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Food Chemistry Advances 2025年 7卷

作者： Elsa Nopiyanti Mega Safithri Trivadila Sahidin Harlinda Kuspradini Femi Earnestly Yoko Hirata Hiroshi Takemori Irmanida Batubara Department of Chemistry Chemistry Post-graduate Program Bogor Agricultural University Bogor West Java Indonesia Department of Biochemistry Chemistry Post-graduate Program Bogor Agricultural University Bogor West Java Indonesia Department of Pharmacy Faculty of Pharmacy Universitas Halu Oleo Kendari Indonesia Faculty of Forestry Universitas Mulawarman Samarinda East Kalimantan Indonesia Faculty of Pharmacy Muhammadiyah University of Sumatera Barat Padang West Sumatera Indonesia Life Science Research Center Institute for Advanced Study Gifu University Gifu Japan Department of Chemistry and Biomolecular Science Faculty of Engineering Gifu University Gifu Japan Tropical Biopharmaca Research Center IPB University Bogor West Java Indonesia

Parkia speciosa seeds, a widely consumed plant in Southeast Asia, are known for their rich bioactive compounds with potential health benefits. This study investigates the antioxidant properties of ethanol extracts from P. speciosa leaves (PSL) and seeds (PSS) to combat oxidative stress. Antioxidant activity was evaluated using 2,2-diphenyl-1-picrylhydrazyl (DPPH) and ferric reducing antioxidant power (FRAP) assays, revealing that PSL exhibited higher antioxidant potential than PSS, with values of 14.34 ± 0.02 and 19.39 ± 0.04 μg ascorbic acid equivalent (AAE)/g extract, respectively. The ethanol extracts of PSL and PSS significantly protected HT22 cells from erastin-induced ferroptotic cell death and activated the antioxidant response element (ARE) pathway, enhancing endogenous antioxidant defense mechanisms. Furthermore, in silico molecular docking analysis identified 7,7′-Dihydroxy-5′‑methoxy-2′,2′-dimethyl-4-oxo-3′,4′-dihydro-2′H,4H-3,6′-bichromen-5-yl hexopyranosiduronic acid as a promising bioactive compound with strong binding affinities to oxidative stress-related receptors (5i6x, 6cm4, 2f8a, 8bxn, and 8ivr). These findings suggest that P. speciosa ethanol extract, particularly from its leaves, exhibits strong antioxidant and neuroprotective properties, supporting its potential application as a natural therapeutic agent for oxidative stress-related disorders.

关键词： 7,7′-Dihydroxy-5′-methoxy-2′ 2′-dimethyl-4-oxo-3′ 4′-dihydro-2′H 4H-3 6′-bichromen-5-yl hexopyranosiduronic acid antioxidant response element HT22 cells Ferroptosis, P. speciosa

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Development and Applications of D-Amino Acid Derivatives-based Metabolic Labeling of Bacterial Peptidoglycan

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Angewandte Chemie 2024年第17期136卷

作者： Dr. Yongfang Zheng Xinyu Zhu Mingyi Jiang Dr. Fangfang Cao Dr. Qing You Prof. Xiaoyuan Chen Fujian-Taiwan Science and Technology Cooperation Base of Biomedical Materials and Tissue Engineering Engineering Research Center of Industrial Biocatalysis Fujian Provincial Key Laboratory of Advanced Materials Oriented Chemical Engineering Fujian Provincial Key Laboratory of Polymer Materials College of Chemistry and Materials Science Fujian Normal University 32 Shangsan Road Fuzhou 350007 P.R. China Departments of Diagnostic Radiology Surgery Chemical and Biomolecular Engineering and Biomedical Engineering Yong Loo Lin School of Medicine and Faculty of Engineering National University of Singapore Singapore 119074 Singapore Nanomedicine Translational Research Program NUS Center for Nanomedicine Yong Loo Lin School of Medicine National University of Singapore Singapore 117597 Singapore Clinical Imaging Research Centre Centre for Translational Medicine Yong Loo Lin School of Medicine National University of Singapore Singapore 117599 Singapore

