1
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Ali A, Holman AP, Rodriguez A, Osborne L, Kurouski D. Elucidating the mechanisms of α-Synuclein-lipid interactions using site-directed mutagenesis. Neurobiol Dis 2024; 198:106553. [PMID: 38839022 DOI: 10.1016/j.nbd.2024.106553] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2024] [Revised: 06/01/2024] [Accepted: 06/01/2024] [Indexed: 06/07/2024] Open
Abstract
α-Synuclein (α-syn) is a small protein that is involved in cell vesicle trafficking in neuronal synapses. A progressive aggregation of this protein is the expected molecular cause of Parkinson's disease, a disease that affects millions of people around the world. A growing body of evidence indicates that phospholipids can strongly accelerate α-syn aggregation and alter the toxicity of α-syn oligomers and fibrils formed in the presence of lipid vesicles. This effect is attributed to the presence of high copies of lysines in the N-terminus of the protein. In this study, we performed site-directed mutagenesis and replaced one out of two lysines at each of the five sites located in the α-syn N-terminus. Using several biophysical and cellular approaches, we investigated the extent to which six negatively charged fatty acids (FAs) could alter the aggregation properties of K10A, K23A, K32A, K43A, and K58A α-syn. We found that FAs uniquely modified the aggregation properties of K43A, K58A, and WT α-syn, as well as changed morphology of amyloid fibrils formed by these mutants. At the same time, FAs failed to cause substantial changes in the aggregation rates of K10A, K23A, and K32A α-syn, as well as alter the morphology and toxicity of the corresponding amyloid fibrils. Based on these results, we can conclude that K10, K23, and K32 amino acid residues play a critical role in protein-lipid interactions since their replacement on non-polar alanines strongly suppressed α-syn-lipid interactions.
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Affiliation(s)
- Abid Ali
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Aidan P Holman
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States; Department of Entomology, Texas A&M University, College Station, TX 77843, United States
| | - Axell Rodriguez
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Luke Osborne
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Dmitry Kurouski
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States; Department of Biomedical Engineering, Texas A&M University, College Station, TX 77843, United States.
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2
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Kenkel S, Bhargava R. Modeling the Thermoelastic Sample Response for Subdiffraction Infrared Spectroscopic Imaging. CHEMICAL & BIOMEDICAL IMAGING 2024; 2:413-421. [PMID: 38939874 PMCID: PMC11200252 DOI: 10.1021/cbmi.4c00018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/09/2024] [Revised: 04/18/2024] [Accepted: 04/24/2024] [Indexed: 06/29/2024]
Abstract
There is significant and increasing interest in using the photothermal effect to record infrared (IR) absorption spectra localized to volumes that are considerably smaller than the wavelength of excitation, i.e., subdiffraction imaging. As opposed to conventional IR microscopy, in which absorption and scattering of the illuminating light is measured, subdiffraction imaging can be achieved through detection of the sample's thermal response to IR absorption-induced heating. While this relationship has been examined by a variety of coarse-grained models, a generalized analysis of the dependence of temperature and surface deformation arising from an absorber below the surface has not been reported. Here, we present an analytical model to understand a sample's thermoelastic response in photothermal measurements. The model shows important dependence of the ability to record subdiffraction data on modulation frequency of exciting light, limitations imposed by optical sensing, and the potential to discern location of objects ultimately limited by noise and sharpness of the detecting mechanism. This foundational analysis should allow for better modeling, understanding, and harnessing of the relationship between absorption and sample response that underlies IR photothermal measurements.
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Affiliation(s)
- Seth Kenkel
- Beckman
Institute for Advanced Science and Technology, University of Illinois Urbana−Champaign, Urbana, Illinois 61801, United States
| | - Rohit Bhargava
- Beckman
Institute for Advanced Science and Technology, University of Illinois Urbana−Champaign, Urbana, Illinois 61801, United States
- Departments
of Bioengineering, Mechanical Science and Engineering, Electrical
and Computer Engineering, Chemical and Biomolecular Engineering, and
Chemistry, University of Illinois Urbana−Champaign, Urbana, Illinois 61801, United States
- Cancer
Center at Illinois, University of Illinois
Urbana−Champaign, Urbana, Illinois 61801, United States
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3
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Sherman Z, Kang J, Milliron DJ, Truskett TM. Illuminating Disorder: Optical Properties of Complex Plasmonic Assemblies. J Phys Chem Lett 2024; 15:6424-6434. [PMID: 38864822 PMCID: PMC11194822 DOI: 10.1021/acs.jpclett.4c01283] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2024] [Revised: 06/04/2024] [Accepted: 06/05/2024] [Indexed: 06/13/2024]
Abstract
The optical properties of disordered plasmonic nanoparticle assemblies can be continuously tuned through the structural organization and composition of their colloidal building blocks. However, progress in the design and experimental realization of these materials has been limited by challenges associated with controlling and characterizing disordered assemblies and predicting their optical properties. This Perspective discusses integrated studies of experimental assembly of disordered optical materials, such as doped metal oxide nanocrystal gels and metasurfaces, with electromagnetic computations on large-scale simulated structures. The simulations prove vital for connecting experimental parameters to disordered structural motifs and optical properties, revealing structure-property relations that inform design choices. Opportunities are identified for optimizing optical property designs for disordered materials using computational inverse methods and tools from machine learning.
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Affiliation(s)
- Zachary
M. Sherman
- Department
of Chemical Engineering, University of Washington, 3781 Okanogan Lane, Seattle, Washington 98195, United States
- McKetta
Department of Chemical Engineering, University
of Texas at Austin, 200 E Dean Keeton Street, Austin, Texas 78712, United States
| | - Jiho Kang
- McKetta
Department of Chemical Engineering, University
of Texas at Austin, 200 E Dean Keeton Street, Austin, Texas 78712, United States
| | - Delia J. Milliron
- McKetta
Department of Chemical Engineering, University
of Texas at Austin, 200 E Dean Keeton Street, Austin, Texas 78712, United States
- Department
of Chemistry, University of Texas at Austin, 2506 Speedway, Austin, Texas 78712, United States
| | - Thomas M. Truskett
- McKetta
Department of Chemical Engineering, University
of Texas at Austin, 200 E Dean Keeton Street, Austin, Texas 78712, United States
- Department
of Physics, University of Texas at Austin, 2515 Speedway, Austin, Texas 78712, United States
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4
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Zhu G, von Coelln N, Hou Y, Vazquez-Martel C, Spiegel CA, Tegeder P, Blasco E. Digital Light 3D Printing of Double Thermoplastics with Customizable Mechanical Properties and Versatile Reprocessability. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2024:e2401561. [PMID: 38949414 DOI: 10.1002/adma.202401561] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2024] [Revised: 05/28/2024] [Indexed: 07/02/2024]
Abstract
Digital light processing (DLP) is a 3D printing technology offering high resolution and speed. Printable materials are commonly based on multifunctional monomers, resulting in the formation of thermosets that usually cannot be reprocessed or recycled. Some efforts are made in DLP 3D printing of thermoplastic materials. However, these materials exhibit limited and poor mechanical properties. Here, a new strategy is presented for DLP 3D printing of thermoplastics based on a sequential construction of two linear polymers with contrasting (stiff and flexible) mechanical properties. The inks consist of two vinyl monomers, which lead to the stiff linear polymer, and α-lipoic acid, which forms the flexible linear polymer via thermal ring-opening polymerization in a second step. By varying the ratio of stiff and flexible linear polymers, the mechanical properties can be tuned with Young's modulus ranging from 1.1 GPa to 0.7 MPa, while the strain at break increased from 4% to 574%. Furthermore, these printed thermoplastics allow for a variety of reprocessability pathways including self-healing, solvent casting, reprinting, and closed-loop recycling of the flexible polymer, contributing to the development of a sustainable materials economy. Last, the potential of the new material in applications ranging from soft robotics to electronics is demonstrated.
