1
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Meng Z, Taneja S, Hassan R, Parquette JR. pH-Responsive Rhodamine Nanotube Capable of Self-Reporting the Assembly State. ACS APPLIED MATERIALS & INTERFACES 2024; 16:47089-47099. [PMID: 39197171 DOI: 10.1021/acsami.4c07280] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 08/30/2024]
Abstract
Nanomaterials that respond to intracellular signals, such as pH, have the potential for many biomedical applications, such as drug delivery, because the assembly/disassembly process can be tailored to respond to a stimulus characteristic of a specific subcellular location. In this work, two rhodamine-peptides that form stable nanotubes at physiological pH but dissociate into highly fluorescent monomers within the acidified interior of endosomal/lysosomal cellular compartments have been developed. The rhodamine dipeptide conjugates, NH2-KK(RhB)-NH2 (RhB-KK) and NH2-EK(RhB)-NH2 (RhB-KE) with rhodamine B chromophores appended at the ε-amino position of a lysine residue, were shown to assemble into well-defined nanotubes at pH values above ∼4-5 and to dissociate into a fluorescent monomer state at lower pH values. The pH dependence of the assembly process was investigated using circular dichroism (CD) and fluorescence spectroscopy along with transmission electron microscopy (TEM), atomic force microscopy (AFM), and confocal imaging. Although the ring opening/closing transition of the rhodamine chromophore took place at pH 4.1 for both peptides, the onset of assembly began at pH 4.6 for RhB-KE and at a comparatively more basic pH (5.8) for RhB-KK. Accordingly, the rhodamine-peptides interconverted between three pH-dependent states: an open-ring, monomeric state (λmax 580 nm, λex 550 nm) at pH values at or below ∼4.6; a closed-ring, nanotube form that exhibits AIEE (λmax 460 nm, λex = 330 nm) at higher pH values; a closed-ring, nonemissive monomeric state that emerged below the critical micelle concentrations (CMC). The pH-responsive features of the peptides were evaluated by live-cell imaging in three cancer cell lines using confocal laser scanning microscopy (CLSM). Visualizing the cells after incubation with either RhB-KE or RhB-KK produced CLSM images with a punctate appearance in the Texas Red channel that colocalized with the lysosomes. These experiments indicate that the nanotubes were rapidly trafficked into the acidic lysosomal compartments within the cells, which induced dissociation into a monomeric, open state. Uptake inhibition studies suggested that cellular uptake was mediated by either caveolae- or clathrin-mediated endocytosis, depending on the cell line studied.
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Affiliation(s)
- Ziyuan Meng
- Department of Chemistry and Biochemistry, The Ohio State University, 100 W. 18th Avenue, Columbus, Ohio 43210, United States
| | - Sagarika Taneja
- Department of Chemistry and Biochemistry, The Ohio State University, 100 W. 18th Avenue, Columbus, Ohio 43210, United States
| | - Reham Hassan
- Department of Chemistry and Biochemistry, The Ohio State University, 100 W. 18th Avenue, Columbus, Ohio 43210, United States
| | - Jon R Parquette
- Department of Chemistry and Biochemistry, The Ohio State University, 100 W. 18th Avenue, Columbus, Ohio 43210, United States
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2
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Liu B, Li X, Zhang JP, Li X, Yuan Y, Hou GH, Zhang HJ, Zhang H, Li Y, Mezzenga R. Protein Nanotubes as Advanced Material Platforms and Delivery Systems. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2024; 36:e2307627. [PMID: 37921269 DOI: 10.1002/adma.202307627] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2023] [Revised: 10/22/2023] [Indexed: 11/04/2023]
Abstract
Protein nanotubes (PNTs) as state-of-the-art nanocarriers are promising for various potential applications both in the food and pharmaceutical industries. Derived from edible starting sources like α-lactalbumin, lysozyme, and ovalbumin, PNTs bear properties of biocompatibility and biodegradability. Their large specific surface area and hydrophobic core facilitate chemical modification and loading of bioactive substances, respectively. Moreover, their enhanced permeability and penetration ability across biological barriers such as intestinal mucus, extracellular matrix, and thrombus clot, make it promising platforms for health-related applications. Most importantly, their simple preparation processes enable large-scale production, supporting applications in the biomedical and nanotechnological fields. Understanding the self-assembly principles is crucial for controlling their morphology, size, and shape, and thus provides the ground to a multitude of applications. Here, the current state-of-the-art of PNTs including their building materials, physicochemical properties, and self-assembly mechanisms are comprehensively reviewed. The advantages and limitations, as well as challenges and prospects for their successful applications in biomaterial and pharmaceutical sectors are then discussed and highlighted. Potential cytotoxicity of PNTs and the need of regulations as critical factors for enabling in vivo applications are also highlighted. In the end, a brief summary and future prospects for PNTs as advanced platforms and delivery systems are included.
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Affiliation(s)
- Bin Liu
- Key Laboratory of Precision Nutrition and Food Quality, Research Center of Food Colloids and Delivery of Functionality, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, P. R. China
- Department of Nutrition and Health, China Agricultural University, Beijing, 100091, P. R. China
| | - Xing Li
- Key Laboratory of Precision Nutrition and Food Quality, Research Center of Food Colloids and Delivery of Functionality, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, P. R. China
| | - Ji Peng Zhang
- Key Laboratory of Precision Nutrition and Food Quality, Research Center of Food Colloids and Delivery of Functionality, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, P. R. China
| | - Xin Li
- Key Laboratory of Precision Nutrition and Food Quality, Research Center of Food Colloids and Delivery of Functionality, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, P. R. China
| | - Yu Yuan
- Key Laboratory of Precision Nutrition and Food Quality, Research Center of Food Colloids and Delivery of Functionality, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, P. R. China
| | - Guo Hua Hou
- Key Laboratory of Precision Nutrition and Food Quality, Research Center of Food Colloids and Delivery of Functionality, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, P. R. China
| | - Hui Juan Zhang
- Key Laboratory of Precision Nutrition and Food Quality, Research Center of Food Colloids and Delivery of Functionality, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, P. R. China
| | - Hui Zhang
- Key Laboratory of Precision Nutrition and Food Quality, Research Center of Food Colloids and Delivery of Functionality, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, P. R. China
| | - Yuan Li
- Key Laboratory of Precision Nutrition and Food Quality, Research Center of Food Colloids and Delivery of Functionality, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, P. R. China
| | - Raffaele Mezzenga
- Department of Health Sciences and Technology, ETH Zurich, Zürich, 8092, Switzerland
- Department of Materials, ETH Zurich, Zürich, 8092, Switzerland
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3
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Chang DH, Lee MR, Wang N, Lynn DM, Palecek SP. Establishing Quantifiable Guidelines for Antimicrobial α/β-Peptide Design: A Partial Least-Squares Approach to Improve Antimicrobial Activity and Reduce Mammalian Cell Toxicity. ACS Infect Dis 2023; 9:2632-2651. [PMID: 38014670 PMCID: PMC10807133 DOI: 10.1021/acsinfecdis.3c00468] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2023]
Abstract
Antimicrobial peptides (AMPs) are promising candidates to combat pathogens that are resistant to conventional antimicrobial drugs because they operate through mechanisms that involve membrane disruption. However, the use of AMPs in clinical settings has been limited, at least in part, by their susceptibility to proteolytic degradation and their lack of selectivity toward pathogenic microbes vs mammalian cells. We recently reported on the design of α- and β-peptide oligomers structurally templated upon the naturally occurring α-helical AMP aurein 1.2. These α/β-peptide oligomers are more proteolytically stable than aurein 1.2 and have several other attributes that render them attractive as alternatives to conventional AMPs. This study describes the influence of peptide physicochemical properties on the broad-spectrum activity of aurein 1.2-based α/β-peptide mimics against nine bacterial, fungal, and mammalian cell lines. We used a partial least-squares regression (PLSR)-supervised machine learning model to quantify and visualize relationships between experimentally determined physicochemical properties (e.g., hydrophobicity, charge, and helicity) and experimentally measured cell-type-specific activities of 21 peptides in a 149-member α/β-peptide library. Using this approach, we identified several peptides that were predicted to exhibit enhanced broad-spectrum selectivity, a measure that evaluates antimicrobial activity relative to mammalian cell toxicity compared to aurein 1.2. Experimental validation demonstrated high model predictive performance, and characterization of compounds with the highest broad-spectrum selectivity revealed peptide hydrophobicity, helicity, and helical rigidity to be strong predictors of broad-spectrum selectivity. The most selective peptide identified from the model prediction has more than a 13-fold improvement in broad-spectrum selectivity than that of aurein 1.2, demonstrating the ability of using PLSR models to identify quantitative structure-function relationships for nonstandard amino acid-containing peptides. Overall, this work establishes quantifiable guidelines for the rational design of helical antimicrobial α/β-peptides and identifies promising new α/β-peptides with significantly reduced mammalian toxicities and improved antifungal and antibacterial activities relative to aurein 1.2.
