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Zhu M, Zeng L, Li Z, Wang C, Wu L, Jiang X. Revealing the Nanoarchitectonics of Amyloid β-Aggregation on Two-Dimensional Biomimetic Membranes by Surface-Enhanced Infrared Absorption Spectroscopy. ChemistryOpen 2023; 12:e202200253. [PMID: 36744594 PMCID: PMC9906390 DOI: 10.1002/open.202200253] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Revised: 01/13/2023] [Indexed: 02/07/2023] Open
Abstract
The in vivo folding of amyloid β (Aβ) is influenced by many factors among which biomembrane interfaces play an important role. Here, using surface-enhanced infrared absorption (SEIRA) spectroscopy and atomic force microscopy (AFM), the adsorption, structure, and morphology of Aβ42 aggregating on different two-dimensional interfaces were investigated. Results show that interfaces facilitate the aggregation of Aβ42 and are conducive to the formation of homogeneous aggregates, while the aggregates vary on different interfaces. On hydrophobic interfaces, strong hydrophobic interactions with the C-terminus of Aβ42 result in the formation of small oligomers with a small proportion of the β-sheet structure. On hydrophilic interfaces, hydrogen-bonding interactions and electrostatic interactions promote the formation of large aggregate particles with β-sheet structure. The hydration repulsion plays an important role in the interaction of Aβ42 with interfaces. These findings help to understand the nature of Aβ42 adsorption and aggregation on the biomembrane interface and the origin of heterogeneity and polymorphism of Aβ42 aggregates.
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Affiliation(s)
- Manyu Zhu
- State Key Laboratory of Electroanalytical Chemistry Changchun Institute of Applied ChemistryChinese Academy of SciencesChangchunJilin130022P. R. China
- School of Applied Chemistry and EngineeringUniversity of Science & Technology of ChinaHefeiAnhui230026P. R. China
| | - Li Zeng
- State Key Laboratory of Environmental Chemistry and EcotoxicologyResearch Center for Eco-Environmental SciencesChinese Academy of SciencesBeijing100085P. R. China
| | - Zihao Li
- State Key Laboratory of Electroanalytical Chemistry Changchun Institute of Applied ChemistryChinese Academy of SciencesChangchunJilin130022P. R. China
- School of Applied Chemistry and EngineeringUniversity of Science & Technology of ChinaHefeiAnhui230026P. R. China
| | - Chen Wang
- State Key Laboratory of Electroanalytical Chemistry Changchun Institute of Applied ChemistryChinese Academy of SciencesChangchunJilin130022P. R. China
- School of Applied Chemistry and EngineeringUniversity of Science & Technology of ChinaHefeiAnhui230026P. R. China
| | - Lie Wu
- State Key Laboratory of Electroanalytical Chemistry Changchun Institute of Applied ChemistryChinese Academy of SciencesChangchunJilin130022P. R. China
| | - Xiue Jiang
- State Key Laboratory of Electroanalytical Chemistry Changchun Institute of Applied ChemistryChinese Academy of SciencesChangchunJilin130022P. R. China
- School of Applied Chemistry and EngineeringUniversity of Science & Technology of ChinaHefeiAnhui230026P. R. China
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2
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Cheong DY, Roh S, Park I, Lin Y, Lee YH, Lee T, Lee SW, Lee D, Jung HG, Kim H, Lee W, Yoon DS, Hong Y, Lee G. Proteolysis-driven proliferation and rigidification of pepsin-resistant amyloid fibrils. Int J Biol Macromol 2023; 227:601-607. [PMID: 36543295 DOI: 10.1016/j.ijbiomac.2022.12.104] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2022] [Revised: 11/20/2022] [Accepted: 12/10/2022] [Indexed: 12/23/2022]
Abstract
Proteolysis of amyloids is related to prevention and treatment of amyloidosis. What if the conditions for proteolysis were the same to those for amyloid formation? For example, pepsin, a gastric protease is activated in an acidic environment, which, interestingly, is also a condition that induces the amyloid formation. Here, we investigate the competition reactions between proteolysis and synthesis of amyloid under pepsin-activated conditions. The changes in the quantities and nanomechanical properties of amyloids after pepsin treatment were examined by fluorescence assay, circular dichroism and atomic force microscopy. We found that, in the case of pepsin-resistant amyloid, a secondary reaction can be accelerated, thereby proliferating amyloids. Moreover, after this reaction, the amyloid became 32.4 % thicker and 24.2 % stiffer than the original one. Our results suggest a new insight into the proteolysis-driven proliferation and rigidification of pepsin-resistant amyloids.