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Affiliation(s)
- Guangda Zhu
- Institute for Molecular Systems Engineering and Advanced Materials, Universität Heidelberg, Im Neuenheimer Feld 225, 69120, Heidelberg, Germany
- Institute of Organic Chemistry, Universität Heidelberg, Im Neuenheimer Feld 270, 69120, Heidelberg, Germany
| | - Nadine von Coelln
- Physikalisch-Chemisches Institut, Universität Heidelberg, Im Neuenheimer Feld 253, 69120, Heidelberg, Germany
| | - Yi Hou
- Institute for Molecular Systems Engineering and Advanced Materials, Universität Heidelberg, Im Neuenheimer Feld 225, 69120, Heidelberg, Germany
- Institute of Organic Chemistry, Universität Heidelberg, Im Neuenheimer Feld 270, 69120, Heidelberg, Germany
| | - Clara Vazquez-Martel
- Institute for Molecular Systems Engineering and Advanced Materials, Universität Heidelberg, Im Neuenheimer Feld 225, 69120, Heidelberg, Germany
- Institute of Organic Chemistry, Universität Heidelberg, Im Neuenheimer Feld 270, 69120, Heidelberg, Germany
| | - Christoph A Spiegel
- Institute for Molecular Systems Engineering and Advanced Materials, Universität Heidelberg, Im Neuenheimer Feld 225, 69120, Heidelberg, Germany
- Institute of Organic Chemistry, Universität Heidelberg, Im Neuenheimer Feld 270, 69120, Heidelberg, Germany
| | - Petra Tegeder
- Physikalisch-Chemisches Institut, Universität Heidelberg, Im Neuenheimer Feld 253, 69120, Heidelberg, Germany
| | - Eva Blasco
- Institute for Molecular Systems Engineering and Advanced Materials, Universität Heidelberg, Im Neuenheimer Feld 225, 69120, Heidelberg, Germany
- Institute of Organic Chemistry, Universität Heidelberg, Im Neuenheimer Feld 270, 69120, Heidelberg, Germany
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5
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Ergoktas MS, Kecebas A, Despotelis K, Soleymani S, Bakan G, Kocabas A, Principi A, Rotter S, Ozdemir SK, Kocabas C. Localized thermal emission from topological interfaces. Science 2024; 384:1122-1126. [PMID: 38843319 PMCID: PMC7616096 DOI: 10.1126/science.ado0534] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2024] [Accepted: 04/19/2024] [Indexed: 06/14/2024]
Abstract
The control of thermal radiation by shaping its spatial and spectral emission characteristics plays a key role in many areas of science and engineering. Conventional approaches to tailoring thermal emission using metamaterials are hampered both by the limited spatial resolution of the required subwavelength material structures and by the materials' strong absorption in the infrared. In this work, we demonstrate an approach based on the concept of topology. By changing a single parameter of a multilayer coating, we were able to control the reflection topology of a surface, with the critical point of zero reflection being topologically protected. The boundaries between subcritical and supercritical spatial domains host topological interface states with near-unity thermal emissivity. These topological concepts enable unconventional manipulation of thermal light for applications in thermal management and thermal camouflage.
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Affiliation(s)
- M. Said Ergoktas
- Department of Materials, University of Manchester, Manchester, M13 9PL, UK
- National Graphene Institute, University of Manchester, Manchester, M13 9PL, UK
| | - Ali Kecebas
- Department of Engineering Science and Mechanics, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
| | - Konstantinos Despotelis
- Department of Materials, University of Manchester, Manchester, M13 9PL, UK
- National Graphene Institute, University of Manchester, Manchester, M13 9PL, UK
| | - Sina Soleymani
- Department of Engineering Science and Mechanics, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
| | - Gokhan Bakan
- Department of Materials, University of Manchester, Manchester, M13 9PL, UK
- National Graphene Institute, University of Manchester, Manchester, M13 9PL, UK
| | - Askin Kocabas
- Department of Physics, Koc University, Istanbul, Turkey
| | | | - Stefan Rotter
- Institute for Theoretical Physics, Vienna University of Technology (TU Wien), 1040 Vienna, Austria
| | - Sahin K. Ozdemir
- Materials Research Institute, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
| | - Coskun Kocabas
- Department of Materials, University of Manchester, Manchester, M13 9PL, UK
- National Graphene Institute, University of Manchester, Manchester, M13 9PL, UK
- Henry Royce Institute for Advanced Materials, University of Manchester, Manchester, M13 9PL, UK
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6
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Kambar N, Go YK, Snyder C, Do MN, Leal C. Structural characterization of lateral phase separation in polymer-lipid hybrid membranes. Methods Enzymol 2024; 700:235-273. [PMID: 38971602 DOI: 10.1016/bs.mie.2024.04.023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/08/2024]
Abstract
Hierarchic self-assembly is the main mechanism used to create diverse structures using soft materials. This is a case for both synthetic materials and biomolecular systems, as exemplified by the non-covalent organization of lipids into membranes. In nature, lipids often assemble into single bilayers, but other nanostructures are encountered, such as bilayer stacks and tubular and vesicular aggregates. Synthetic block copolymers can be engineered to recapitulate many of the structures, forms, and functions of lipid systems. When block copolymers are amphiphilic, they can be inserted or co-assembled into hybrid membranes that exhibit synergistic structural, permeability, and mechanical properties. One example is the emergence of lateral phase separation akin to the raft formation in biomembranes. When higher-order structures, such as hybrid membranes, are formed, this lateral phase separation can be correlated across membranes in the stack. This chapter outlines a set of important methods, such as X-ray Scattering, Atomic Force Microscopy, and Cryo-Electron Microscopy, that are relevant to characterizing and evaluating lateral and correlated phase separation in hybrid membranes at the nano and mesoscales. Understanding the phase behavior of polymer-lipid hybrid materials could lead to innovative advancements in biomimetic membrane separation systems.
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Affiliation(s)
- Nurila Kambar
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, United States
| | - Yoo Kyung Go
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, United States
| | - Corey Snyder
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, United States
| | - Minh N Do
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, United States
| | - Cecília Leal
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, United States.
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7
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Sitton J, Ali A, Osborne L, Holman AP, Rodriguez A, Kurouski D. Plasmalogens Alter the Aggregation Rate of Transthyretin and Lower Toxicity of Transthyretin Fibrils. J Phys Chem Lett 2024; 15:4761-4766. [PMID: 38661515 PMCID: PMC11071038 DOI: 10.1021/acs.jpclett.4c00868] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2024] [Revised: 04/10/2024] [Accepted: 04/11/2024] [Indexed: 04/26/2024]
Abstract
Heart tissue can experience a progressive accumulation of transthyretin (TTR), a small four subunit protein that transports holoretinol binding protein and thyroxine. This severe pathology is known as transthyretin amyloid cardiomyopathy. Numerous experimental studies indicated that the aggregation rate and toxicity of TTR fibrils could be altered by the presence of lipids; however, the role of plasmalogens in this process remains unknown. In this study, we investigate the effect of choline plasmalogens (CPs) with different lengths and saturations of fatty acids (FAs) on TTR aggregation. We found that CPs with saturated and unsaturated FAs strongly suppressed TTR aggregation. We also found that CPs with saturated FAs did not change the morphology of TTR fibrils; however, much thicker fibrillar species were formed in the presence of CPs with unsaturated FAs. Finally, we found that CPs with C16:0, C18:0, and C18:1 FAs substantially lowered the cytotoxicity of TTR fibrils that were formed in their presence.
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Affiliation(s)
- Jadon Sitton
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
| | - Abid Ali
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
| | - Luke Osborne
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
| | - Aidan P. Holman
- Department
of Entomology, Texas A&M University, College Station, Texas 77843, United States
| | - Axell Rodriguez
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
| | - Dmitry Kurouski
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
- Department
of Biomedical Engineering, Texas A&M
University, College
Station, Texas 77843, United States
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8
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Forland BM, Hughey KD, Wilhelm MJ, Williams ON, Cappello BF, Gaspar CL, Myers TL, Sharpe SW, Johnson TJ. Optimal Spectral Resolution for Infrared Studies of Solids and Liquids. APPLIED SPECTROSCOPY 2024; 78:486-503. [PMID: 38404070 DOI: 10.1177/00037028241231601] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/27/2024]
Abstract
Due to a legacy originating in the limited capability of early computers, the spectroscopic resolution used in Fourier transform infrared spectroscopy and other systems has largely been implemented using only powers of two for more than 50 years. In this study, we investigate debunking the spectroscopic lore of, e.g., using only 2, 4, 8, or 16 cm-1 resolution and determine the optimal resolution in terms of both (i) a desired signal-to-noise ratio and (ii) efficient use of acquisition time. The study is facilitated by the availability of solids and liquids reference spectral data recorded at 2.0 cm-1 resolution and is based on an examination in the 4000-400 cm-1 range of 61 liquids and 70 solids spectra, with a total analysis of 4237 peaks, each of which was also examined for being singlet/multiplet in nature. Of the 1765 liquid bands examined, only 27 had widths <5 cm-1. Of the 2472 solid bands examined, only 39 peaks have widths <5 cm-1. For both the liquid and solid bands, a skewed distribution of peak widths was observed: For liquids, the mean peak width was 24.7 cm-1 but the median peak width was 13.7 cm-1, and, similarly, for solids, the mean peak width was 22.2 cm-1 but the median peak width was 11.2 cm-1. While recognizing other studies may differ in scope and limiting the analysis to only room temperature data, we have found that a resolution to resolve 95% of all bands is 5.7 cm-1 for liquids and 5.3 cm-1 for solids; such a resolution would capture the native linewidth (not accounting for instrumental broadening) for 95% of all the solids and liquid bands, respectively. After decades of measuring liquids and solids at 4, 8, or 16 cm-1 resolution, we suggest that, when accounting only for intrinsic linewidths, an optimized resolution of 6.0 cm-1 will capture 91% of all condensed-phase bands, i.e., broadening of only 9% of the narrowest of bands, but yielding a large gain in signal-to-noise with minimal loss of specificity.