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Affiliation(s)
- Douglas H. Chang
- Department of Chemical & Biological Engineering, University of Wisconsin–Madison, 1415 Engineering Dr., Madison, WI 53706, USA
| | - Myung-Ryul Lee
- Department of Chemical & Biological Engineering, University of Wisconsin–Madison, 1415 Engineering Dr., Madison, WI 53706, USA
| | - Nathan Wang
- Department of Chemical & Biological Engineering, University of Wisconsin–Madison, 1415 Engineering Dr., Madison, WI 53706, USA
| | - David M. Lynn
- Department of Chemical & Biological Engineering, University of Wisconsin–Madison, 1415 Engineering Dr., Madison, WI 53706, USA
- Department of Chemistry, University of Wisconsin–Madison, 1101 University Ave., Madison, WI 53706, USA
| | - Sean P. Palecek
- Department of Chemical & Biological Engineering, University of Wisconsin–Madison, 1415 Engineering Dr., Madison, WI 53706, USA
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4
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Castelletto V, de Mello L, da Silva ER, Seitsonen J, Hamley IW. Self-Assembly and Cytocompatibility of Amino Acid Conjugates Containing a Novel Water-Soluble Aromatic Protecting Group. Biomacromolecules 2023; 24:5403-5413. [PMID: 37914531 PMCID: PMC10646988 DOI: 10.1021/acs.biomac.3c00860] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2023] [Revised: 10/11/2023] [Accepted: 10/11/2023] [Indexed: 11/03/2023]
Abstract
There has been considerable interest in peptides in which the Fmoc (9-fluorenylmethoxycarbonyl) protecting group is retained at the N-terminus, since this bulky aromatic group can drive self-assembly, and Fmoc-peptides are biocompatible and have applications in cell culture biomaterials. Recently, analogues of new amino acids with 2,7-disulfo-9-fluorenylmethoxycarbonyl (Smoc) protecting groups have been developed for water-based peptide synthesis. Here, we report on the self-assembly and biocompatibility of Smoc-Ala, Smoc-Phe and Smoc-Arg as examples of Smoc conjugates to aliphatic, aromatic, and charged amino acids, respectively. Self-assembly occurs at concentrations above the critical aggregation concentration (CAC). Cryo-TEM imaging and SAXS reveal the presence of nanosheet, nanoribbon or nanotube structures, and spectroscopic methods (ThT fluorescence circular dichroism and FTIR) show the presence of β-sheet secondary structure, although Smoc-Ala solutions contain significant unaggregated monomer content. Smoc shows self-fluorescence, which was used to determine CAC values of the Smoc-amino acids from fluorescence assays. Smoc fluorescence was also exploited in confocal microscopy imaging with fibroblast cells, which revealed its uptake into the cytoplasm. The biocompatibility of these Smoc-amino acids was found to be excellent with zero cytotoxicity (in fact increased metabolism) to fibroblasts at low concentration.
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Affiliation(s)
- Valeria Castelletto
- School
of Chemistry, Food Biosciences and Pharmacy, University of Reading, Whiteknights, Reading RG6 6AD, United Kingdom
| | - Lucas de Mello
- School
of Chemistry, Food Biosciences and Pharmacy, University of Reading, Whiteknights, Reading RG6 6AD, United Kingdom
- Departamento
de Biofísica, Universidade Federal
de São Paulo, São
Paulo 04023-062, Brazil
| | | | - Jani Seitsonen
- Nanomicroscopy
Center, Aalto University, Puumiehenkuja 2, FIN-02150 Espoo, Finland
| | - Ian W Hamley
- School
of Chemistry, Food Biosciences and Pharmacy, University of Reading, Whiteknights, Reading RG6 6AD, United Kingdom
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5
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Shen Y, Wang Y, Hamley IW, Qi W, Su R, He Z. Chiral self-assembly of peptides: Toward the design of supramolecular polymers with enhanced chemical and biological functions. Prog Polym Sci 2021. [DOI: 10.1016/j.progpolymsci.2021.101469] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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6
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Lebedenko CG, Banerjee IA. Investigation of Self‐Assembly of Symmetric and Asymmetric Peptide Bolaamphiphiles by COSMO‐RS and Atomistic Simulations and Their Interactions with POPC Bilayers. MACROMOL THEOR SIMUL 2021. [DOI: 10.1002/mats.202100066] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
| | - Ipsita A. Banerjee
- Department of Chemistry Fordham University 441 East Fordham Road Bronx NY 10458 USA
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7
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Wang Y, An Y, Shmidov Y, Bitton R, Deshmukh SA, Matson JB. A combined experimental and computational approach reveals how aromatic peptide amphiphiles self-assemble to form ion-conducting nanohelices. MATERIALS CHEMISTRY FRONTIERS 2020; 4:3022-3031. [PMID: 33163198 PMCID: PMC7643854 DOI: 10.1039/d0qm00369g] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
Reported here is a combined experimental-computational strategy to determine structure-property-function relationships in persistent nanohelices formed by a set of aromatic peptide amphiphile (APA) tetramers with the general structure K S XEK S , where KS= S-aroylthiooxime modified lysine, X = glutamic acid or citrulline, and E = glutamic acid. In low phosphate buffer concentrations, the APAs self-assembled into flat nanoribbons, but in high phosphate buffer concentrations they formed nanohelices with regular twisting pitches ranging from 9-31 nm. Coarse-grained molecular dynamics simulations mimicking low and high salt concentrations matched experimental observations, and analysis of simulations revealed that increasing strength of hydrophobic interactions under high salt conditions compared with low salt conditions drove intramolecular collapse of the APAs, leading to nanohelix formation. Analysis of the radial distribution functions in the final self-assembled structures led to several insights. For example, comparing distances between water beads and beads representing hydrolysable KS units in the APAs indicated that the KS units in the nanohelices should undergo hydrolysis faster than those in the nanoribbons; experimental results verified this hypothesis. Simulation results also suggested that these nanohelices might display high ionic conductivity due to closer packing of carboxylate beads in the nanohelices than in the nanoribbons. Experimental results showed no conductivity increase over baseline buffer values for unassembled APAs, a slight increase (0.4 × 102 μS/cm) for self-assembled APAs under low salt conditions in their nanoribbon form, and a dramatic increase (8.6 × 102 μS/cm) under high salt conditions in their nanohelix form. Remarkably, under the same salt conditions, these self-assembled nanohelices conducted ions 5-10-fold more efficiently than several charged polymers, including alginate and DNA. These results highlight how experiments and simulations can be combined to provide insight into how molecular design affects self-assembly pathways; additionally, this work highlights how this approach can lead to discovery of unexpected properties of self-assembled nanostructures.