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Affiliation(s)
- Da Yeon Cheong
- Department of Biotechnology and Bioinformatics, Korea University, Sejong 30019, South Korea; Interdisciplinary Graduate Program for Artificial Intelligence Smart Convergence Technology, Korea University, Sejong 30019, South Korea
| | - Seokbeom Roh
- Department of Biotechnology and Bioinformatics, Korea University, Sejong 30019, South Korea; Interdisciplinary Graduate Program for Artificial Intelligence Smart Convergence Technology, Korea University, Sejong 30019, South Korea
| | - Insu Park
- Department of Biomedical Engineering, Konyang University, Daejeon 35365, South Korea
| | - Yuxi Lin
- Research Center for Bioconvergence Analysis, Korea Basic Science Institute, Ochang, Chungbuk 28119, South Korea
| | - Young-Ho Lee
- Research Center for Bioconvergence Analysis, Korea Basic Science Institute, Ochang, Chungbuk 28119, South Korea; Bio-Analytical Science, University of Science and Technology, Daejeon 34113, South Korea; Graduate School of Analytical Science and Technology, Chungnam National University, Daejeon 34134, South Korea; Research Headquarters, Korea Brain Research Institute, Daegu 41068, South Korea
| | - Taeha Lee
- Department of Biotechnology and Bioinformatics, Korea University, Sejong 30019, South Korea; Interdisciplinary Graduate Program for Artificial Intelligence Smart Convergence Technology, Korea University, Sejong 30019, South Korea
| | - Sang Won Lee
- School of Biomedical Engineering, Korea University, Seoul 02841, South Korea
| | - Dongtak Lee
- School of Biomedical Engineering, Korea University, Seoul 02841, South Korea
| | - Hyo Gi Jung
- School of Biomedical Engineering, Korea University, Seoul 02841, South Korea; Interdisciplinary Program in Precision Public Health, Korea University, Seoul 02841, South Korea
| | - Hyunji Kim
- School of Biomedical Engineering, Korea University, Seoul 02841, South Korea; Interdisciplinary Program in Precision Public Health, Korea University, Seoul 02841, South Korea
| | - Wonseok Lee
- Department of Electrical Engineering, Korea National University of Transportation, Chungju 27469, South Korea
| | - Dae Sung Yoon
- School of Biomedical Engineering, Korea University, Seoul 02841, South Korea; Interdisciplinary Program in Precision Public Health, Korea University, Seoul 02841, South Korea; ASTRION Inc., Seoul 02841, South Korea.
| | - Yoochan Hong
- Department of Medical Devices, Korea Institute of Machinery and Materials (KIMM), Daegu 42994, South Korea.
| | - Gyudo Lee
- Department of Biotechnology and Bioinformatics, Korea University, Sejong 30019, South Korea; Interdisciplinary Graduate Program for Artificial Intelligence Smart Convergence Technology, Korea University, Sejong 30019, South Korea.