Peptidoglycan, an essential component within the cell walls of virtually all bacteria, is composed of glycan strands linked by stem peptides that contain D-amino acids. The peptidoglycan biosynthesis machinery exhibits high tolerance to various D-amino acid derivatives. D-amino acid derivatives with different functionalities can thus be specifically incorporated into and label the peptidoglycan of bacteria, but not the host mammalian cells. This metabolic labeling strategy is highly selective, highly biocompatible, and broadly applicable, which has been utilized in various fields. This review introduces the metabolic labeling strategies of peptidoglycan by using D-amino acid derivatives, including one-step and two-step strategies. In addition, we emphasize the various applications of D-amino acid derivative-based metabolic labeling, including bacterial peptidoglycan visualization (existence, biosynthesis, and dynamics, etc.), bacterial visualization (including bacterial imaging and visualization of growth and division, metabolic activity, antibiotic susceptibility, etc.), pathogenic bacteria-targeted diagnostics and treatment (positron emission tomography (PET) imaging, photodynamic therapy, photothermal therapy, gas therapy, immunotherapy, etc.), and live bacteria-based therapy. Finally, a summary of this metabolic labeling and an outlook is provided.

关键词： peptidoglycan metabolic labeling D-amino acid derivatives peptidoglycan and bacterial visualization pathogenic bacteria-targeted diagnostics and treatment

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Single-molecule stretching shows glycosylation sets tension in the hyaluronan-aggrecan bottlebrush

arXiv

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arXiv 2019年

作者： Innes-Gold, Sarah N. Berezney, John P. Saleh, Omar A. University of California Santa Barbara Materials Department United States University of California Santa Barbara Biomolecular Science and Engineering Program United States

Large bottlebrush complexes formed from the polysaccharide hyaluronan (HA) and the proteoglycan aggrecan contribute to cartilage compression resistance and are necessary for healthy joint function. A variety of mechanical forces act on these complexes in the cartilage extracellular matrix, motivating the need for a quantitative description which links their structure and mechanical response. Studies using electron microscopy have imaged the HA-aggrecan brush but require adsorption to a surface, dramatically altering the complex from its native conformation. We use magnetic tweezers force spectroscopy to measure changes in extension and mechanical response of an HA chain as aggrecan monomers bind and form a bottlebrush. This technique directly measures changes undergone by a single complex with time and under varying solution conditions. Upon addition of aggrecan, we find a large swelling effect manifests when the HA chain is under very low external tension (i.e. stretching forces less than ∼1 pN). We use models of force-extension behavior to show that repulsion between the aggrecans induces an internal tension in the HA chain. Through reference to theories of bottlebrush polymer behavior, we demonstrate that the experimental values of internal tension are consistent with a polydisperse aggrecan population, likely caused by varying degrees of glycosylation. By enzymatically deglycosylating aggrecan, we show that aggrecan glycosylation is the structural feature which causes HA stiffening. We then construct a simple stochastic binding model to show that variable glycosylation leads to a wide distribution of internal tensions in HA, causing variations in the mechanics at much longer length-scales. Our results provide a mechanistic picture of how flexibility and size of HA and aggrecan lead to the brush architecture and mechanical properties of this important component of cartilage. Copyright © 2019, The Authors. All rights reserved.