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Affiliation(s)
- Yin Wang
- Department of Chemistry, Virginia Tech Center for Drug Discovery, and Macromolecules Innovation Institute, Virginia Tech, Blacksburg, VA 24061, United States
| | - Yaxin An
- Department of Chemical Engineering, Virginia Tech, Blacksburg, VA 24061, United States
| | - Yulia Shmidov
- Department of Chemical Engineering and the Ilse Katz Institute for Nanoscale Science and Technology, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel
| | - Ronit Bitton
- Department of Chemical Engineering and the Ilse Katz Institute for Nanoscale Science and Technology, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel
| | - Sanket A Deshmukh
- Department of Chemical Engineering, Virginia Tech, Blacksburg, VA 24061, United States
| | - John B Matson
- Department of Chemistry, Virginia Tech Center for Drug Discovery, and Macromolecules Innovation Institute, Virginia Tech, Blacksburg, VA 24061, United States
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8
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Rüter A, Kuczera S, Stenhammar J, Zinn T, Narayanan T, Olsson U. Tube to ribbon transition in a self-assembling model peptide system. Phys Chem Chem Phys 2020; 22:18320-18327. [PMID: 32785353 DOI: 10.1039/d0cp03204b] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Peptides that self-assemble into β-sheet rich aggregates are known to form a large variety of supramolecular shapes, such as ribbons, tubes or sheets. However, the underlying thermodynamic driving forces for such different structures are still not fully understood, limiting their potential applications. In the AnK peptide system (A = alanine, K = lysine), a structural transition from tubes to ribbons has been shown to occur upon an increase of the peptide length, n, from 6 to 8. In this work we analyze this transition by means of a simple thermodynamic model. We consider three energy contributions to the total free energy: an interfacial tension, a penalty for deviating from the optimal β-sheet twist angle, and a hydrogen bond deformation when the β-sheets adopt a specific self-assembled structure. Whilst the first two contributions merely provide similar constant energy offsets, the hydrogen bond deformations differ depending on the studied structure. Consequently, the tube structure is thermodynamically favored for shorter AnK peptides, with a crossover at n≈ 13. This qualitative agreement of the model with the experimental observations shows, that we have achieved a good understanding of the underlying thermodynamic features within the self-assembling AnK system.
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Affiliation(s)
- Axel Rüter
- Division of Physical Chemistry, Lund University, SE-22100 Lund, Sweden.
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9
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Kuczera S, Rüter A, Roger K, Olsson U. Two Dimensional Oblique Molecular Packing within a Model Peptide Ribbon Aggregate. Chemphyschem 2020; 21:1519-1523. [PMID: 32573909 PMCID: PMC7496194 DOI: 10.1002/cphc.201901126] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2019] [Revised: 04/29/2020] [Indexed: 11/12/2022]
Abstract
A10 K (A=alanine, K=lysine) model peptides self-assemble into ribbon-like β-sheet aggregates. Here, we report an X-ray diffraction investigation on a flow-aligned dispersion of these self-assembly structures. The two-dimensional wide-angle X-ray scattering pattern suggests that peptide pack in a two-dimensional oblique lattice, essentially identical to the crystalline packing of polyalanine, An (for n>4). One side of the oblique unit cell, corresponding to the anti-parallel β-sheet, is oriented along the ribbon's axis. Together with recently published small angle X-ray scattering data of the same system, this work thus yields a detailed description of the self-assembled ribbon aggregates, down to the molecular length scale. Notably, our results highlight the importance of the crystalline peptide packing within its self-assembly aggregates, which is often neglected.
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Affiliation(s)
- Stefan Kuczera
- Division of Physical ChemistryLund UniversitySE-22100LundSweden
- Institute of Clinical SciencesSahlgrenska AcademyGothenburg UniversityGothenburgSE-405 30Sweden
| | - Axel Rüter
- Division of Physical ChemistryLund UniversitySE-22100LundSweden
| | - Kevin Roger
- Laboratoire de Génie ChimiqueUniversité de ToulouseCNRSInstitut National Polytechnique de ToulouseUniversité Paul Sabatier31030ToulouseFrance
| | - Ulf Olsson
- Division of Physical ChemistryLund UniversitySE-22100LundSweden
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10
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Qian C, Wang J, Qian Y, Hu R, Zou J, Zhu C, Zhu Y, Qi S, Jia X, Wu L, Li W, Chen Z. Tumor-Cell-Surface Adherable Peptide-Drug Conjugate Prodrug Nanoparticles Inhibit Tumor Metastasis and Augment Treatment Efficacy. NANO LETTERS 2020; 20:4153-4161. [PMID: 32462880 DOI: 10.1021/acs.nanolett.0c00152] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Cancer metastasis is the main cause of chemotherapeutic failure. Inhibiting the activity of matrix metalloproteinases (MMPs) is a common strategy for reducing metastasis. However, broad-spectrum MMP-inhibitors (MMPI) may cause undesired side effects. Here, we screened a selective MMP2 inhibitor (CCKIGLFRWR) and linked it with doxorubicin (DOX) to produce an amphiphilic peptide-drug conjugate (PDC). Then novel core-shell nanoparticles were self-assembled from PDC core and modified polylysine (MPL) shell. When the particles were passively targeted to the tumor site, the PDC core was exposed for charge switch of the MPL shell, aggregated for its transformation behavior, and specially adhered to the cell membrane. The disulfide bond between the MMPI peptide and DOX was broken via a low concentration of glutathione-mediated reduction in tumor microenvironment. DOX could effectively enter the tumor cells. Meanwhile, the MMPI peptide could selectively inhibit the activity of the MMP2 and effectively inhibit tumor metastasis.