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3
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Jeon B, Jung HG, Lee SW, Lee G, Shim JH, Kim MO, Kim BJ, Kim SH, Lee H, Lee SW, Yoon DS, Jo SJ, Choi TH, Lee W. Melanoma Detection by AFM Indentation of Histological Specimens. Diagnostics (Basel) 2022; 12:1736. [PMID: 35885640 PMCID: PMC9323377 DOI: 10.3390/diagnostics12071736] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2022] [Revised: 06/29/2022] [Accepted: 07/15/2022] [Indexed: 11/16/2022] Open
Abstract
Melanoma is visible unlike other types of cancer, but it is still challenging to diagnose correctly because of the difficulty in distinguishing between benign nevus and melanoma. We conducted a robust investigation of melanoma, identifying considerable differences in local elastic properties between nevus and melanoma tissues by using atomic force microscopy (AFM) indentation of histological specimens. Specifically, the histograms of the elastic modulus of melanoma displayed multimodal Gaussian distributions, exhibiting heterogeneous mechanical properties, in contrast with the unimodal distributions of elastic modulus in the benign nevus. We identified this notable signature was consistent regardless of blotch incidence by sex, age, anatomical site (e.g., thigh, calf, arm, eyelid, and cheek), or cancer stage (I, IV, and V). In addition, we found that the non-linearity of the force-distance curves for melanoma is increased compared to benign nevus. We believe that AFM indentation of histological specimens may technically complement conventional histopathological analysis for earlier and more precise melanoma detection.
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Affiliation(s)
- Byoungjun Jeon
- Interdisciplinary Program for Bioengineering, Graduate School, Seoul National University, Seoul 08826, Korea;
| | - Hyo Gi Jung
- School of Biomedical Engineering, Korea University, Seoul 02841, Korea; (H.G.J.); (S.W.L.); (D.S.Y.)
- Interdisciplinary Program in Precision Public Health, Korea University, Seoul 02841, Korea
| | - Sang Won Lee
- School of Biomedical Engineering, Korea University, Seoul 02841, Korea; (H.G.J.); (S.W.L.); (D.S.Y.)
| | - Gyudo Lee
- Department of Biotechnology and Bioinformatics, Korea University, Sejong 30019, Korea;
- Interdisciplinary Graduate Program for Artificial Intelligence Smart Convergence Technology, Korea University, Sejong 30019, Korea
| | - Jung Hee Shim
- Department of Plastic and Reconstructive Surgery, Research Services, Seoul National University Bundang Hospital, Seongnam 13620, Korea;
| | - Mi Ok Kim
- Department of Plastic and Reconstructive Surgery, Institute of Human Environment Interface Biology, Seoul National University College of Medicine, Seoul 03087, Korea; (M.O.K.); (B.J.K.)
| | - Byung Jun Kim
- Department of Plastic and Reconstructive Surgery, Institute of Human Environment Interface Biology, Seoul National University College of Medicine, Seoul 03087, Korea; (M.O.K.); (B.J.K.)
| | - Sang-Hyon Kim
- Department of Internal Medicine, Keimyung University Dongsan Medical Center, Daegu 41931, Korea;
| | - Hyungbeen Lee
- Department of Biomedical Engineering, Yonsei University, Wonju 26493, Korea; (H.L.); (S.W.L.)
- R&D Center of Curigin Ltd., Seoul 04778, Korea
| | - Sang Woo Lee
- Department of Biomedical Engineering, Yonsei University, Wonju 26493, Korea; (H.L.); (S.W.L.)
| | - Dae Sung Yoon
- School of Biomedical Engineering, Korea University, Seoul 02841, Korea; (H.G.J.); (S.W.L.); (D.S.Y.)
- Interdisciplinary Program in Precision Public Health, Korea University, Seoul 02841, Korea
- Astrion Inc., Seoul 02841, Korea
| | - Seong Jin Jo
- Department of Dermatology, Seoul National University College of Medicine, Seoul 03087, Korea
| | - Tae Hyun Choi
- Department of Plastic and Reconstructive Surgery, Institute of Human Environment Interface Biology, Seoul National University College of Medicine, Seoul 03087, Korea; (M.O.K.); (B.J.K.)
