Beom Lim"

  • - Yong-beom Lim's recent research focuses on the development of novel nanostructures and self-assembling systems for applications in drug delivery, cancer therapy, and protein interaction inhibition, emphasizing the use of biodegradable and thermodynamically stable materials.! - Key findings include the successful creation of multifunctional platforms, such as aptamer-assisted carbon nanotubes for MRI and photothermal therapy, and self-assembled peptide structures that enhance pharmacokinetics and target specificity in therapeutic applications.! - Lim's work also explores innovative methodologies to improve the stability and functionality of peptide-based therapeutics through controlled assembly, modulation techniques, and magnetic responsiveness, showcasing the potential of these approaches in combating drug-resistant infections and cancer.