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Affiliation(s)
- Chen Qian
- College of Pharmacy, Nanjing University of Chinese Medicine, Nanjing 210023, China
| | - Jingjing Wang
- College of Pharmacy, Nanjing University of Chinese Medicine, Nanjing 210023, China
| | - Ying Qian
- College of Pharmacy, Nanjing University of Chinese Medicine, Nanjing 210023, China
| | - Rongfeng Hu
- Key Laboratory of Xin'an Medicine, Ministry of Education, Anhui Province Key Laboratory of R&D of Chinese Medicine, Anhui University of Chinese Medicine, Hefei, Anhui 230038, China
| | - Jiayu Zou
- College of Pharmacy, Nanjing University of Chinese Medicine, Nanjing 210023, China
| | - Chenqi Zhu
- College of Pharmacy, Nanjing University of Chinese Medicine, Nanjing 210023, China
- Department of Pharmacy, the Affiliated Suzhou Hospital of Nanjing Medical University, Suzhou 215002, China
| | - Yuan Zhu
- College of Pharmacy, Nanjing University of Chinese Medicine, Nanjing 210023, China
| | - Shuyang Qi
- College of Pharmacy, Nanjing University of Chinese Medicine, Nanjing 210023, China
| | - Xiaobin Jia
- School of Traditional Chinese Pharmacy, China Pharmaceutical University, Nanjing 211198, China
| | - Li Wu
- College of Pharmacy, Nanjing University of Chinese Medicine, Nanjing 210023, China
| | - Weidong Li
- College of Pharmacy, Nanjing University of Chinese Medicine, Nanjing 210023, China
| | - Zhipeng Chen
- College of Pharmacy, Nanjing University of Chinese Medicine, Nanjing 210023, China
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11
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Zaldivar G, Conda-Sheridan M, Tagliazucchi M. Twisting of Charged Nanoribbons to Helicoids Driven by Electrostatics. J Phys Chem B 2020; 124:3221-3227. [DOI: 10.1021/acs.jpcb.0c01301] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Affiliation(s)
- Gervasio Zaldivar
- Instituto de Química Física de los Materiales, Medio Ambiente y Energía and Departamento de Química Inorgánica Analítica y Química Física, University of Buenos Aires, School of Sciences, Ciudad Universitaria, Pabellón 2, Ciudad Autónoma de Buenos Aires C1428EHA, Argentina
| | - Martin Conda-Sheridan
- Department of Pharmaceutical Sciences, College of Pharmacy, University of Nebraska Medical Center, Omaha, Nebraska 68198-6125, United States
| | - Mario Tagliazucchi
- Instituto de Química Física de los Materiales, Medio Ambiente y Energía and Departamento de Química Inorgánica Analítica y Química Física, University of Buenos Aires, School of Sciences, Ciudad Universitaria, Pabellón 2, Ciudad Autónoma de Buenos Aires C1428EHA, Argentina
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12
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Deng L, Wang Y. Multiscale computational prediction of β-sheet peptide self-assembly morphology. MOLECULAR SIMULATION 2020. [DOI: 10.1080/08927022.2020.1738426] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Affiliation(s)
- Li Deng
- BGI-Qingdao, Qingdao, People’s Republic of China
- State Key Laboratory of Agricultural Genomics, Shenzhen, People’s Republic of China
- China National GeneBank, Shenzhen, People’s Republic of China
| | - Yanting Wang
- CAS Key Laboratory of Theoretical Physics, Institute of Theoretical Physics, Chinese Academy of Sciences, Beijing, People’s Republic of China
- School of Physical Sciences, University of Chinese Academy of Sciences, Beijing, People’s Republic of China
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13
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Talloj SK, Mohammed M, Lin HC. Construction of self-assembled nanostructure-based tetraphenylethylene dipeptides: supramolecular nanobelts as biomimetic hydrogels for cell adhesion and proliferation. J Mater Chem B 2020; 8:7483-7493. [DOI: 10.1039/d0tb01147a] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
A novel TPE-YY peptide hydrogelator self-assembled to form twisted nanobelts at neutral pH, upon cultured with 3A6 cells showed selective cell adhesion and growth.
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Affiliation(s)
- Satish Kumar Talloj
- Department of Materials Science and Engineering
- National Chiao Tung University
- Hsinchu 30010
- Taiwan
| | - Mohiuddin Mohammed
- Department of Materials Science and Engineering
- National Chiao Tung University
- Hsinchu 30010
- Taiwan
| | - Hsin-Chieh Lin
- Department of Materials Science and Engineering
- National Chiao Tung University
- Hsinchu 30010
- Taiwan
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14
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Shimizu T. Self-Assembly of Discrete Organic Nanotubes. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2018. [DOI: 10.1246/bcsj.20170424] [Citation(s) in RCA: 80] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Toshimi Shimizu
- AIST Fellow, National Institute of Advanced Industrial Science and Technology, Tsukuba Central 5, 1-1-1 Higashi, Tsukuba, Ibaraki 305-8565, Japan
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15
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Lee M, Kim JI, Na S, Eom K. Metal ions affect the formation and stability of amyloid β aggregates at multiple length scales. Phys Chem Chem Phys 2018; 20:8951-8961. [PMID: 29557445 DOI: 10.1039/c7cp05072k] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Amyloid β (Aβ) aggregates, which are a hallmark for neurodegenerative disease, are formed through a self-assembly process such as aggregation of Aβ peptide chains. This aggregation process depends on the solvent conditions under which the proteins are aggregated. Nevertheless, the underlying mechanism of the ionic effect on the formation and stability of amyloid aggregates has not been fully understood. Here, we report how metal ions play a role in the formation and stability of Aβ aggregates at different length scales, i.e. oligomers and fibrils. It is shown that the metal (i.e. zinc or copper) ion increases the stability of Aβ oligomers, whereas the metal ion reduces the stability of Aβ fibrils. In addition, we found that zinc ions are able to more effectively destabilize fibril structures than copper ions. Metal ion-mediated (de)stabilization of Aβ oligomers (or fibrils) is attributed to the critical effect of the metal ion on the β-sheet rich crystalline structure of the amyloid aggregate and the status of hydrogen bonds within the aggregate. Our study sheds light on the role of the metal ion in stabilizing the amyloid oligomers known as a toxic agent (to functional cells), which is consistent with clinical observation that high concentrations of metal ions are found in patients suffering from neurodegenerative diseases.
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Affiliation(s)
- Myeongsang Lee
- Institute of Advanced Machinery Design Technology, Korea University, Seoul 02481, Republic of Korea
| | - Jae In Kim
- Department of Mechanical Engineering, Korea University, Seoul 02481, Republic of Korea.
| | - Sungsoo Na
- Department of Mechanical Engineering, Korea University, Seoul 02481, Republic of Korea.
| | - Kilho Eom
- Biomechanics Laboratory, College of Sport Science, Sungkyunkwan University (SKKU), Suwon 16419, Republic of Korea.
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16
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Insuasty A, Atienza C, López JL, Martín N. Supramolecular pentapeptide-based fullerene nanofibers: effect of molecular chirality. Chem Commun (Camb) 2016; 51:10506-9. [PMID: 26037709 DOI: 10.1039/c5cc01991e] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
The supramolecular organization of new fullerene derivatives endowed with peptides as biomolecular templates affords ordered nanofibers of several micrometres length based on hydrogen bonds and π-π interactions.
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Affiliation(s)
- Alberto Insuasty
- Departamento de Química Orgánica, Facultad de C. C. Químicas, Universidad Complutense de Madrid, 28040 Madrid, Spain.
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17
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Two-Dimensional Peptide and Protein Assemblies. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2016; 940:29-60. [PMID: 27677508 DOI: 10.1007/978-3-319-39196-0_3] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
Two-dimensional nanoscale assemblies (nanosheets) represent a promising structural platform to arrange molecular and supramolecular substrates with precision for integration into devices. This nanoarchitectonic approach has gained significant traction over the last decade, as a general concept to guide the fabrication of functional nanoscale devices. Sequence-specific biomolecules, e.g., peptides and proteins, may be considered excellent substrates for the fabrication of two-dimensional nanoarchitectonics. Molecular level instructions can be encoded within the sequence of monomers, which allows for control over supramolecular structure if suitable design principles could be elaborated. Due to the complexity of interactions between protomers, the development of principles aimed toward rational design of peptide and protein nanosheets is at a nascent stage. This review discusses the known two-dimensional peptide and protein assemblies to further our understanding of how to control the arrangement of molecules in two-dimensions.
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18
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Carballo-Pacheco M, Ismail AE, Strodel B. Oligomer Formation of Toxic and Functional Amyloid Peptides Studied with Atomistic Simulations. J Phys Chem B 2015; 119:9696-705. [PMID: 26130191 DOI: 10.1021/acs.jpcb.5b04822] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
Amyloids are associated with diseases, including Alzheimer's, as well as functional roles such as storage of peptide hormones. It is still unclear what differences exist between aberrant and functional amyloids. However, it is known that soluble oligomers formed during amyloid aggregation are more toxic than the final fibrils. Here, we perform molecular dynamics simulations to study the aggregation of the amyloid-β peptide Aβ25-35, associated with Alzheimer's disease, and two functional amyloid-forming tachykinin peptides: kassinin and neuromedin K. Although the three peptides have similar primary sequences, tachykinin peptides, in contrast to Aβ25-35, form nontoxic amyloids. Our simulations reveal that the charge of the C-terminus is essential to controlling the aggregation process. In particular, when the kassinin C-terminus is not amidated, the aggregation kinetics decreases considerably. In addition, we observe that the monomeric peptides in extended conformations aggregate faster than those in collapsed hairpin-like conformations.