关键词： Glycosylation

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Airr Community Curation and Standardised Representation for Immunoglobulin and T Cell Receptor Germline Sets

SSRN

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SSRN 2022年

作者： Lees, William D. Christley, Scott Peres, Ayelet Kos, Justin T. Corrie, Brian Ralph, Duncan Breden, Felix Cowell, Lindsay G. Yaari, Gur Corcoran, Martin Karlsson Hedestam, Gunilla B. Ohlin, Mats Collins, Andrew M. Watson, Corey T. Busse, Christian E. Institute of Structural and Molecular Biology Birkbeck College London United Kingdom Human-Centered Computing and Information Science Institute for Systems and Computer Engineering Technology and Science Porto Portugal Peter O’Donnell Jr School of Public Health Department of Immunology UT Southwestern Medical Center Texas United States Bioengineering Program Faculty of Engineering Bar-Ilan University Ramat Gan Israel Department of Biochemistry and Molecular Genetics School of Medicine University of Louisville Kentucky United States Department of Biological Sciences Simon Fraser University BurnabyBC Canada Fred Hutchinson Cancer Research Center SeattleWA United States Department of Microbiology Tumor and Cell Biology Karolinska Institute Stockholm Sweden Department of Immunotechnology Lund University Lund Sweden School of Biotechnology and Biomolecular Sciences University of New South Wales SydneyNSW Australia Division of B Cell Immunology German Cancer Research Center Heidelberg Germany

Analysis of an individual’s immunoglobulin or T cell receptor gene repertoire can provide important insights into immune function. High-quality analysis of adaptive immune receptor repertoire sequencing data depends upon accurate and relatively complete germline sets, but current sets are known to be incomplete. Established processes for the review and systematic naming of receptor germline genes and alleles require specific evidence and data types, but the discovery landscape is rapidly changing. To exploit the potential of emerging data, and to provide the field with improved state-of-the-art germline sets, an intermediate approach is needed that will allow the rapid publication of consolidated sets derived from these emerging sources. These sets must use a consistent naming scheme and allow refinement and consolidation into genes as new information emerges. Name changes should be minimised, but, where changes occur, the naming history of a sequence must be traceable. Here we outline the current issues and opportunities for the curation of germline IG/TR genes and present a forward-looking data model for building out more robust germline sets that can dovetail with current established processes and provides transparency based on principles of findability, accessibility, interoperability, and reusability. We describe results obtained by applying the data model and associated principles within the AIRR Community, including supporting software and databases. © 2022, The Authors. All rights reserved.

关键词： Genes

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Plasmonic bacteria on a nanoporous mirror via hydrodynamic trapping for rapid identification of waterborne pathogens

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Light(science & Applications) 2018年第1期7卷 359-367页

作者： Keumrai Whang Jong-Hwan Lee Yonghee Shin Wooju Lee Young Wan Kim Dongchoul Kim Luke P.Lee Taewook Kang Department of Chemical and Biomolecular Engineering Sogang UniversitySeoul 04107Korea Berkeley Sensor and Actuator Center Departments of BioengineeringElectrical Engineering and Computer ScienceBiophysics Graduate ProgramUniversity of CaliforniaBerkeleyBerkeleyCA 94720USA Department of Mechanical Engineering Sogang UniversitySeoul 04107Korea

A rapid,precise method for identifying waterborne pathogens is critically needed for effective disinfection and better ***,conventional methods,such as culture-based counting,generally suffer from slow detection times and low ***,we developed a rapid detection method for tracing waterborne pathogens by an innovative optofluidic platform,a plasmonic bacteria on a nanoporous mirror,that allows effective hydrodynamic cell trapping,enrichment of pathogens,and optical signal *** designed and simulated the integrated optofluidic platform to maximize the enrichment of the bacteria and to align bacteria on the nanopores and plasmonic mirror via hydrodynamic cell *** nanoparticles are self-assembled to form antenna arrays on the surface of bacteria,such as Escherichia coli and Pseudomonas aeruginosa,by replacing citrate with hydroxylamine hydrochloride in order to amplify the signal of the plasmonic optical *** to the synergistic contributions of focused light via the nanopore geometry,self-assembled nanoplasmonic optical antennas on the surface of bacteria,and plasmonic mirror,we obtain a sensitivity of detecting *** as low as 102 cells/ml via surface-enhanced Raman *** believe that our label-free strategy via an integrated optofluidic platform will pave the way for the rapid,precise identification of various pathogens.