| | - Wonseok Lee
- Department of Electrical Engineering, Korea National University of Transportation, Chungju 27469, Korea
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Amyloid Formation in Nanoliter Droplets. Int J Mol Sci 2022; 23:ijms23105480. [PMID: 35628295 PMCID: PMC9143811 DOI: 10.3390/ijms23105480] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2022] [Revised: 05/11/2022] [Accepted: 05/12/2022] [Indexed: 12/04/2022] Open
Abstract
Processes that monitor the nucleation of amyloids and characterize the formation of amyloid fibrils are vital to medicine and pharmacology. In this study, we observe the nucleation and formation of lysozyme amyloid fibrils using a facile microfluidic system to generate nanoliter droplets that can control the flow rate and movement of monomer-in-oil emulsion droplets in a T-junction microchannel. Using a fluorescence assay, we monitor the nucleation and growth process of amyloids based on the volume of droplets. Using the microfluidic system, we demonstrate that the lag phase, which is vital to amyloid nucleation and growth, is reduced at a lower droplet volume. Furthermore, we report a peculiar phenomenon of high amyloid formation at the edge of a bullet-shaped droplet, which is likely due to the high local monomer concentration. Moreover, we discovered that amyloid fibrils synthesized in the nanoliter droplets are shorter and thicker than fibrils synthesized from a bulk solution via the conventional heating method. Herein, a facile procedure to observe and characterize the nucleation and growth of amyloid fibrils using nanoliter droplets is presented, which is beneficial for investigating new features of amyloid fibril formation as an unconventional synthetic method for amyloid fibrils.
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Lee SW, Choi H, Lee G, Choi Y, Lee H, Kim G, Lee H, Lee W, Park J, Yoon DS. Conformation Control of Amyloid Filaments by Repeated Thermal Perturbation. ACS Macro Lett 2021; 10:1549-1554. [PMID: 35549127 DOI: 10.1021/acsmacrolett.1c00525] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We report that repeated thermal perturbation by thermal cycling (TC) accelerates the formation rate of amyloid filaments at microliter volumes (10-200 μL) and produces a new conformation of zigzag-shaped filaments. The amyloid filaments have been synthesized under different TC conditions, such as temperature variations (ΔT = 0-86 °C) and the number of cycles (C# = 30-90). In particular, the filament formation was promoted by TC with ΔT ≥ 30 °C. This indicates that the change in binding energy of β-sheets and the breakage of disulfide bonds induced by TC with large ΔT contributed to the increased filament growth. This molecular interaction was investigated by molecular dynamics simulation. We also found that TC leads to the formation of amyloid filaments with peculiar conformation (zigzag-shaped filaments). Moreover, key structural parameters (tortuosity, segment length, and joint angle) of the amyloid filaments could be fine-tuned by selecting certain ΔT conditions. Taken together, we confirmed that the TC not only promotes the formation of amyloid filaments but also affects the conformational changes of the filaments.
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Affiliation(s)
- Sang Won Lee
- School of Biomedical Engineering, Korea University, Seoul 02841, South Korea
| | - Hyunsung Choi
- Center for Molecular Spectroscopy and Dynamics, Institute for Basic Science (IBS), Seoul 02841, South Korea
| | - Gyudo Lee
- Department of Biotechnology and Bioinformatics, Korea University, Sejong 30019, South Korea
- Interdisciplinary Graduate Program for Artificial Intelligence Smart Convergence Technology, Korea University, Sejong 30019, South Korea
| | - Yeseong Choi
- School of Biomedical Engineering, Korea University, Seoul 02841, South Korea
| | - Hyungbeen Lee
- Department of Pharmacology, College of Pharmacy, Kyung Hee University, Seoul 02447, South Korea
- R&D Center of Curigin Ltd., Seoul 04778, Republic of Korea
| | - Geehyuk Kim
- Department of Biomedical Laboratory Science, Yonsei University, Wonju 26493, South Korea
| | - Hyeyoung Lee
- Department of Biomedical Laboratory Science, Yonsei University, Wonju 26493, South Korea