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Affiliation(s)
- Martín Carballo-Pacheco
- †AICES Graduate School and Aachener Verfahrenstechnik: Molecular Simulations and Transformations, RWTH Aachen University, Schinkelstraße 2, 52062 Aachen, Germany.,‡Institute of Complex Systems: Structural Biochemistry (ICS-6), Forschungszentrum Jülich GmbH, 52425 Jülich, Germany
| | - Ahmed E Ismail
- †AICES Graduate School and Aachener Verfahrenstechnik: Molecular Simulations and Transformations, RWTH Aachen University, Schinkelstraße 2, 52062 Aachen, Germany
| | - Birgit Strodel
- ‡Institute of Complex Systems: Structural Biochemistry (ICS-6), Forschungszentrum Jülich GmbH, 52425 Jülich, Germany.,¶Institute of Theoretical and Computational Chemistry, Heinrich Heine University Düsseldorf, Universitätstraße 1, 40225 Düsseldorf, Germany
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19
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Pachahara SK, Nagaraj R. Probing the role of aromatic residues in the self-assembly of Aβ(16-22) in fluorinated alcohols and their aqueous mixtures. Biochem Biophys Rep 2015; 2:1-13. [PMID: 29124140 PMCID: PMC5668628 DOI: 10.1016/j.bbrep.2015.04.005] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2015] [Revised: 04/16/2015] [Accepted: 04/17/2015] [Indexed: 11/19/2022] Open
Abstract
The Aβ(16–22) sequence KLVFFAE spans the hydrophobic core of the Aβ peptide and plays an important role in its self-assembly. Apart from forming amyloid fibrils, Aβ(16–22) can self-associate into highly ordered nanotubes and ribbon-like structures depending on the composition of solvent used for dissolution. The Aβ(16–22) sequence which has FF at the 19th and 20th positions would be a good model to investigate peptide self-assembly in the context of aromatic interactions. In this study, self-assembly of Aβ(16–22) and its aromatic analogs obtained by replacement of F19, F20 or both by Y or W was examined after dissolution in fluorinated alcohols and their aqueous mixtures in solvent cluster forming conditions. The results indicate that the presence of aromatic residues Y and W and their position in the sequence plays an important role in self-assembly. We observe the formation of amyloid fibrils and other self-assembled structures such as spheres, rings and beads. Our results indicate that 20% HFIP is more favourable for amyloid fibril formation as compared to 20% TFE, when F is replaced with Y or W. The dissolution of peptides in DMSO followed by evaporation of solvent and dissolution in water appears to greatly influence peptide conformation, morphology and cross-β content of self-assembled structures. Our study shows that positioning of aromatic residues F, Y and W have an important role in directing self-assembly of the peptides. Effect of fluorinated alcohols on the aggregation of Aβ(16–22) and analogs was investigated. Replacement of F by Y and W in the Aβ(16–22) sequence modulates self-assembly. Positions of F, Y, W in Aβ(16–22) plays an important role in self-assembly.
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20
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Pearce TR, Kokkoli E. DNA nanotubes and helical nanotapes via self-assembly of ssDNA-amphiphiles. SOFT MATTER 2015; 11:109-117. [PMID: 25370121 DOI: 10.1039/c4sm01332h] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
DNA nanotubes were created using molecular self-assembly of single-stranded DNA (ssDNA)-amphiphiles composed of a hydrophobic dialkyl tail and polycarbon spacer and a hydrophilic ssDNA headgroup. The nanotube structures were formed by bilayers of amphiphiles, with the hydrophobic components forming an inner layer that was shielded from the aqueous solvent by an outer layer of ssDNA. The nanotubes appeared to form via an assembly process that included transitions from twisted nanotapes to helical nanotapes to nanotubes. Amphiphiles that contained different ssDNA headgroups were created to explore the effect of the length and secondary structure of the ssDNA headgroup on the self-assembly behavior of the amphiphiles in the presence and absence of the polycarbon spacer. It was found that nanotubes could be formed using a variety of headgroup lengths and sequences. The ability to create nanotubes via ssDNA-amphiphile self-assembly offers an alternative to the other purely DNA-based approaches like DNA origami and DNA tile assembly for constructing these structures and may be useful for applications in drug delivery, biosensing, and electronics.
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Affiliation(s)
- Timothy R Pearce
- Department of Biomedical Engineering, University of Minnesota, Minneapolis, MN 55455, USA
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21
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Angelova A, Angelov B, Mutafchieva R, Lesieur S. Biocompatible Mesoporous and Soft Nanoarchitectures. J Inorg Organomet Polym Mater 2014. [DOI: 10.1007/s10904-014-0143-8] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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22
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Usov I, Mezzenga R. Correlation between nanomechanics and polymorphic conformations in amyloid fibrils. ACS NANO 2014; 8:11035-11041. [PMID: 25275956 DOI: 10.1021/nn503530a] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Amyloid fibrils occur in diverse morphologies, but how polymorphism affects the resulting mechanical properties is still not fully appreciated. Using formalisms from the theory of elasticity, we propose an original way of averaging the second area moment of inertia for non-axisymmetric fibrils, which constitutes the great majority of amyloid fibrils. By following this approach, we derive theoretical expressions for the bending properties of the most common polymorphic forms of amyloid fibrils (twisted ribbons, helical ribbons, and nanotubes), and we benchmark the predictions to experimental cases. These results not only allow an accurate estimation of the amyloid fibrils' elastic moduli but also bring insight into the structure-property relationships in the nanomechanics of amyloid systems, such as in the closure of helical ribbons into nanotubes.
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Affiliation(s)
- Ivan Usov
- Food & Soft Materials Science, Department of Health Science & Technology, ETH Zurich , Schmelzbergstrasse 9, LFO E23, 8092 Zurich, Switzerland
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23
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Otsuka T, Maeda T, Hotta A. Effects of Salt Concentrations of the Aqueous Peptide-Amphiphile Solutions on the Sol–Gel Transitions, the Gelation Speed, and the Gel Characteristics. J Phys Chem B 2014; 118:11537-45. [DOI: 10.1021/jp5031569] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Takahiro Otsuka
- Department of Mechanical
Engineering, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama 223-8522, Japan
| | - Tomoki Maeda
- Department of Mechanical
Engineering, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama 223-8522, Japan
| | - Atsushi Hotta
- Department of Mechanical
Engineering, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama 223-8522, Japan
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24
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Xue Y, He L, Middelberg APJ, Mark AE, Poger D. Determining the structure of interfacial peptide films: comparing neutron reflectometry and molecular dynamics simulations. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2014; 30:10080-9. [PMID: 25093605 DOI: 10.1021/la501715h] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
The peptides AM1 and Lac21E self-organize into switchable films at an air-water interface. In an earlier study, it was proposed that both AM1 and Lac21E formed monolayers of α-helical peptides based on consistency with neutron reflectivity data. In this article, molecular dynamics simulations of assemblies of helical and nonhelical AM1 and Lac21E at an air-water interface suggest some tendency for the peptides to spontaneously adopt an α-helical conformation. However, irrespective of the structure of the peptides, the simulations reproduced not only the structural properties of the films (thickness and distribution of the hydrophobic and hydrophilic amino acids) but also the experimental neutron reflectivity measurements at different contrast variations. This suggests that neutron reflectometry alone cannot be used to determine the structure of the peptides in this case. However, together with molecular dynamics simulations, it is possible to obtain a detailed understanding of peptide films at an atomic level.