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Affiliation(s)
- Brenda M Forland
- Pacific Northwest National Laboratory, Richland, Washington, USA
| | - Kendall D Hughey
- Pacific Northwest National Laboratory, Richland, Washington, USA
| | | | | | | | - Connor L Gaspar
- Pacific Northwest National Laboratory, Richland, Washington, USA
| | - Tanya L Myers
- Pacific Northwest National Laboratory, Richland, Washington, USA
| | - Steven W Sharpe
- Pacific Northwest National Laboratory, Richland, Washington, USA
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9
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Baghel D, de Oliveira AP, Satyarthy S, Chase WE, Banerjee S, Ghosh A. Structural characterization of amyloid aggregates with spatially resolved infrared spectroscopy. Methods Enzymol 2024; 697:113-150. [PMID: 38816120 PMCID: PMC11147165 DOI: 10.1016/bs.mie.2024.02.013] [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: 06/01/2024]
Abstract
The self-assembly of proteins and peptides into ordered structures called amyloid fibrils is a hallmark of numerous diseases, impacting the brain, heart, and other organs. The structure of amyloid aggregates is central to their function and thus has been extensively studied. However, the structural heterogeneities between aggregates as they evolve throughout the aggregation pathway are still not well understood. Conventional biophysical spectroscopic methods are bulk techniques and only report on the average structural parameters. Understanding the structure of individual aggregate species in a heterogeneous ensemble necessitates spatial resolution on the length scale of the aggregates. Recent technological advances have led to augmentation of infrared (IR) spectroscopy with imaging modalities, wherein the photothermal response of the sample upon vibrational excitation is leveraged to provide spatial resolution beyond the diffraction limit. These combined approaches are ideally suited to map out the structural heterogeneity of amyloid ensembles. AFM-IR, which integrates IR spectroscopy with atomic force microscopy enables identification of the structural facets the oligomers and fibrils at individual aggregate level with nanoscale resolution. These capabilities can be extended to chemical mapping in diseased tissue specimens with submicron resolution using optical photothermal microscopy, which combines IR spectroscopy with optical imaging. This book chapter provides the basic premise of these novel techniques and provides the typical methodology for using these approaches for amyloid structure determination. Detailed procedures pertaining to sample preparation and data acquisition and analysis are discussed and the aggregation of the amyloid β peptide is provided as a case study to provide the reader the experimental parameters necessary to use these techniques to complement their research efforts.
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Affiliation(s)
- Divya Baghel
- Department of Chemistry and Biochemistry, The University of Alabama, Tuscaloosa, AL, United States
| | - Ana Pacheco de Oliveira
- Department of Chemistry and Biochemistry, The University of Alabama, Tuscaloosa, AL, United States
| | - Saumya Satyarthy
- Department of Chemistry and Biochemistry, The University of Alabama, Tuscaloosa, AL, United States
| | - William E Chase
- Department of Chemistry and Biochemistry, The University of Alabama, Tuscaloosa, AL, United States
| | - Siddhartha Banerjee
- Department of Chemistry and Biochemistry, The University of Alabama, Tuscaloosa, AL, United States
| | - Ayanjeet Ghosh
- Department of Chemistry and Biochemistry, The University of Alabama, Tuscaloosa, AL, United States.
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10
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Yilmaz U, Sam S, Lendl B, Ramer G. Bottom-Illuminated Photothermal Nanoscale Chemical Imaging with a Flat Silicon ATR in Air and Liquid. Anal Chem 2024; 96:4410-4418. [PMID: 38445554 PMCID: PMC10955511 DOI: 10.1021/acs.analchem.3c04348] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2023] [Revised: 01/31/2024] [Accepted: 02/19/2024] [Indexed: 03/07/2024]
Abstract
We demonstrate a novel approach for bottom-illuminated atomic force microscopy and infrared spectroscopy (AFM-IR). Bottom-illuminated AFM-IR for measurements in liquids makes use of an attenuated total reflection setup where the developing evanescent wave is responsible for photothermal excitation of the sample of interest. Conventional bottom-illuminated measurements are conducted using high-refractive-index prisms. We showcase the advancement of instrumentation through the introduction of flat silicon substrates as replacements for prisms. We illustrate the feasibility of this technique for bottom-illuminated AFM-IR in both air and liquid. We also show how modern rapid prototyping technologies enable commercial AFM-IR instrumentation to accept these new substrates. This new approach paves the way for a wide range of experiments since virtually any established protocol for Si surface functionalization can be applied to this sample carrier. Furthermore, the low unit cost enables the rapid iteration of experiments.
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Affiliation(s)
- Ufuk Yilmaz
- Institute
of Chemical Technologies and Analytics, TU Wien, Vienna 1060, Austria
| | - Savda Sam
- Institute
of Chemical Technologies and Analytics, TU Wien, Vienna 1060, Austria
- Centre
for Advanced Photonics and Process Analysis, Munster Technological University, Cork T12P928, Ireland
| | - Bernhard Lendl
- Institute
of Chemical Technologies and Analytics, TU Wien, Vienna 1060, Austria
| | - Georg Ramer
- Institute
of Chemical Technologies and Analytics, TU Wien, Vienna 1060, Austria
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11
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Xiao Y, Sun Q, Leng J, Jin S. Time-Resolved Spectroscopy for Dynamic Investigation of Photoresponsive Metal-Organic Frameworks. J Phys Chem Lett 2024:3390-3403. [PMID: 38501970 DOI: 10.1021/acs.jpclett.4c00296] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/20/2024]
Abstract
Photoresponsive MOFs with precise and adjustable reticular structures are attractive for light conversion applications. Uncovering the photoinduced carrier dynamics lays the essential foundation for the further development and optimization of the MOF material. With the application of time-resolved spectroscopy, photophysical processes including excimer formation, energy transfer/migration, and charge transfer/separation have been widely investigated. However, the identification of distinct photophysical processes in real experimental MOF spectra still remains difficult due to the spectral and dynamic complexity of MOFs. In this Perspective, we summarize the typical spectral features of these photophysical processes and the related analysis methods for dynamic studies performed by time-resolved photoluminescence (TR-PL) and transient absorption (TA) spectroscopy. Based on the recent understanding of excited-state properties of photoresponsive MOFs and the discussion of challenges and future outlooks, this Perspective aims to provide convenience for MOF kinetic analysis and contribute to the further development of photoresponsive MOF material.
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Affiliation(s)
- Yejun Xiao
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Qi Sun
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Jing Leng
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Shengye Jin
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
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12
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Castillo HB, Shuster SO, Tarekegn LH, Davis CM. Oleic acid differentially affects lipid droplet storage of de novo synthesized lipids in hepatocytes and adipocytes. Chem Commun (Camb) 2024; 60:3138-3141. [PMID: 38329230 PMCID: PMC10939124 DOI: 10.1039/d3cc04829b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2023] [Accepted: 01/29/2024] [Indexed: 02/09/2024]
Abstract
Lipogenesis is a vital but often dysregulated metabolic pathway. Here we use optical photothermal infrared imaging to quantify lipogenesis rates of isotopically labelled oleic acid and glucose concomitantly in live cells. In hepatocytes, but not adipocytes, we find that oleic acid feeding at 60 μM increases the number and size of lipid droplets (LDs) while simultaneously inhibiting storage of de novo synthesized lipids in LDs. Our results demonstrate alternate regulation of lipogenesis between cell types.
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Affiliation(s)
- Hannah B Castillo
- Department of Chemistry, Yale University, New Haven, Connecticut, 06511, USA.
| | - Sydney O Shuster
- Department of Chemistry, Yale University, New Haven, Connecticut, 06511, USA.
| | - Lydia H Tarekegn
- Department of Chemistry, Yale University, New Haven, Connecticut, 06511, USA.
| | - Caitlin M Davis
- Department of Chemistry, Yale University, New Haven, Connecticut, 06511, USA.