关键词： mirror trapping precise

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Dynamics of microRNA secreted via extracellular vesicles during the maturation of embryonic stem cell-derived retinal pigment epithelium

Journal of Extracellular Biology

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Journal of Extracellular Biology 2024年第9期3卷 e70001页

作者： Pollalis, Dimitrios Nair, Gopa Kumar Gopinadhan Leung, Justin Bloemhof, Clarisa Marie Bailey, Jeffrey K. Pennington, Britney O. Kelly, Kaitlin R. Khan, Amir I. Yeh, Ashley K. Sundaram, Kartik S. Clegg, Dennis O. Peng, Chen-Ching Xu, Liya Georgescu, Constantin Wren, Jonathan D. Lee, Sun Young USC Roski Eye Institute Keck School of Medicine University of Southern California Los Angeles CA United States USC Ginsburg Institute for Biomedical Therapeutics University of Southern California Los Angeles CA United States USC Dornsife College of Letters Arts and Sciences Los Angeles CA United States University of Southern California Los Angeles CA United States School of Medicine California University of Science and Medicine Colton CA United States Center for Stem Cell Biology and Engineering Neuroscience Research Institute University of California Santa Barbara CA United States Department of Molecular Cellular and Developmental Biology University of California Santa Barbara CA United States College of Creative Studies Biology University of California Santa Barbara CA United States Biomolecular Science and Engineering University of California Santa Barbara CA United States Children's Hospital Los Angeles Vision Center Los Angeles CA United States Genes & Human Diseases Research Program Oklahoma Medical Research Foundation Oklahoma City OK United States Department of Physiology and Neuroscience Keck School of Medicine University of Southern California Los Angeles CA United States

Retinal pigment epithelial (RPE) cells are exclusive to the retina, critically multifunctional in maintaining the visual functions and health of photoreceptors and the retina. Despite their vital functions throughout lifetime, RPE cells lack regenerative capacity, rendering them vulnerable which can lead to degenerative retinal diseases. With advancements in stem cell technology enabling the differentiation of functional cells from pluripotent stem cells and leveraging the robust autocrine and paracrine functions of RPE cells, extracellular vesicles (EVs) secreted by RPE cells hold significant therapeutic potential in supplementing RPE cell activity. While previous research has primarily focused on the trophic factors secreted by RPE cells, there is a lack of studies investigating miRNA, which serves as a master regulator of gene expression. Profiling and defining the functional role of miRNA contained within RPE-secreted EVs is critical as it constitutes a necessary step in identifying the optimal phenotype of the EV-secreting cell and understanding the biological cargo of EVs to develop EV-based therapeutics. In this study, we present a comprehensive profile of miRNA in small extracellular vesicles (sEVs) secreted during RPE maturation following differentiation from human embryonic stem cells (hESCs);early-stage hESC-RPE (20–21 days in culture), mid-stage hESC-RPE (30–31 days in culture) and late-stage hESC-RPE (60–61 days in culture). This exploration is essential for ongoing efforts to develop and optimize EV-based intraocular therapeutics utilizing RPE-secreted EVs, which may significantly impact the function of dysfunctional RPE cells in retinal diseases. © 2024 The Author(s). Journal of Extracellular Biology published by Wiley Periodicals LLC on behalf of International Society for Extracellular Vesicles.

关键词： extracellular vesicle (EV) microRNA retinal pigment epithelium (RPE) stem cell