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Affiliation(s)
- Ying Xue
- Groningen Biomolecular Sciences and Biotechnology Institute, Department of Biophysical Chemistry, University of Groningen , Groningen, The Netherlands
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25
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Mu Y, Yu M. Effects of hydrophobic interaction strength on the self-assembled structures of model peptides. SOFT MATTER 2014; 10:4956-4965. [PMID: 24888420 DOI: 10.1039/c4sm00378k] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Stable and ordered self-assembled peptide nanostructures are formed as a result of cooperative effects of various relatively weak intermolecular interactions. We systematically studied the influence of hydrophobic interaction strength and temperature on the self-assembly of peptides with a coarse-grained model by Monte Carlo simulations. The simulation results show a rich phase behavior of peptide self-assembly, indicating that the formation and morphology of peptide assemblies may be tuned by varying the temperature and the strength of hydrophobic interactions. There exist optimal combinations of temperature and hydrophobic interaction strength where ordered fibrillar nanostructures are readily formed. Our simulation results not only facilitate the understanding of the self-assembly behavior of peptides at the molecular level, but also provide useful insights into the development of fabrication strategies for high-quality peptide fibrils.
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Affiliation(s)
- Yan Mu
- College of Materials Science and Engineering, South China University of Technology, Guangzhou, Guangdong, China.
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26
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v Berlepsch H, Ludwig K, Schade B, Haag R, Böttcher C. Progress in the direct structural characterization of fibrous amphiphilic supramolecular assemblies in solution by transmission electron microscopic techniques. Adv Colloid Interface Sci 2014; 208:279-92. [PMID: 24508499 DOI: 10.1016/j.cis.2014.01.007] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2013] [Revised: 01/09/2014] [Accepted: 01/11/2014] [Indexed: 11/28/2022]
Abstract
The self-assembly of amphiphilic molecules into fibrous structures has been the subject of numerous studies over past decades due to various current and promising technical applications. Although very different in their head group chemistry many natural as well as synthetic amphiphilic compounds derived from carbohydrates, carbocyanine dyes, or amino acids tend to form fibrous structures by molecular self-assembly in water predominantly twisted ribbons or tubes. Often a transition between these assembly structures is observed, which is a phenomenon already theoretically approached by Wolfgang Helfrich and still focus point in current research. With the development of suitable sample preparation and electron optical imaging techniques, cryogenic transmission electron microscopy (cryo-TEM) in combination with three-dimensional (3D) reconstruction techniques has become a particular popular direct characterization technique for supramolecular assemblies in general. Here we review the recent progress in deriving precise structural information from cryo-TEM data of particularly fibrous structures preferably in three dimensions.
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Affiliation(s)
- Hans v Berlepsch
- Forschungszentrum für Elektronenmikroskopie, Institut für Chemie und Biochemie, Freie Universität Berlin, Fabeckstraße 36a, 14195 Berlin, Germany; Core Facility BioSupraMol an der Freien Universität Berlin, Fabeckstraße 36a, 14195 Berlin, Germany
| | - Kai Ludwig
- Forschungszentrum für Elektronenmikroskopie, Institut für Chemie und Biochemie, Freie Universität Berlin, Fabeckstraße 36a, 14195 Berlin, Germany
| | - Boris Schade
- Forschungszentrum für Elektronenmikroskopie, Institut für Chemie und Biochemie, Freie Universität Berlin, Fabeckstraße 36a, 14195 Berlin, Germany
| | - Rainer Haag
- Core Facility BioSupraMol an der Freien Universität Berlin, Fabeckstraße 36a, 14195 Berlin, Germany; Institut für Chemie und Biochemie - Organische Chemie, Freie Universität Berlin, Takustraße 3, 14195 Berlin, Germany
| | - Christoph Böttcher
- Forschungszentrum für Elektronenmikroskopie, Institut für Chemie und Biochemie, Freie Universität Berlin, Fabeckstraße 36a, 14195 Berlin, Germany.
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27
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Meier C, Weil T, Kirchhoff F, Münch J. Peptide nanofibrils as enhancers of retroviral gene transfer. WILEY INTERDISCIPLINARY REVIEWS-NANOMEDICINE AND NANOBIOTECHNOLOGY 2014; 6:438-51. [PMID: 24865496 DOI: 10.1002/wnan.1275] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/03/2014] [Revised: 04/10/2014] [Accepted: 04/18/2014] [Indexed: 01/13/2023]
Abstract
Amyloid fibrils are polypeptide-based polymers that are typically associated with neurodegenerative disorders such as Alzheimer's disease. More recently, it has become clear that amyloid fibrils also fulfill functional roles in hormone storage and biosynthesis. Furthermore, it has been demonstrated that semen contains abundant levels of polycationic amyloid fibrils. The natural role of these seminal amyloids remains elusive. Strikingly, however, they drastically enhance HIV-1 infection and may be exploited by the virus to increase its sexual transmission rate. Their strong activity in enhancing HIV-1 infection suggests that seminal amyloid might also promote transduction by retroviral vectors. Indeed, SEVI (semen-derived enhancer of virus infection), the best characterized seminal amyloid, boosts retroviral gene transfer more efficiently than conventional additives. However, the use of SEVI as laboratory tool for efficient retroviral gene transfer is limited because the polypeptide monomers are relatively expensive to produce. Furthermore, standardized production of SEVI fibrils with similar high activities is difficult to achieve because of the stochastic nature of the amyloid assembly process. These obstacles can be overcome by recently identified smaller peptides that spontaneously self-assemble into nanofibrils. These nanofibrils increase retroviral gene transfer even more efficiently than SEVI, are easy to produce and to handle, and seem to be safe as assessed in an ex vivo gene transfer study. Furthermore, peptide-based nanofibrils allow to concentrate viral particles by low-speed centrifugation. Specific adaption and customization of self-assembling peptides might lead to novel nanofibrils with versatile biological functions, e.g., targeted retroviral gene transfer or drug delivery.
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Affiliation(s)
- Christoph Meier
- Department of Organic Chemistry III, Ulm University, Ulm, Germany
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28
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Therapeutic implication of L-phenylalanine aggregation mechanism and its modulation by D-phenylalanine in phenylketonuria. Sci Rep 2014; 4:3875. [PMID: 24464217 PMCID: PMC3902384 DOI: 10.1038/srep03875] [Citation(s) in RCA: 70] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2013] [Accepted: 01/06/2014] [Indexed: 12/12/2022] Open
Abstract
Self-assembly of phenylalanine is linked to amyloid formation toxicity in phenylketonuria disease. We are demonstrating that L-phenylalanine self-assembles to amyloid fibrils at varying experimental conditions and transforms to a gel state at saturated concentration. Biophysical methods including nuclear magnetic resonance, resistance by alpha-phenylglycine to fibril formation and preference of protected phenylalanine to self-assemble show that this behaviour of L-phenylalanine is governed mainly by hydrophobic interactions. Interestingly, D-phenylalanine arrests the fibre formation by L-phenylalanine and gives rise to flakes. These flakes do not propagate further and prevent fibre formation by L-phenylalanine. This suggests the use of D-phenylalanine as modulator of L-phenylalanine amyloid formation and may qualify as a therapeutic molecule in phenylketonuria.