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13
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Ali A, Dou T, Holman AP, Hung A, Osborne L, Pickett D, Rodriguez A, Zhaliazka K, Kurouski D. The influence of zwitterionic and anionic phospholipids on protein aggregation. Biophys Chem 2024; 306:107174. [PMID: 38211368 DOI: 10.1016/j.bpc.2024.107174] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2023] [Revised: 01/05/2024] [Accepted: 01/05/2024] [Indexed: 01/13/2024]
Abstract
The progressive aggregation of misfolded proteins is the underlying molecular cause of numerous pathologies including Parkinson's disease and injection and transthyretin amyloidosis. A growing body of evidence indicates that protein deposits detected in organs and tissues of patients diagnosed with such pathologies contain fragments of lipid membranes. In vitro experiments also showed that lipid membranes could strongly change the aggregation rate of amyloidogenic proteins, as well as alter the secondary structure and toxicity of oligomers and fibrils formed in their presence. In this review, the effect of large unilamellar vesicles (LUVs) composed of zwitterionic and anionic phospholipids on the aggregation rate of insulin, lysozyme, transthyretin (TTR) and α- synuclein (α-syn) will be discussed. The manuscript will also critically review the most recent findings on the lipid-induced changes in the secondary structure of protein oligomers and fibrils, as well as reveal the extent to which lipids could alter the toxicity of protein aggregates formed in their presence.
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Affiliation(s)
- Abid Ali
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Tianyi Dou
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Aidan P Holman
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States; Department of Entomology, Texas A&M University, College Station, TX 77843, United States
| | - Andrew Hung
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Luke Osborne
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Davis Pickett
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Axell Rodriguez
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Kiryl Zhaliazka
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Dmitry Kurouski
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States; Department of Biomedical Engineering, Texas A&M University, College Station, TX 77843, United States.
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14
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Zhaliazka K, Ali A, Kurouski D. Phospholipids and Cholesterol Determine Molecular Mechanisms of Cytotoxicity of α-Synuclein Oligomers and Fibrils. ACS Chem Neurosci 2024; 15:371-381. [PMID: 38166409 DOI: 10.1021/acschemneuro.3c00671] [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: 01/04/2024] Open
Abstract
Progressive loss of dopaminergic (DA) neurons in the substantia nigra pars compacta, hypothalamus, and thalamus is a hallmark of Parkinson's disease. Neuronal death is linked to the abrupt aggregation of α-synuclein (α-Syn), a small membrane protein that regulates cell vesicle trafficking. α-Syn aggregation rate, as well as the secondary structure and toxicity of α-Syn fibrils, could be uniquely altered by lipids. However, molecular mechanisms that determine such a remarkable difference in the toxicity of α-Syn fibrils formed in the presence of lipids remain unclear. In this study, we used a set of molecular assays to determine the molecular mechanism by which α-Syn fibrils formed in the presence of phosphatidylcholine (PC), cardiolipin (CL), and cholesterol (Cho) exert cell toxicity. We found that rat dopaminergic cells exposed to α-Syn fibrils formed in the presence of different lipids exert drastically different magnitudes and dynamics of unfolded protein response (UPR) in the endoplasmic reticulum (ER) and mitochondria (MT). Specifically, α-Syn:CL were found to cause the strongest, whereas α-Syn fibrils formed in the absence of lipids had the lowest magnitude of the UPR cell response. We also found the opposite dynamics of the ER- and MT-UPR responses in rat dopaminergic cells exposed to protein aggregates. These results could suggest that facing severe ER stress, dopaminergic cells suppress MT-UPR response, enabling the maximal ATP production to restore their normal physiological function. These findings help to better understand complex mechanisms of cell toxicity of amyloid aggregates and ultimately find neuroprotective drug candidates that will be able to suppress the spread of Parkinson's disease.
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Affiliation(s)
- Kiryl Zhaliazka
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas 77843, United States
| | - Abid Ali
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas 77843, United States
| | - Dmitry Kurouski
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas 77843, United States
- Department of Biomedical Engineering, Texas A&M University, College Station, Texas 77843, United States
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15
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Schultz JF, Krylyuk S, Schwartz JJ, Davydov AV, Centrone A. Isotopic effects on in-plane hyperbolic phonon polaritons in MoO 3. NANOPHOTONICS 2024; 13:10.1515/nanoph-2023-0717. [PMID: 38846933 PMCID: PMC11155493 DOI: 10.1515/nanoph-2023-0717] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2024]
Abstract
Hyperbolic phonon polaritons (HPhPs), hybrids of light and lattice vibrations in polar dielectric crystals, empower nanophotonic applications by enabling the confinement and manipulation of light at the nanoscale. Molybdenum trioxide (α-MoO3) is a naturally hyperbolic material, meaning that its dielectric function deterministically controls the directional propagation of in-plane HPhPs within its reststrahlen bands. Strategies such as substrate engineering, nano- and heterostructuring, and isotopic enrichment are being developed to alter the intrinsic die ectric functions of natural hyperbolic materials and to control the confinement and propagation of HPhPs. Since isotopic disorder can limit phonon-based processes such as HPhPs, here we synthesize isotopically enriched 92MoO3 (92Mo: 99.93 %) and 100MoO3 (100Mo: 99.01 %) crystals to tune the properties and dispersion of HPhPs with respect to natural α-MoO3, which is composed of seven stable Mo isotopes. Real-space, near-field maps measured with the photothermal induced resonance (PTIR) technique enable comparisons of inplane HPhPs in α-MoO3 and isotopically enriched analogues within a reststrahlen band (≈820 cm-1 to ≈ 972 cm-1). Results show that isotopic enrichment (e.g., 92MoO3 and 100MoO3) alters the dielectric function, shifting the HPhP dispersion (HPhP angular wavenumber × thickness vs IR frequency) by ≈-7% and ≈ +9 %, respectively, and changes the HPhP group velocities by ≈ ±12 %, while the lifetimes (≈ 3 ps) in 92MoO3 were found to be slightly improved (≈ 20 %). The latter improvement is attributed to a decrease in isotopic disorder. Altogether, isotopic enrichment was found to offer fine control over the properties that determine the anisotropic in-plane propagation of HPhPs in α-MoO3, which is essential to its implementation in nanophotonic applications.
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Affiliation(s)
- Jeremy F. Schultz
- Physical Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
| | - Sergiy Krylyuk
- Material Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
| | - Jeffrey J. Schwartz
- Physical Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, USA; and Department of Electrical and Computer Engineering, University of Maryland, College Park, Maryland 20742, USA
| | - Albert V. Davydov
- Material Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
| | - Andrea Centrone
- Physical Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
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16
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Ali A, Zhaliazka K, Dou T, Holman AP, Kumar R, Kurouski D. Secondary structure and toxicity of transthyretin fibrils can be altered by unsaturated fatty acids. Int J Biol Macromol 2023; 253:127241. [PMID: 37804888 DOI: 10.1016/j.ijbiomac.2023.127241] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2023] [Revised: 09/24/2023] [Accepted: 10/02/2023] [Indexed: 10/09/2023]
Abstract
Transthyretin amyloidosis is a severe pathology characterized by the progressive accumulation of transthyretin (TTR) in various organs and tissues. This highly conserved through vertebrate evolution protein transports thyroid hormone thyroxine. In our bodies, TTR can interact with a large number of molecules, including ω-3 and ω-6 polyunsaturated fatty acids (PUFAs) that are broadly used as food supplies. In this study, we investigated the effect of ω-3 and ω-6 PUFAs, as well as their fully saturated analog, on TTR aggregation. Our results showed that both ω-3 and ω-6 PUFAs strongly decreased the rate of TTR aggregation. We also found that in the presence of PUFAs, TTR formed morphologically different fibrils compared to the lipid-free environment. Nano-Infrared imaging revealed that these fibrils had drastically different secondary structures compared to the secondary structure of TTR aggregates formed in the PUFAs-free environment. Furthermore, TTR fibrils formed in the presence of ω-3 and ω-6 PUFAs exerted significantly lower cell toxicity compared to the fibrils formed in the absence of fatty acids.
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Affiliation(s)
- Abid Ali
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Kiryl Zhaliazka
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Tianyi Dou
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Aidan P Holman
- Department of Entomology, Texas A&M University, College Station, TX 77843, United States
| | - Rakesh Kumar
- Institute Rotary Cancer Hospital, All India Institute of Medical Sciences, New Delhi 110029, India
| | - Dmitry Kurouski
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States; Department of Biomedical Engineering, Texas A&M University, College Station, TX 77843, United States.