| | - Wonseok Lee
- Department of Electrical Engineering, Korea National University of Transportation, Chungju 27469, South Korea
| | - Jinsung Park
- Department of Control and Instrumentation Engineering, Korea University, Sejong 30019, South Korea
| | - Dae Sung Yoon
- School of Biomedical Engineering, Korea University, Seoul 02841, South Korea
- Interdisciplinary Program in Precision Public Health, Korea University, Seoul 02841, South Korea
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6
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Jeong YM, Lee JG, Cho HJ, Lee WS, Jeong J, Lee JS. Differential Clearance of Aβ Species from the Brain by Brain Lymphatic Endothelial Cells in Zebrafish. Int J Mol Sci 2021; 22:11883. [PMID: 34769316 PMCID: PMC8584359 DOI: 10.3390/ijms222111883] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2021] [Revised: 10/28/2021] [Accepted: 10/29/2021] [Indexed: 02/01/2023] Open
Abstract
The failure of amyloid beta (Aβ) clearance is a major cause of Alzheimer's disease, and the brain lymphatic systems play a crucial role in clearing toxic proteins. Recently, brain lymphatic endothelial cells (BLECs), a non-lumenized lymphatic cell in the vertebrate brain, was identified, but Aβ clearance via this novel cell is not fully understood. We established an in vivo zebrafish model using fluorescently labeled Aβ42 to investigate the role of BLECs in Aβ clearance. We discovered the efficient clearance of monomeric Aβ42 (mAβ42) compared to oligomeric Aβ42 (oAβ42), which was illustrated by the selective uptake of mAβ42 by BLECs and peripheral transport. The genetic depletion, pharmacological inhibition via the blocking of the mannose receptor, or the laser ablation of BLECs resulted in the defective clearance of mAβ42. The treatment with an Aβ disaggregating agent facilitated the internalization of oAβ42 into BLECs and improved the peripheral transport. Our findings reveal a new role of BLECs in the differential clearance of mAβ42 from the brain and provide a novel therapeutic strategy based on promoting Aβ clearance.
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Affiliation(s)
- Yun-Mi Jeong
- Disease Target Structure Research Center, Korea Research Institute of Bioscience and Biotechnology, 125 Gwahak-ro, Yuseong-gu, Daejeon 34141, Korea
- Dementia DTC R&D Convergence Program, Korea Institute of Science and Technology, Hwarang-ro 14-gil 5, Seongbuk-gu, Seoul 02792, Korea
| | - Jae-Geun Lee
- Disease Target Structure Research Center, Korea Research Institute of Bioscience and Biotechnology, 125 Gwahak-ro, Yuseong-gu, Daejeon 34141, Korea
- Department of Functional Genomics, KRIBB School, University of Science and Technology, 217 Gajeong-ro, Yuseong-gu, Daejeon 34113, Korea
| | - Hyun-Ju Cho
- Disease Target Structure Research Center, Korea Research Institute of Bioscience and Biotechnology, 125 Gwahak-ro, Yuseong-gu, Daejeon 34141, Korea
| | - Wang Sik Lee
- Environmental Disease Research Center, Korea Research Institute of Bioscience and Biotechnology, 125 Gwahak-ro, Yuseong-gu, Daejeon 34141, Korea
| | - Jinyoung Jeong
- Environmental Disease Research Center, Korea Research Institute of Bioscience and Biotechnology, 125 Gwahak-ro, Yuseong-gu, Daejeon 34141, Korea
- Department of Biotechnology, KRIBB School, University of Science and Technology, 217 Gajeong-ro, Yuseong-gu, Daejeon 34113, Korea
| | - Jeong-Soo Lee
- Disease Target Structure Research Center, Korea Research Institute of Bioscience and Biotechnology, 125 Gwahak-ro, Yuseong-gu, Daejeon 34141, Korea
- Dementia DTC R&D Convergence Program, Korea Institute of Science and Technology, Hwarang-ro 14-gil 5, Seongbuk-gu, Seoul 02792, Korea
- Department of Functional Genomics, KRIBB School, University of Science and Technology, 217 Gajeong-ro, Yuseong-gu, Daejeon 34113, Korea
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7
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González-Sanmiguel J, Burgos CF, Bascuñán D, Fernández-Pérez EJ, Riffo-Lepe N, Boopathi S, Fernández-Pérez A, Bobadilla-Azócar C, González W, Figueroa M, Vicente B, Aguayo LG. Gabapentin Inhibits Multiple Steps in the Amyloid Beta Toxicity Cascade. ACS Chem Neurosci 2020; 11:3064-3076. [PMID: 32886489 DOI: 10.1021/acschemneuro.0c00414] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Abstract