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29
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Zhou XR, Ge R, Luo SZ. Self-assembly of pH and calcium dual-responsive peptide-amphiphilic hydrogel. J Pept Sci 2013; 19:737-44. [DOI: 10.1002/psc.2569] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2013] [Revised: 08/28/2013] [Accepted: 09/02/2013] [Indexed: 12/27/2022]
Affiliation(s)
- Xi-Rui Zhou
- Beijing Key Laboratory of Bioprocess, College of Life Science and Technology; Beijing University of Chemical Technology; Beijing 100029 China
| | - Rui Ge
- Beijing Key Laboratory of Bioprocess, College of Life Science and Technology; Beijing University of Chemical Technology; Beijing 100029 China
| | - Shi-Zhong Luo
- Beijing Key Laboratory of Bioprocess, College of Life Science and Technology; Beijing University of Chemical Technology; Beijing 100029 China
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30
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Silva D, Natalello A, Sanii B, Vasita R, Saracino G, Zuckermann RN, Doglia SM, Gelain F. Synthesis and characterization of designed BMHP1-derived self-assembling peptides for tissue engineering applications. NANOSCALE 2013; 5:704-718. [PMID: 23223865 DOI: 10.1039/c2nr32656f] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
The importance of self-assembling peptides (SAPs) in regenerative medicine is becoming increasingly recognized. The propensity of SAPs to form nanostructured fibers is governed by multiple forces including hydrogen bonds, hydrophobic interactions and π-π aromatic interactions among side chains of the amino acids. Single residue modifications in SAP sequences can significantly affect these forces. BMHP1-derived SAPs is a class of biotinylated oligopeptides, which self-assemble in β-structured fibers to form a self-healing hydrogel. In the current study, selected modifications in previously described BMHP1-derived SAPs were designed in order to investigate the influence of modified residues on self-assembly kinetics and scaffold formation properties. The Fourier transform infrared spectroscopy (FTIR) and X-ray diffraction (XRD) analysis demonstrated the secondary structure (β-sheet) formation in all modified SAP sequences, whereas atomic force microscopy (AFM) analysis further confirmed the presence of nanofibers. Furthermore, the fiber shape and dimension analysis by AFM showed flattened and twisted fiber morphology ranging from ∼8 nm to ∼70 nm. The mechanical properties of the pre-assembled and post assembled solution were investigated by rheometry. The shear-thinning behavior and rapid re-healing properties of the pre-assembled solutions make them a preferable choice for injectable scaffolds. The wide range of stiffnesses (G')--from ∼1000 to ∼27,000 Pa--exhibited by the post-assembled scaffolds demonstrated their potential for a variety of tissue engineering applications. The extra cellular matrix (ECM) mimicking (physically and chemically) properties of SAP scaffolds enhanced cell adhesion and proliferation. The capability of the scaffold to facilitate murine neural stem cell (mNSC) proliferation was evaluated in vitro: the increased mNSCs adhesion and proliferation demonstrated the potential of newly synthesized SAPs for regenerative medicine approaches.
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Affiliation(s)
- Diego Silva
- Center for Nanomedicine and Tissue Engineering, A.O. OspedaleNiguardaCa' Granda, Piazza dell'ospedalemaggiore 3, Milan, 20162, Italy
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31
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Wang Q, Yu J, Zhang X, Liu D, Zheng J, Pan Y, Lin Y. Controlled biosilification using self-assembled short peptides A6K and V6K. RSC Adv 2013. [DOI: 10.1039/c2ra22099g] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
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32
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Newcomb CJ, Moyer TJ, Lee SS, Stupp SI. Advances in cryogenic transmission electron microscopy for the characterization of dynamic self-assembling nanostructures. Curr Opin Colloid Interface Sci 2012. [PMID: 23204913 DOI: 10.1016/j.cocis.2012.09.004] [Citation(s) in RCA: 41] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Elucidating the structural information of nanoscale materials in their solvent-exposed state is crucial, as a result, cryogenic transmission electron microscopy (cryo-TEM) has become an increasingly popular technique in the materials science, chemistry, and biology communities. Cryo-TEM provides a method to directly visualize the specimen structure in a solution-state through a thin film of vitrified solvent. This technique complements X-ray, neutron, and light scattering methods that probe the statistical average of all species present; furthermore, cryo-TEM can be used to observe changes in structure over time. In the area of self-assembly, this tool has been particularly powerful for the characterization of natural and synthetic small molecule assemblies, as well as hybrid organic-inorganic composites. In this review, we discuss recent advances in cryogenic TEM in the context of self-assembling systems with emphasis on characterization of transitions observed in response to external stimuli.
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Affiliation(s)
- Christina J Newcomb
- Department of Materials Science and Engineering Northwestern University, Evanston, IL, USA
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33
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Kim SH, Parquette JR. A model for the controlled assembly of semiconductor peptides. NANOSCALE 2012; 4:6940-6947. [PMID: 23034819 DOI: 10.1039/c2nr32140h] [Citation(s) in RCA: 49] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
The self-assembly of small molecules provides a potentially powerful method to create functional nanomaterials for many applications ranging from optoelectronics to oncology. However, the design of well-defined nanostructures via molecular assembly is a highly empirical process, which severely hampers efforts to create functional nanostructures using this method. In this review, we describe a simple strategy to control the assembly of functionalized peptides by balancing attractive hydrophobic effects that drive assembly with opposing electrostatic repulsions. Extended π-π contacts are created in the nanostructures when assembly is driven by π-stacking interactions among chromophores that are appended to the peptide. The formation of insoluble β-sheet aggregates are mitigated by incorporating charged side-chains capable of attenuating the assembly process. Although the application of this approach to the assembly of organic semiconductors is described, we expect this strategy to be effective for many other functional organic materials.