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17
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Ali A, Zhaliazka K, Dou T, Holman AP, Kurouski D. Cholesterol and Sphingomyelin Uniquely Alter the Rate of Transthyretin Aggregation and Decrease the Toxicity of Amyloid Fibrils. J Phys Chem Lett 2023; 14:10886-10893. [PMID: 38033106 PMCID: PMC10863059 DOI: 10.1021/acs.jpclett.3c02613] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2023] [Revised: 11/22/2023] [Accepted: 11/28/2023] [Indexed: 12/02/2023]
Abstract
Transthyretin (TTR) is a small tetrameric protein that aggregates, forming highly toxic oligomers and fibrils. In the blood and cerebrospinal fluid, TTR can interact with various biomolecules, phospho- and sphingolipids, and cholesterol on the red blood cell plasma membrane. However, the role of these molecules in TTR aggregation remains unclear. In this study, we investigated the extent to which phosphatidylcholine (PC), sphingomyelin (SM), and cholesterol (Cho), important components of plasma membranes, could alter the rate of TTR aggregation. We found that PC and SM inhibited TTR aggregation whereas Cho strongly accelerated it. The presence of these lipids during the stage of protein aggregation uniquely altered the morphology and secondary structure of the TTR fibrils, which changed the toxicity of these protein aggregates. These results suggest that interactions of TTR with red blood cells, whose membranes are rich with these lipids, can trigger irreversible aggregation of TTR and cause transthyretin amyloidosis.
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Affiliation(s)
- Abid Ali
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
| | - Kiryl Zhaliazka
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
| | - Tianyi Dou
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
| | - Aidan P. Holman
- Department
of Entomology, Texas A&M University, College Station, Texas 77843, United States
| | - Dmitry Kurouski
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
- Department
of Biomedical Engineering, Texas A&M
University, College
Station, Texas 77843, United States
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18
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Rodriguez A, Ali A, Holman AP, Dou T, Zhaliazka K, Kurouski D. Nanoscale structural characterization of transthyretin aggregates formed at different time points of protein aggregation using atomic force microscopy-infrared spectroscopy. Protein Sci 2023; 32:e4838. [PMID: 37967043 PMCID: PMC10683371 DOI: 10.1002/pro.4838] [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] [Received: 08/28/2023] [Revised: 10/25/2023] [Accepted: 11/12/2023] [Indexed: 11/17/2023]
Abstract
Transthyretin (TTR) amyloidosis is a progressive disease characterized by an abrupt aggregation of misfolded protein in multiple organs and tissues TTR is a tetrameric protein expressed in the liver and choroid plexus. Protein misfolding triggers monomerization of TTR tetramers. Next, monomers assemble forming oligomers and fibrils. Although the secondary structure of TTR fibrils is well understood, there is very little if anything is known about the structural organization of TTR oligomers. To end this, we used nano-infrared spectroscopy, also known as atomic force microscopy infrared (AFM-IR) spectroscopy. This emerging technique can be used to determine the secondary structure of individual amyloid oligomers and fibrils. Using AFM-IR, we examined the secondary structure of TTR oligomers formed at the early (3-6 h), middle (9-12 h), and late (28 h) of protein aggregation. We found that aggregating, TTR formed oligomers (Type 1) that were dominated by α-helix (40%) and β-sheet (~30%) together with unordered protein (30%). Our results showed that fibril formation was triggered by another type of TTR oligomers (Type 2) that appeared at 9 h. These new oligomers were primarily composed of parallel β-sheet (55%), with a small amount of antiparallel β-sheet, α-helix, and unordered protein. We also found that Type 1 oligomers were not toxic to cells, whereas TTR fibrils formed at the late stages of protein aggregation were highly cytotoxic. These results show the complexity of protein aggregation and highlight the drastic difference in the protein oligomers that can be formed during such processes.
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Affiliation(s)
- Axell Rodriguez
- Department of Biochemistry and BiophysicsTexas A&M UniversityCollege StationTexasUSA
| | - Abid Ali
- Department of Biochemistry and BiophysicsTexas A&M UniversityCollege StationTexasUSA
| | - Aidan P. Holman
- Department of EntomologyTexas A&M UniversityCollege StationTexasUSA
| | - Tianyi Dou
- Department of Biochemistry and BiophysicsTexas A&M UniversityCollege StationTexasUSA
| | - Kiryl Zhaliazka
- Department of Biochemistry and BiophysicsTexas A&M UniversityCollege StationTexasUSA
| | - Dmitry Kurouski
- Department of Biochemistry and BiophysicsTexas A&M UniversityCollege StationTexasUSA
- Department of Biomedical EngineeringTexas A&M UniversityCollege StationTexasUSA
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19
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Kurouski D. Elucidating the Role of Lipids in the Aggregation of Amyloidogenic Proteins. Acc Chem Res 2023; 56:2898-2906. [PMID: 37824095 PMCID: PMC10862471 DOI: 10.1021/acs.accounts.3c00386] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2023] [Indexed: 10/13/2023]
Abstract
The abrupt aggregation of misfolded proteins is linked to the onset and spread of amyloidogenic diseases, including diabetes type 2, systemic amyloidosis, and Alzheimer's (AD) and Parkinson's diseases (PD). Although the exact cause of these pathological processes is unknown, a growing body of evidence suggests that amyloid diseases are triggered by misfolded or unfolded proteins, forming highly toxic oligomers. These transient species exhibit high structural and morphological heterogeneity. Protein oligomers can also propagate into β-sheet-rich filaments that braid and coil with other filaments to form amyloid fibrils and supramolecular structures with both flat and twisted morphologies. Microscopic examination of protein deposits formed in the brains of both AD and PD patients revealed the presence of fragments of lipid membranes. Furthermore, nanoscale infrared analysis of ex vivo extracted fibrils revealed the presence of lipids in their structure (Zhaliazka, K.; Kurouski, D. Protein Sci. 2023, 32, e4598). These findings demonstrated that lipid bilayers could play an important role in the aggregation of misfolded proteins.Experimental findings summarized in this Account show that (i) lipids uniquely change the aggregation rate of amyloidogenic proteins. In this case, the observed changes in the rates directly depend on the net charge of the lipid and the length and saturation of lipid fatty acids (FAs). For instance, zwitterionic phosphatidylcholine (PC) with 14:0 FAs inhibited the aggregation of insulin, lysozyme, and α-synuclein (α-Syn), whereas anionic phosphatidylserine with the same FAs dramatically accelerated the aggregation rate of these proteins (Dou, T., et al. J. Phys. Chem. Lett. 2021, 12, 4407. Matveyenka, M., et al. FASEB J. 2022, 36, e22543. Rizevsky, S., et al. J. Phys. Chem. Lett. 2022, 13, 2467). Furthermore, (ii) lipids uniquely alter the secondary structure and morphology of protein oligomers and fibrils formed in their presence. Utilization of nano-infrared spectroscopy revealed that such aggregates, as well as ex vivo extracted fibrils, possessed lipids in their structure. These findings are significant because (iii) lipids uniquely alter the toxicity of amyloid oligomers and fibrils formed in their presence. Specifically, PC lowered the toxicity of insulin and lysozyme oligomers, whereas α-Syn oligomers formed in the presence of this phospholipid were found to be significantly more toxic to rat dopaminergic cells compared to α-Syn oligomers grown in the lipid-free environment. Thus, the toxicity of protein oligomers and fibrils is directly determined by the chemical structure of the lipid and the secondary structure of amyloidogenic proteins (Dou, T., et al. J. Phys. Chem. Lett. 2021, 12, 4407. Matveyenka, M., et al. FASEB J. 2022, 36, e22543. Rizevsky, S., et al. J. Phys. Chem. Lett. 2022, 13, 2467). Experimental results discussed in this Account also suggest that amyloidogenic diseases could be caused by pathological changes in the lipid composition of both plasma and organelle membranes, which, in turn, may trigger protein aggregation that results in the formation of highly toxic oligomers and fibrils. Finally, the Account discusses the effects of polyunsaturated FAs on the aggregation properties of amyloidogenic proteins. Experimental findings reported by the author's laboratory revealed that polyunsaturated FAs drastically accelerated the aggregation rate of both insulin and α-Syn as well as strongly changed the secondary structure of amyloid fibrils formed in their presence.
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Affiliation(s)
- Dmitry Kurouski
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
- Department
of Biomedical Engineering, Texas A&M
University, College Station, Texas 77843, United States
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20
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Ali A, Zhaliazka K, Dou T, Holman AP, Kurouski D. Saturation of fatty acids in phosphatidic acid uniquely alters transthyretin stability changing morphology and toxicity of amyloid fibrils. Chem Phys Lipids 2023; 257:105350. [PMID: 37858615 DOI: 10.1016/j.chemphyslip.2023.105350] [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] [Received: 08/17/2023] [Revised: 10/11/2023] [Accepted: 10/15/2023] [Indexed: 10/21/2023]
Abstract
Transthyretin (TTR) is a small, β-sheet-rich tetrameric protein that transports thyroid hormone thyroxine and retinol. Phospholipids, including phosphatidic acid (PA), can uniquely alter the stability of amyloidogenic proteins. However, the role of PA in TTR aggregation remains unclear. In this study, we investigated the effect of saturation of fatty acids (FAs) in PA on the rate of TTR aggregation. We also reveal the extent to which PAs with different length and saturation of FAs altered the morphology and secondary structure of TTR aggregates. Our results showed that TTR aggregation in the equimolar presence of PAs with different length and saturation of FAs yielded structurally and morphologically different fibrils compared to those formed in the lipid-free environment. We also found that PAs drastically lowered the toxicity of TTR aggregates formed in the presence of this phospholipid. These results shed light on the role of PA in the stability of TTR and transthyretin amyloidosis.