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Overcoming the surface paradox: Buried perovskite quantum dots in wide-bandgap perovskite thin films

arXiv

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arXiv 2025年

作者： Zhang, Hao Pasha, Altaf Metcalf, Isaac Zhou, Jianlin Staunstrup, Mathias Zhu, Yunxuan Liao, Shusen Ssennyimba, Ken Chen, Jia-Shiang Reddy, Surya Prakash Thébaud, Simon Hou, Jin Shuai, Xinting Mandani, Faiz Sidhik, Siraj Jones, Matthew R. Ma, Xuedan Balakrishna, R. Geetha Susarla, Sandhya Ginger, David S. Katan, Claudine Kanatzidis, Mercouri G. Bawendi, Moungi G. Natelson, Douglas Tamarat, Philippe Lounis, Brahim Even, Jacky Mohite, Aditya D. Department of Chemical and Biomolecular Engineering Rice University HoustonTX77005 United States Applied Physics Program Smalley‐Curl Institute Rice University HoustonTX77005 United States Centre for Nano and Material Sciences Jain University Jain Global Campus Kanakapura Karnataka Bangalore562112 India Department of Materials Science and NanoEngineering Rice University HoustonTX77005 United States Université de Bordeaux LP2N Talence France Institut d’Optique CNRS LP2N Talence France Department of Physics and Astronomy Rice University HoustonTX77005 United States Center for Nanoscale Materials Argonne National Laboratory LemontIL60439 United States School for Engineering of Matter Transport and Energy Arizona State University TempeAZ85281 United States UMR 6082 CNRS INSA de Rennes Rennes35708 France Department of Chemistry Rice University HoustonTX77005 United States Department of Chemistry University of Washington Box 351700 SeattleWA98195-1700 United States UMR 6226 Rennes35000 France Department of Chemistry Northwestern University EvanstonIL United States Department of Chemistry Massachusetts Institute of Technology 77 Massachusetts Avenue CambridgeMA02139 United States Department of Electrical and Computer Engineering Rice University HoustonTX77005 United States

Colloidal perovskite quantum dots (PQDs) are an exciting platform for on-demand quantum, and classical optoelectronic and photonic devices. However, their potential success is limited by the extreme sensitivity and low stability arising from their weak intrinsic lattice bond energy and complex surface chemistry. Here we report a novel platform of buried perovskite quantum dots (b-PQDs) in a three-dimensional perovskite thin-film, fabricated using one-step, flash annealing, which overcomes surface related instabilities in colloidal perovskite dots. The b-PQDs demonstrate ultrabright and stable single-dot emission, with resolution-limited linewidths below 130 μeV, photon-antibunching (g2(0)=0.1), no blinking, suppressed spectral diffusion, and high photon count rates of 104/s, consistent with unity quantum yield. The ultrasharp linewidth resolves exciton fine-structures (dark and triplet excitons) and their dynamics under a magnetic field. Additionally, b-PQDs can be electrically driven to emit single photons with 1 meV linewidth and photon-antibunching (g2(0)=0.4). These results pave the way for on-chip, low-cost single-photon sources for next generation quantum optical communication and sensing. © 2025, CC BY.

关键词： Photons

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Direct writing of PVBVA/Ti 3 C 2 T x (MXene) triboelectric nanogenerators for energy harvesting and sensing applications

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Nano Energy 2025年 142卷

作者： Ajay Pratap Fereshteh Rajabi Kouchi Hailey Burgoyne Michael Curtis Attila Rektor Myeong-Lok Seol Naqsh E. Mansoor Tony Valayil Varghese Josh Eixenberger Corey M. Efaw Matt Zuzelski Isaac Little Kiyo Fujimoto Zhangxian Deng Christopher E. Shuck Jessica E. Koehne David Estrada Micron School of Material Science and Engineering Boise State University Boise ID 83725 USA Biomolecular Sciences Graduate Program Boise State University Boise ID 83725 USA NASA Ames Research Center Universities Space Research Association Moffett Field CA 94035 USA Department of Physics Boise State University Boise ID 83725 USA Center for Advanced Energy Studies Boise State University Boise ID 83725 USA Department of Mechanical and Biomedical Engineering Boise State University Boise ID 83725 USA Idaho National Laboratory Idaho Falls ID 83415 USA A.J. Drexel Nanomaterials Institute and Department of Materials Science and Engineering Drexel University Philadelphia PA 19104 USA Department of Chemistry and Chemical Biology Rutgers University Piscataway NJ 08854 USA