Oligomeric β-amyloid peptide (Aβ) is one of the main neurotoxic agents of Alzheimer's disease (AD). Oligomers associate to neuronal membranes, forming "pore-like" structures that cause intracellular calcium and neurotransmitter dyshomeostasis, leading to synaptic failure and death. Through molecular screening targeting the C terminal region of Aβ, a region involved in the toxic properties of the peptide, we detected an FDA approved compound, gabapentin (GBP), with neuroprotective effects against Aβ toxicity. At micromolar concentrations, GBP antagonized peptide aggregation over time and reduced the Aβ absorbance plateau to 28% of control. In addition, GBP decreased Aβ association to membranes by almost half, and the effects of Aβ on intracellular calcium in hippocampal neurons were antagonized without causing effects on its own. Finally, we found that GBP was able to block the synaptotoxicity induced by Aβ in hippocampal neurons, increasing post-synaptic currents from 1.7 ± 0.9 to 4.2 ± 0.7 fC and mean relative fluorescence intensity values of SV2, a synaptic protein, from 0.7 ± 0.09 to 1.00 ± 0.08. The results show that GBP can interfere with Aβ-induced toxicity by blocking multiple steps, resulting in neuroprotection, which justifies advancing toward additional animal and human studies.
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Affiliation(s)
- Juliana González-Sanmiguel
- Laboratory of Neurophysiology, Department of Physiology, Universidad de Concepción, Concepción 4030000, Chile
| | - Carlos F. Burgos
- Laboratory of Neurophysiology, Department of Physiology, Universidad de Concepción, Concepción 4030000, Chile
| | - Denisse Bascuñán
- Laboratory of Neurophysiology, Department of Physiology, Universidad de Concepción, Concepción 4030000, Chile
| | - Eduardo J. Fernández-Pérez
- Laboratory of Neurophysiology, Department of Physiology, Universidad de Concepción, Concepción 4030000, Chile
| | - Nicolás Riffo-Lepe
- Laboratory of Neurophysiology, Department of Physiology, Universidad de Concepción, Concepción 4030000, Chile
| | - Subramanian Boopathi
- The Center for Bioinformatics and Molecular Simulations (CBSM), Universidad de Talca, Talca 3460000, Chile
| | | | - Catalina Bobadilla-Azócar
- Laboratory of Neurophysiology, Department of Physiology, Universidad de Concepción, Concepción 4030000, Chile
| | - Wendy González
- The Center for Bioinformatics and Molecular Simulations (CBSM), Universidad de Talca, Talca 3460000, Chile
- Millennium Nucleus of Ion Channels-Associated Diseases (MiNICAD), Universidad de Talca, Talca 3460000, Chile
| | - Maximiliano Figueroa
- Laboratory of Molecular Biophysics, Department of Biochemistry and Molecular Biology, Universidad de Concepción, Concepción 4030000, Chile
| | - Benjamín Vicente
- Department of Psychiatry and Mental Health, Universidad de Concepcion, Concepción 4030000, Chile
- Program on Neuroscience, Psychiatry and Mental Health, Universidad de Concepcion, Concepción 4030000, Chile
| | - Luis G. Aguayo
- Laboratory of Neurophysiology, Department of Physiology, Universidad de Concepción, Concepción 4030000, Chile
- Program on Neuroscience, Psychiatry and Mental Health, Universidad de Concepcion, Concepción 4030000, Chile
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Jakubowski J, Orr AA, Le DA, Tamamis P. Interactions between Curcumin Derivatives and Amyloid-β Fibrils: Insights from Molecular Dynamics Simulations. J Chem Inf Model 2020; 60:289-305. [PMID: 31809572 PMCID: PMC7732148 DOI: 10.1021/acs.jcim.9b00561] [Citation(s) in RCA: 38] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2019] [Indexed: 12/24/2022]
Abstract