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Affiliation(s)
- Abid Ali
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Kiryl Zhaliazka
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Tianyi Dou
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States
| | - Aidan P Holman
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States; Department of Entomology, Texas A&M University, College Station, TX 77843, United States
| | - Dmitry Kurouski
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, United States; Department of Biomedical Engineering, Texas A&M University, College Station, TX 77843, United States.
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21
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Satyarthy S, Hasan Ul Iqbal M, Abida F, Nahar R, Hauser AJ, Cheng MMC, Ghosh A. Stearic Acid as an Atomic Layer Deposition Inhibitor: Spectroscopic Insights from AFM-IR. NANOMATERIALS (BASEL, SWITZERLAND) 2023; 13:2713. [PMID: 37836354 PMCID: PMC10574727 DOI: 10.3390/nano13192713] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2023] [Revised: 09/19/2023] [Accepted: 10/02/2023] [Indexed: 10/15/2023]
Abstract
Modern-day chip manufacturing requires precision in placing chip materials on complex and patterned structures. Area-selective atomic layer deposition (AS-ALD) is a self-aligned manufacturing technique with high precision and control, which offers cost effectiveness compared to the traditional patterning techniques. Self-assembled monolayers (SAMs) have been explored as an avenue for realizing AS-ALD, wherein surface-active sites are modified in a specific pattern via SAMs that are inert to metal deposition, enabling ALD nucleation on the substrate selectively. However, key limitations have limited the potential of AS-ALD as a patterning method. The choice of molecules for ALD blocking SAMs is sparse; furthermore, deficiency in the proper understanding of the SAM chemistry and its changes upon metal layer deposition further adds to the challenges. In this work, we have addressed the above challenges by using nanoscale infrared spectroscopy to investigate the potential of stearic acid (SA) as an ALD inhibiting SAM. We show that SA monolayers on Co and Cu substrates can inhibit ZnO ALD growth on par with other commonly used SAMs, which demonstrates its viability towards AS-ALD. We complement these measurements with AFM-IR, which is a surface-sensitive spatially resolved technique, to obtain spectral insights into the ALD-treated SAMs. The significant insight obtained from AFM-IR is that SA SAMs do not desorb or degrade with ALD, but rather undergo a change in substrate coordination modes, which can affect ALD growth on substrates.
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Affiliation(s)
- Saumya Satyarthy
- Department of Chemistry and Biochemistry, The University of Alabama, Tuscaloosa, AL 35487, USA; (S.S.); (M.H.U.I.)
| | - Md Hasan Ul Iqbal
- Department of Chemistry and Biochemistry, The University of Alabama, Tuscaloosa, AL 35487, USA; (S.S.); (M.H.U.I.)
| | - Fairoz Abida
- Department of Electrical and Computer Engineering, The University of Alabama, Tuscaloosa, AL 35487, USA; (F.A.); (M.M.-C.C.)
| | - Ridwan Nahar
- Department of Physics and Astronomy, The University of Alabama, Tuscaloosa, AL 35487, USA; (R.N.); (A.J.H.)
| | - Adam J. Hauser
- Department of Physics and Astronomy, The University of Alabama, Tuscaloosa, AL 35487, USA; (R.N.); (A.J.H.)
| | - Mark Ming-Cheng Cheng
- Department of Electrical and Computer Engineering, The University of Alabama, Tuscaloosa, AL 35487, USA; (F.A.); (M.M.-C.C.)
| | - Ayanjeet Ghosh
- Department of Chemistry and Biochemistry, The University of Alabama, Tuscaloosa, AL 35487, USA; (S.S.); (M.H.U.I.)
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22
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Castillo HB, Shuster SO, Tarekegn LH, Davis CM. Oleic acid differentially affects de novo lipogenesis in adipocytes and hepatocytes. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.10.04.560581. [PMID: 37873279 PMCID: PMC10592964 DOI: 10.1101/2023.10.04.560581] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2023]
Abstract
Lipogenesis is a vital but often dysregulated metabolic pathway. We report super-resolution multiplexed vibrational imaging of lipogenesis rates and pathways using isotopically labelled oleic acid and glucose as probes in live adipocytes and hepatocytes. These findings suggest oleic acid inhibits de novo lipogenesis (DNL), but not total lipogenesis, in hepatocytes. No significant effect is seen in adipocytes. These differential effects may be due to alternate regulation of DNL between cell types and could help explain the complicated role oleic acid plays in metabolism.
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Affiliation(s)
- Hannah B. Castillo
- Department of Chemistry, Yale University, New Haven, Connecticut, 06511, United States
| | - Sydney O. Shuster
- Department of Chemistry, Yale University, New Haven, Connecticut, 06511, United States
| | - Lydia H. Tarekegn
- Department of Chemistry, Yale University, New Haven, Connecticut, 06511, United States
| | - Caitlin M. Davis
- Department of Chemistry, Yale University, New Haven, Connecticut, 06511, United States
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23
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Gupta S, Kumar R, Rajput A, Gorka R, Gupta A, Bhasin N, Yadav S, Verma A, Ram K, Bhagat M. Atmospheric Microplastics: Perspectives on Origin, Abundances, Ecological and Health Risks. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:107435-107464. [PMID: 37452254 DOI: 10.1007/s11356-023-28422-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2022] [Accepted: 06/20/2023] [Indexed: 07/18/2023]
Abstract
Microplastic (MP) pollution has aroused a tremendous amount of public and scientific interest worldwide. MPs are found widely ranging from terrestrial to aquatic ecosystems primarily due to the over-exploitation of plastic products and unscientific disposal of plastic waste. There is a large availability of scientific literature on MP pollution in the terrestrial and aquatic ecosystems, especially the marine environments; however, only recently has greater scientific attention been focused on the presence of MPs in the air and its retrospective health implications. Besides, atmospheric transport has been reported to be an important pathway of transport of MPs to the pristine regions of the world. From a health perspective, existing studies suggest that airborne MPs are priority pollutant vectors, that may penetrate deep into the body through inhalation leading to adverse health impacts such as neurotoxicity, cancer, respiratory problems, cytotoxicity, and many more. However, their effects on indoor and outdoor air quality, and on human health are not yet clearly understood due to the lack of enough research studies on that and the non-availability of established scientific protocols for their characterization. This scientific review entails important information concerning the abundance of atmospheric MPs worldwide within the existing literature. A thorough comparison of existing sampling and analytical protocols has been presented. Besides, this review has unveiled the areas of scientific concern especially air quality monitoring which requires immediate attention, with the information gaps to be filled have been addressed.
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Affiliation(s)
- Shivali Gupta
- Department of Environmental Sciences, University of Jammu (J&K), Jammu, India, 180006
| | - Rakesh Kumar
- Department of Environmental Sciences, University of Jammu (J&K), Jammu, India, 180006.
| | - Akanksha Rajput
- Department of Environmental Sciences, University of Jammu (J&K), Jammu, India, 180006
| | - Ruby Gorka
- Department of Environmental Sciences, University of Jammu (J&K), Jammu, India, 180006
| | - Antima Gupta
- Department of Environmental Sciences, University of Jammu (J&K), Jammu, India, 180006
| | - Nazuk Bhasin
- Department of Environmental Sciences, University of Jammu (J&K), Jammu, India, 180006
- IESD, Banaras Hindu University, Varanasi, India, 221005
| | - Sudesh Yadav
- Jawaharlal Nehru University, New Delhi, India, 110067
| | - Anju Verma
- Jawaharlal Nehru University, New Delhi, India, 110067
| | - Kirpa Ram
- IESD, Banaras Hindu University, Varanasi, India, 221005
| | - Madulika Bhagat
- Department of Biotechnology, University of Jammu (J&K), Jammu, India, 180006
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24
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Paul S, Jeništová A, Vosough F, Berntsson E, Mörman C, Jarvet J, Gräslund A, Wärmländer SKTS, Barth A. 13C- and 15N-labeling of amyloid-β and inhibitory peptides to study their interaction via nanoscale infrared spectroscopy. Commun Chem 2023; 6:163. [PMID: 37537303 PMCID: PMC10400569 DOI: 10.1038/s42004-023-00955-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2022] [Accepted: 07/06/2023] [Indexed: 08/05/2023] Open
Abstract
Interactions between molecules are fundamental in biology. They occur also between amyloidogenic peptides or proteins that are associated with different amyloid diseases, which makes it important to study the mutual influence of two polypeptides on each other's properties in mixed samples. However, addressing this research question with imaging techniques faces the challenge to distinguish different polypeptides without adding artificial probes for detection. Here, we show that nanoscale infrared spectroscopy in combination with 13C, 15N-labeling solves this problem. We studied aggregated amyloid-β peptide (Aβ) and its interaction with an inhibitory peptide (NCAM1-PrP) using scattering-type scanning near-field optical microscopy. Although having similar secondary structure, labeled and unlabeled peptides could be distinguished by comparing optical phase images taken at wavenumbers characteristic for either the labeled or the unlabeled peptide. NCAM1-PrP seems to be able to associate with or to dissolve existing Aβ fibrils because pure Aβ fibrils were not detected after mixing.