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Affiliation(s)
- Se Hye Kim
- Department of Chemistry, The Ohio State University, 100 W. 18th Ave, Columbus, Ohio 43210, USA
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34
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Nanda J, Adhikari B, Basak S, Banerjee A. Formation of Hybrid Hydrogels Consisting of Tripeptide and Different Silver Nanoparticle-Capped Ligands: Modulation of the Mechanical Strength of Gel Phase Materials. J Phys Chem B 2012; 116:12235-44. [DOI: 10.1021/jp306262t] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Jayanta Nanda
- Department of Biological Chemistry, Indian Association of Cultivation of Science, Jadavpur, Kolkata-
700032, India
| | - Bimalendu Adhikari
- Department of Biological Chemistry, Indian Association of Cultivation of Science, Jadavpur, Kolkata-
700032, India
| | - Shibaji Basak
- Department of Biological Chemistry, Indian Association of Cultivation of Science, Jadavpur, Kolkata-
700032, India
| | - Arindam Banerjee
- Department of Biological Chemistry, Indian Association of Cultivation of Science, Jadavpur, Kolkata-
700032, India
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Tomizaki KY, Ikawa T, Ahn SA, Yamazoe S, Imai T. The Effects of Charges at the N- and C-Termini of Short Peptides on Their Secondary and Self-assembled Structures. CHEM LETT 2012. [DOI: 10.1246/cl.2012.549] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Kin-ya Tomizaki
- Innovative Materials and Processing Research Center, Ryukoku University
- Department of Materials Chemistry, Ryukoku University
| | - Tomoyo Ikawa
- Department of Materials Chemistry, Ryukoku University
| | - Soo-Ang Ahn
- Department of Materials Chemistry, Ryukoku University
| | - Seiji Yamazoe
- Innovative Materials and Processing Research Center, Ryukoku University
- Department of Materials Chemistry, Ryukoku University
| | - Takahito Imai
- Department of Materials Chemistry, Ryukoku University
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Xie M, Li H, Ye M, Zhang Y, Hu J. Peptide Self-Assembly on Mica under Ethanol-Containing Atmospheres: Effects of Ethanol on Epitaxial Growth of Peptide Nanofilaments. J Phys Chem B 2012; 116:2927-33. [DOI: 10.1021/jp2089438] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Muyun Xie
- Shanghai Institute of Applied
Physics, Chinese Academy of Sciences
- Graduate School of the Chinese Academy of Sciences
| | - Hai Li
- Shanghai Institute of Applied
Physics, Chinese Academy of Sciences
| | - Ming Ye
- Shanghai Institute of Applied
Physics, Chinese Academy of Sciences
| | - Yi Zhang
- Shanghai Institute of Applied
Physics, Chinese Academy of Sciences
| | - Jun Hu
- Shanghai Institute of Applied
Physics, Chinese Academy of Sciences
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SivakamaSundari C, Rukmani S, Nagaraj R. Effect of introducing a short amyloidogenic sequence from the Aβ peptide at the N-terminus of 18-residue amphipathic helical peptides. J Pept Sci 2012; 18:122-8. [DOI: 10.1002/psc.1424] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2011] [Revised: 09/10/2011] [Accepted: 09/13/2011] [Indexed: 12/16/2022]
Affiliation(s)
| | - Sridharan Rukmani
- CSIR-Centre for Cellular and Molecular Biology; Uppal Road; Hyderabad ; 500 007; India
| | - Ramakrishnan Nagaraj
- CSIR-Centre for Cellular and Molecular Biology; Uppal Road; Hyderabad ; 500 007; India
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Affiliation(s)
- Jozef Adamcik
- Food & Soft Materials Science, Institute of Food, Nutrition & Health, ETH Zürich, LFO23, Schmelzbergstrasse 9, 8092 Zürich, Switzerland
| | - Raffaele Mezzenga
- Food & Soft Materials Science, Institute of Food, Nutrition & Health, ETH Zürich, LFO23, Schmelzbergstrasse 9, 8092 Zürich, Switzerland
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Adamcik J, Castelletto V, Bolisetty S, Hamley IW, Mezzenga R. Direct Observation of Time-Resolved Polymorphic States in the Self-Assembly of End-Capped Heptapeptides. Angew Chem Int Ed Engl 2011. [DOI: 10.1002/ange.201100807] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
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40
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Adamcik J, Castelletto V, Bolisetty S, Hamley IW, Mezzenga R. Direct observation of time-resolved polymorphic states in the self-assembly of end-capped heptapeptides. Angew Chem Int Ed Engl 2011; 50:5495-8. [PMID: 21538748 DOI: 10.1002/anie.201100807] [Citation(s) in RCA: 106] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2011] [Indexed: 11/08/2022]
Affiliation(s)
- Jozef Adamcik
- Food & Soft Materials Science, Institute of Food Nutrition & Health, ETH Zürich, LFO23, Schmelzbergstrasse 9, 8092 Zürich, Switzerland
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Gelain F, Silva D, Caprini A, Taraballi F, Natalello A, Villa O, Nam KT, Zuckermann RN, Doglia SM, Vescovi A. BMHP1-derived self-assembling peptides: hierarchically assembled structures with self-healing propensity and potential for tissue engineering applications. ACS NANO 2011; 5:1845-1859. [PMID: 21314189 DOI: 10.1021/nn102663a] [Citation(s) in RCA: 65] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
Self-assembling peptides (SAPs) are rapidly gaining interest as bioinspired scaffolds for cell culture and regenerative medicine applications. Bone Marrow Homing Peptide 1 (BMHP1) functional motif (PFSSTKT) was previously demonstrated to stimulate neural stem cell (NSC) viability and differentiation when linked to SAPs. We here describe a novel ensemble of SAPs, developed from the BMHP1 (BMHP1-SAPs), that spontaneously assemble into tabular fibers, twisted ribbons, tubes and hierarchical self-assembled sheets: organized structures in the nano- and microscale. Thirty-two sequences were designed and evaluated, including biotinylated and unbiotinylated sequences, as well as a hybrid peptide-peptoid sequence. Via X-ray diffraction (XRD), CD, and FTIR experiments we demonstrated that all of the BMHP1-SAPs share similarly organized secondary structures, that is, β-sheets and β-turns, despite their heterogeneous nanostructure morphology, scaffold stiffness, and effect over NSC differentiation and survival. Notably, we demonstrated the self-healing propensity of most of the tested BMHP1-SAPs, enlarging the set of potential applications of these novel SAPs. In in vitro cell culture experiments, we showed that some of these 10-mer peptides foster adhesion, differentiation, and proliferation of human NSCs. RGD-functionalized and hybrid peptide-peptoid self-assembling sequences also opened the door to BMHP1-SAP functionalization with further bioactive motifs, essential to tailor new scaffolds for specific applications. In in vivo experiments we verified a negligible reaction of the host nervous tissue to the injected and assembled BMHP1-SAP. This work will pave the way to the development of novel SAP sequences that may be useful for material science and regenerative medicine applications.
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Affiliation(s)
- Fabrizio Gelain
- Center for Nanomedicine and Tissue Engineering-A.O. Ospedale Niguarda Ca' Granda, Piazza dell'ospedale maggiore 3, Milan, 20162, Italy.
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42
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Castelletto V, Hamley IW, Cenker Ç, Olsson U, Adamcik J, Mezzenga R, Miravet JF, Escuder B, Rodríguez-Llansola F. Influence of End-Capping on the Self-Assembly of Model Amyloid Peptide Fragments. J Phys Chem B 2011; 115:2107-16. [DOI: 10.1021/jp111168s] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
| | - Ian W. Hamley
- Department of Chemistry, University of Reading, Reading RG6 6AD, U.K
| | - Çelen Cenker
- Physical Chemistry 1, Lund University, Lund S-221 00, Sweden
| | - Ulf Olsson
- Physical Chemistry 1, Lund University, Lund S-221 00, Sweden
| | - Jozef Adamcik
- Food & Soft Materials Science, Institute of Food, Nutrition & Health, ETH Zurich, Schmelzbergstrasse 9, LFO, E23, 8092 Zürich, Switzerland
| | - Raffaele Mezzenga
- Food & Soft Materials Science, Institute of Food, Nutrition & Health, ETH Zurich, Schmelzbergstrasse 9, LFO, E23, 8092 Zürich, Switzerland
| | - Juan F. Miravet
- Departament de Química Inorgànica i OrgànicaUniversitat Jaume I, 12071 Castelló, Spain
| | - Beatriu Escuder
- Departament de Química Inorgànica i OrgànicaUniversitat Jaume I, 12071 Castelló, Spain
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Dhathathreyan A, Nair BU. Influence of Sequence on the Self-Assembly of Peptide Nanoribbons on Silicon Substrates. J Phys Chem B 2010; 114:16650-4. [DOI: 10.1021/jp1089678] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
| | - B. U. Nair
- Chemical Lab, CLRI (CSIR), Adyar, Chennai 600020, India
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Ye M, Zhang Y, Li H, Xie M, Hu J. Supramolecular Structures of Amyloid-Related Peptides in an Ambient Water Nanofilm. J Phys Chem B 2010; 114:15759-65. [PMID: 21077660 DOI: 10.1021/jp105501x] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Ming Ye
- Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China and Graduate School of the Chinese Academy of Sciences, Beijing 100049, China
| | - Yi Zhang
- Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China and Graduate School of the Chinese Academy of Sciences, Beijing 100049, China
| | - Hai Li
- Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China and Graduate School of the Chinese Academy of Sciences, Beijing 100049, China
| | - Muyun Xie
- Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China and Graduate School of the Chinese Academy of Sciences, Beijing 100049, China
| | - Jun Hu
- Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China and Graduate School of the Chinese Academy of Sciences, Beijing 100049, China
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