The aggregation of amyloid-β (Aβ) peptides into senile plaques is a hallmark of Alzheimer's disease (AD) and is hypothesized to be the primary cause of AD related neurodegeneration. Previous studies have shown the ability of curcumin to both inhibit the aggregation of Aβ peptides into oligomers or fibrils and reduce amyloids in vivo. Despite the promise of curcumin and its derivatives to serve as diagnostic, preventative, and potentially therapeutic AD molecules, the mechanism by which curcumin and its derivatives bind to and inhibit Aβ fibrils' formation remains elusive. Here, we investigated curcumin and a set of curcumin derivatives in complex with a hexamer peptide model of the Aβ1-42 fibril using nearly exhaustive docking, followed by multi-ns molecular dynamics simulations, to provide atomistic-detail insights into the molecules' binding and inhibitory properties. In the vast majority of the simulations, curcumin and its derivatives remain firmly bound in complex with the fibril through primarily three different principle binding modes, in which the molecules interact with residue domain 17LVFFA21, in line with previous experiments. In a small subset of these simulations, the molecules partly dissociate the outermost peptide of the Aβ1-42 fibril by disrupting β-sheets within the residue domain 12VHHQKLVFF20. A comparison between binding modes leading or not leading to partial dissociation of the outermost peptide suggests that the latter is attributed to a few subtle key structural and energetic interaction-based differences. Interestingly, partial dissociation appears to be either an outcome of high affinity interactions or a cause leading to high affinity interactions between the molecules and the fibril, which could partly serve as a compensation for the energy loss in the fibril due to partial dissociation. In conjunction with this, we suggest a potential inhibition mechanism of Αβ1-42 aggregation by the molecules, where the partially dissociated 16KLVFF20 domain of the outermost peptide could either remain unstructured or wrap around to form intramolecular interactions with the same peptide's 29GAIIG33 domain, while the molecules could additionally act as a patch against the external edge of the second outermost peptide's 16KLVFF20 domain. Thereby, individually or concurrently, these could prohibit fibril elongation.
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Affiliation(s)
| | | | - Doan A. Le
- Artie McFerrin Department
of Chemical Engineering, Texas A&M University, College Station, Texas 77843-3122, United States
| | - Phanourios Tamamis
- Artie McFerrin Department
of Chemical Engineering, Texas A&M University, College Station, Texas 77843-3122, United States
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9
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De Simone A, Naldi M, Tedesco D, Bartolini M, Davani L, Andrisano V. Advanced analytical methodologies in Alzheimer’s disease drug discovery. J Pharm Biomed Anal 2020; 178:112899. [DOI: 10.1016/j.jpba.2019.112899] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2019] [Revised: 09/25/2019] [Accepted: 09/26/2019] [Indexed: 12/13/2022]
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10
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Lee W, Choi Y, Lee SW, Kim I, Lee D, Hong Y, Lee G, Yoon DS. Microwave-induced formation of oligomeric amyloid aggregates. NANOTECHNOLOGY 2018; 29:345604. [PMID: 29848798 DOI: 10.1088/1361-6528/aac8f4] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Amyloid aggregates have emerged as a significant hallmark of neurodegenerative diseases such as Alzheimer's and Parkinson's diseases. Although it has been recently reported that microwave heating induces amyloid aggregation compared with conventional heating methods, the mechanism of amyloid aggregate induction has remained unclear. In this study, we investigated the formation of oligomeric amyloid aggregates (OAAs) by microwave irradiation at microscale volumes of solution. Microwave irradiation of protein monomer solution triggered rapid formation of OAAs within 7 min. We characterized the formation of OAAs using atomic force microscopy, thioflavin T fluorescent assay and circular dichroism. In the microwave system, we also investigated the inhibitory effect on the formation of amyloid aggregates by L-ascorbic acid as well as enhanced amyloid aggregation by silver nanomaterials such as nanoparticles and nanowires. We believe that microwave technology has the potential to facilitate the study of amyloid aggregation in the presence of chemical agents or nanomaterials.
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Affiliation(s)
- Wonseok Lee
- Department of Biomedical Engineering, Yonsei University, Wonju 26493, Republic of Korea
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