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Affiliation(s)
- Suman Paul
- Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
- attocube systems AG, Haar, Germany
| | - Adéla Jeništová
- Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
| | - Faraz Vosough
- Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
| | - Elina Berntsson
- Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
- Department of Chemistry and Biotechnology, Tallinn University of Technology, Tallinn, Estonia
| | - Cecilia Mörman
- Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
- Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, Sweden
| | - Jüri Jarvet
- Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
- National Institute of Chemical Physics and Biophysics, Tallinn, Estonia
| | - Astrid Gräslund
- Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
| | | | - Andreas Barth
- Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden.
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25
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Jakob DS, Centrone A. Visible to Mid-IR Spectromicroscopy with Top-Down Illumination and Nanoscale (≈10 nm) Resolution. MICROSCOPY AND MICROANALYSIS : THE OFFICIAL JOURNAL OF MICROSCOPY SOCIETY OF AMERICA, MICROBEAM ANALYSIS SOCIETY, MICROSCOPICAL SOCIETY OF CANADA 2023; 29:777-778. [PMID: 37613556 DOI: 10.1093/micmic/ozad067.385] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 08/25/2023]
Affiliation(s)
- Devon S Jakob
- Nanoscale Device Characterization Division, Physical Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, MD, USA
| | - Andrea Centrone
- Nanoscale Device Characterization Division, Physical Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, MD, USA
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26
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Zhaliazka K, Matveyenka M, Kurouski D. Lipids uniquely alter the secondary structure and toxicity of amyloid beta 1-42 aggregates. FEBS J 2023; 290:3203-3220. [PMID: 36705524 PMCID: PMC10389563 DOI: 10.1111/febs.16738] [Citation(s) in RCA: 21] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2022] [Revised: 11/25/2022] [Accepted: 01/25/2023] [Indexed: 01/28/2023]
Abstract
Abrupt aggregation of amyloid β1-42 (Aβ) peptide is a hallmark of Alzheimer's disease (AD), a severe pathology that affects more than 44 million people worldwide. A growing body of evidence suggests that lipids can uniquely alter rates of Aβ1-42 aggregation. However, it remains unclear whether lipids only alter rates of protein aggregation or also uniquely modify the secondary structure and toxicity of Aβ1-42 oligomers and fibrils. In this study, we investigated the effect of phosphatidylcholine (PC), cardiolipin (CL), and cholesterol (Chol) on Aβ1-42 aggregation. We found that PC, CL and Chol strongly accelerated the rate of fibril formation compared to the rate of Aβ1-42 aggregation in the lipid-free environment. Furthermore, anionic CL enabled the strongest acceleration of Aβ1-42 aggregation compared to zwitterionic PC and uncharged Chol. We also found that PC, CL and Chol uniquely altered the secondary structure of early-, middle- and late-stage Aβ1-42 aggregates. Specifically, CL and Chol drastically increased the amount of parallel β-sheet in Aβ1-42 oligomers and fibrils grown in the presence of these lipids. This caused a significant increase in the toxicity of Aβ : CL and Aβ : Chol compared to the toxicity of Aβ : PC and Aβ1-42 aggregates formed in the lipid-free environment. These results demonstrate that toxicity of Aβ aggregates correlates with the amount of their β-sheet content, which, in turn, is determined by the chemical structure of lipids present at the stage of Aβ1-42 aggregation.
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Affiliation(s)
- Kiryl Zhaliazka
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas 77843, United States
| | - Mikhail Matveyenka
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas 77843, United States
| | - Dmitry Kurouski
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas 77843, United States
- Department of Biomedical Engineering, Texas A&M University, College Station, Texas, 77843, United States
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27
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Greaves GE, Kiryushko D, Auner HW, Porter AE, Phillips CC. Label-free nanoscale mapping of intracellular organelle chemistry. Commun Biol 2023; 6:583. [PMID: 37258606 PMCID: PMC10232547 DOI: 10.1038/s42003-023-04943-7] [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] [Received: 01/13/2023] [Accepted: 05/15/2023] [Indexed: 06/02/2023] Open
Abstract
The ability to image cell chemistry at the nanoscale is key for understanding cell biology, but many optical microscopies are restricted by the ~(200-250)nm diffraction limit. Electron microscopy and super-resolution fluorescence techniques beat this limit, but rely on staining and specialised labelling to generate image contrast. It is challenging, therefore, to obtain information about the functional chemistry of intracellular components. Here we demonstrate a technique for intracellular label-free chemical mapping with nanoscale (~30 nm) resolution. We use a probe-based optical microscope illuminated with a mid-infrared laser whose wavelengths excite vibrational modes of functional groups occurring within biological molecules. As a demonstration, we chemically map intracellular structures in human multiple myeloma cells and compare the morphologies with electron micrographs of the same cell line. We also demonstrate label-free mapping at wavelengths chosen to target the chemical signatures of proteins and nucleic acids, in a way that can be used to identify biochemical markers in the study of disease and pharmacology.
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Affiliation(s)
- George E Greaves
- Experimental Solid State Group, Department of Physics, Imperial College London, London, UK.
| | - Darya Kiryushko
- Experimental Solid State Group, Department of Physics, Imperial College London, London, UK
- Department of Materials and London Centre for Nanotechnology, Imperial College London, London, UK
| | - Holger W Auner
- Department of Immunology and Inflammation, The Hugh and Josseline Langmuir Centre for Myeloma Research, Imperial College London, London, UK
| | - Alexandra E Porter
- Department of Materials and London Centre for Nanotechnology, Imperial College London, London, UK
| | - Chris C Phillips
- Experimental Solid State Group, Department of Physics, Imperial College London, London, UK.
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28
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Aouali A, Chevalier S, Sommier A, Pradere C. Terahertz Constant Velocity Flying Spot for 3D Tomographic Imaging. J Imaging 2023; 9:112. [PMID: 37367460 DOI: 10.3390/jimaging9060112] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2022] [Revised: 05/27/2023] [Accepted: 05/28/2023] [Indexed: 06/28/2023] Open
Abstract
This work reports on a terahertz tomography technique using constant velocity flying spot scanning as illumination. This technique is essentially based on the combination of a hyperspectral thermoconverter and an infrared camera used as a sensor, a source of terahertz radiation held on a translation scanner, and a vial of hydroalcoholic gel used as a sample and mounted on a rotating stage for the measurement of its absorbance at several angular positions. From the projections made in 2.5 h and expressed in terms of sinograms, the 3D volume of the absorption coefficient of the vial is reconstructed by a back-projection method based on the inverse Radon transform. This result confirms that this technique is usable on samples of complex and nonaxisymmetric shapes; moreover, it allows 3D qualitative chemical information with a possible phase separation in the terahertz spectral range to be obtained in heterogeneous and complex semitransparent media.
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Affiliation(s)
- Abderezak Aouali
- I2M TREFLE, UMR 5295 CNRS-UB-ENSAM, 351 Cours de la Libération, 33400 Talence, France
| | - Stéphane Chevalier
- I2M TREFLE, UMR 5295 CNRS-UB-ENSAM, 351 Cours de la Libération, 33400 Talence, France
| | - Alain Sommier
- I2M TREFLE, UMR 5295 CNRS-UB-ENSAM, 351 Cours de la Libération, 33400 Talence, France
| | - Christophe Pradere
- EPSYL-Alcen, Esplanade des Arts et Métiers, CEDEX, 33405 Talence, France
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29
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Prine N, Cao Z, Zhang S, Li T, Do C, Hong K, Cardinal C, Thornell TL, Morgan SE, Gu X. Enabling quantitative analysis of complex polymer blends by infrared nanospectroscopy and isotopic deuteration. NANOSCALE 2023; 15:7365-7373. [PMID: 37038929 DOI: 10.1039/d3nr00886j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
Atomic-force microscopy coupled with infrared spectroscopy (AFM-IR) deciphers surface morphology of thin-film polymer blends and composites by simultaneously mapping physical topography and chemical composition. However, acquiring quantitative phase and composition information from multi-component blends can be challenging using AFM-IR due to the possible overlapping infrared absorption bands between different species. Isotope labeling one of the blend components introduces a new type of bond (carbon-deuterium vibration) that can be targeted using AFM-IR and responds at wavelengths sufficiently shifted toward unoccupied regions (around 2200 cm-1). In this project, AFM-IR was used to probe the surface morphology and chemical composition of three polymer blends containing deuterated polystyrene; each blend is expected to exhibit various degrees of miscibility. AFM-IR results successfully demonstrated that deuterium labeling prevents infrared spectral overlap and enables the visualization of blend phases that could not normally be distinguished by other scanning probe techniques. The nanoscale domain composition was resolved by fast infrared spectrum analysis. Overall, we presented isotope labeling as a robust approach for circumventing obstacles preventing the quantitative analysis of multiphase systems by AFM-IR.