Triboelectric nanogenerators (TENGs) have gained recognition for their potential to convert mechanical energy into electrical energy, making them attractive for applications in healthcare, robotics, and human-device interfaces. However, many TENG devices rely on fluorinated polymers for high charge generation and involve complex fabrication processes, which limit their practicality and environmental sustainability. Here, we developed an eco-friendly composite of poly (vinyl butyral-co-vinyl alcohol-co-vinyl acetate) (PVBVA) and Ti₃C₂T ₓ MXene for extrusion printing onto aluminum foil substrates, enabling the additive manufacturing of TENGs. Experimental results indicate that integrating 5.5 mg mL -1 of MXene (P-MX 5.5) into PVBVA resulted in a power density of 760 mW·m⁻², with simultaneous improvements in open-circuit voltage (129 %) and short-circuit current (250 %), demonstrating enhanced charge transfer efficiency. Beyond aluminum foil-based devices, we further explored the fully printed P-MX 5.5 TENG by utilizing silver ink electrodes, eliminating the need for aluminum foil. This fully printed, flexible TENG was successfully used for real-time human motion sensing, demonstrating its ability to detect activities such as walking, running, knee bending, and jumping. Collectively, our additively manufactured and sustainable PVBVA-MXene TENG composites, including both aluminum-based and fully printed versions, show promise for future energy harvesters, sensors, wearable electronics, healthcare, and robotic applications.

关键词： Triboelectric nanogenerator PVBVA MXene Additive manufacturing

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Correction to: An Easy-to-Fabricate Cell Stretcher Reveals Density-Dependent Mechanical Regulation of Collective Cell Movements in Epithelia

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Cellular and molecular bioengineering 2021年第6期14卷 661-662页

作者： Kevin C Hart Joo Yong Sim Matthew A Hopcroft Daniel J Cohen Jiongyi Tan W James Nelson Beth L Pruitt Department of Biology Stanford University Stanford CA 94305 USA. IGM Biosciences Mountain View CA 94043 USA. Department of Mechanical Engineering Stanford University Stanford CA 94305 USA. Sookmyung Women's University Seoul 04310 Republic of Korea. Red Dog Research Santa Barbara CA 93109 USA. Department of Mechanical Engineering University of California 494 UCEN Rd Santa BarbaraSanta Barbara CA USA. Department of Mechanical and Aerospace Engineering Princeton University Princeton NJ 08544 USA. Department of Biophysics Stanford University Stanford CA 94305 USA. Department of Cellular and Molecular Pharmacology University of California San Francisco San Francisco CA 94143 USA. Biomolecular Science and Engineering Program University of California Santa Barbara Santa Barbara CA 93106 USA.

[This corrects the article DOI: 10.1007/s12195-021-000689-6.].

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Artificial confocal microscopy for deep label-free imaging

arXiv

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arXiv 2021年

作者： Chen, Xi Kandel, Mikhail E. He, Shenghua Hu, Chenfei Lee, Young Jae Sullivan, Kathryn Tracy, Gregory Chung, Hee Jung Kong, Hyun Joon Anastasio, Mark Popescu, Gabriel Beckman Institute for Advanced Science and Technology University of Illinois at Urbana-Champaign UrbanaIL United States Department of Computer Science & Engineering Washington University in St. Louis St. LouisMO63130 United States Department of Electrical and Computer Engineering University of Illinois at Urbana-Champaign UrbanaIL United States Neuroscience Program University of Illinois at Urbana-Champaign UrbanaIL United States Department of Bioengineering University of Illinois at Urbana-Champaign UrbanaIL United States Department of Molecular and Integrative Physiology University of Illinois at Urbana-Champaign UrbanaIL United States Chemical and Biomolecular Engineering University of Illinois at Urbana-Champaign UrbanaIL United States Carl Woese Institute for Genomic Biology University of Illinois at Urbana-Champaign UrbanaIL United States

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