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Affiliation(s)
- Nathaniel Prine
- School of Polymer Science and Engineering, The University of Southern Mississippi, Hattiesburg, Mississippi 39406, USA.
| | - Zhiqiang Cao
- Center for Nanophase Materials Sciences, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, USA
| | - Song Zhang
- School of Polymer Science and Engineering, The University of Southern Mississippi, Hattiesburg, Mississippi 39406, USA.
| | - Tianyu Li
- Center for Nanophase Materials Sciences, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, USA
- Department of Materials Science and Engineering, University of Tennessee, Knoxville, Tennessee 37996, USA
| | - Changwoo Do
- Neutron Scattering Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, USA
| | - Kunlun Hong
- Center for Nanophase Materials Sciences, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, USA
- Department of Chemical & Biomolecular Engineering, University of Tennessee, Knoxville, Tennessee 37996, USA
| | - Camille Cardinal
- School of Polymer Science and Engineering, The University of Southern Mississippi, Hattiesburg, Mississippi 39406, USA.
| | - Travis L Thornell
- U.S. Army Engineer Research and Development Center, Vicksburg, Mississippi 39180, USA
| | - Sarah E Morgan
- School of Polymer Science and Engineering, The University of Southern Mississippi, Hattiesburg, Mississippi 39406, USA.
| | - Xiaodan Gu
- School of Polymer Science and Engineering, The University of Southern Mississippi, Hattiesburg, Mississippi 39406, USA.
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30
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Dery S, Friedman B, Shema H, Gross E. Mechanistic Insights Gained by High Spatial Resolution Reactivity Mapping of Homogeneous and Heterogeneous (Electro)Catalysts. Chem Rev 2023; 123:6003-6038. [PMID: 37037476 PMCID: PMC10176474 DOI: 10.1021/acs.chemrev.2c00867] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
Abstract
The recent development of high spatial resolution microscopy and spectroscopy tools enabled reactivity analysis of homogeneous and heterogeneous (electro)catalysts at previously unattainable resolution and sensitivity. These techniques revealed that catalytic entities are more heterogeneous than expected and local variations in reaction mechanism due to divergences in the nature of active sites, such as their atomic properties, distribution, and accessibility, occur both in homogeneous and heterogeneous (electro)catalysts. In this review, we highlight recent insights in catalysis research that were attained by conducting high spatial resolution studies. The discussed case studies range from reactivity detection of single particles or single molecular catalysts, inter- and intraparticle communication analysis, and probing the influence of catalysts distribution and accessibility on the resulting reactivity. It is demonstrated that multiparticle and multisite reactivity analyses provide unique knowledge about reaction mechanism that could not have been attained by conducting ensemble-based, averaging, spectroscopy measurements. It is highlighted that the integration of spectroscopy and microscopy measurements under realistic reaction conditions will be essential to bridge the gap between model-system studies and real-world high spatial resolution reactivity analysis.
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Affiliation(s)
- Shahar Dery
- Institute of Chemistry and The Center for Nanoscience and Nanotechnology, The Hebrew University, Jerusalem 91904, Israel
| | - Barak Friedman
- Institute of Chemistry and The Center for Nanoscience and Nanotechnology, The Hebrew University, Jerusalem 91904, Israel
| | - Hadar Shema
- Institute of Chemistry and The Center for Nanoscience and Nanotechnology, The Hebrew University, Jerusalem 91904, Israel
| | - Elad Gross
- Institute of Chemistry and The Center for Nanoscience and Nanotechnology, The Hebrew University, Jerusalem 91904, Israel
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31
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Matveyenka M, Rizevsky S, Kurouski D. Elucidation of the Effect of Phospholipid Charge on the Rate of Insulin Aggregation and Structure and Toxicity of Amyloid Fibrils. ACS OMEGA 2023; 8:12379-12386. [PMID: 37033844 PMCID: PMC10077570 DOI: 10.1021/acsomega.3c00159] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/09/2023] [Accepted: 02/14/2023] [Indexed: 06/19/2023]
Abstract
The plasma membrane is a dynamic structure that separates the cell interior from the extracellular space. The fluidity and plasticity of the membrane determines a large number of physiologically important processes ranging from cell division to signal transduction. In turn, membrane fluidity is determined by phospholipids that possess different charges, lengths, and saturation states of fatty acids. A growing body of evidence suggests that phospholipids may play an important role in the aggregation of misfolded proteins, which causes pathological conditions that lead to severe neurodegenerative diseases. In this study, we investigate the role of the charge of the most abundant phospholipids in the plasma membrane: phosphatidylcholine and phosphatidylethanolamine, zwitterions: phosphatidylserine and phosphatidylglycerol, lipids that possess a negative charge, and cardiolipin that has double negative charge on its polar head. Our results show that both zwitterions strongly inhibit insulin aggregation, whereas negatively charged lipids accelerate fibril formation. We also found that in the equimolar presence of zwitterions insulin yields oligomers that exert significantly lower cell toxicity compared to fibrils that were grown in the lipid-free environment. Such aggregates were not formed in the presence of negatively charged lipids. Instead, long insulin fibrils that had strong cell toxicity were grown in the presence of such negatively charged lipids. However, our results showed no correlation between the charge of the lipid and secondary structure and toxicity of the aggregates formed in its presence. These findings show that the secondary structure and toxicity are determined by the chemical structure of the lipid rather than by the charge of the phospholipid polar head.
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Affiliation(s)
- Mikhail Matveyenka
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
| | - Stanislav Rizevsky
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
- Department
of Biotechnology, Binh Duong University, Thu Dau Mot 820000, Vietnam
| | - Dmitry Kurouski
- Department
of Biochemistry and Biophysics, Texas A&M
University, College
Station, Texas 77843, United States
- Department
of Biomedical Engineering, Texas A&M
University, College
Station, Texas 77843, United States
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32
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Wang M, Perez-Morelo DJ, Ramer G, Pavlidis G, Schwartz JJ, Yu L, Ilic R, Centrone A, Aksyuk VA. Beating thermal noise in a dynamic signal measurement by a nanofabricated cavity optomechanical sensor. SCIENCE ADVANCES 2023; 9:eadf7595. [PMID: 36921059 PMCID: PMC10017032 DOI: 10.1126/sciadv.adf7595] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/14/2022] [Accepted: 02/13/2023] [Indexed: 06/18/2023]
Abstract
Thermal fluctuations often impose both fundamental and practical measurement limits on high-performance sensors, motivating the development of techniques that bypass the limitations imposed by thermal noise outside cryogenic environments. Here, we theoretically propose and experimentally demonstrate a measurement method that reduces the effective transducer temperature and improves the measurement precision of a dynamic impulse response signal. Thermal noise-limited, integrated cavity optomechanical atomic force microscopy probes are used in a photothermal-induced resonance measurement to demonstrate an effective temperature reduction by a factor of ≈25, i.e., from room temperature down as low as ≈12 K, without cryogens. The method improves the experimental measurement precision and throughput by >2×, approaching the theoretical limit of ≈3.5× improvement for our experimental conditions. The general applicability of this method to dynamic measurements leveraging thermal noise-limited harmonic transducers will have a broad impact across a variety of measurement platforms and scientific fields.
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Affiliation(s)
- Mingkang Wang
- Microsystems and Nanotechnology Division, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
- Institute for Research in Electronics and Applied Physics, University of Maryland, College Park, MD 20742, USA
| | - Diego J. Perez-Morelo
- Microsystems and Nanotechnology Division, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
- Institute for Research in Electronics and Applied Physics, University of Maryland, College Park, MD 20742, USA
| | - Georg Ramer
- Institute for Research in Electronics and Applied Physics, University of Maryland, College Park, MD 20742, USA
- Nanoscale Devices Characterization Division, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
- Institute of Chemical Technologies and Analytics, TU Wien, Getreidemarkt 9, 1060 Vienna, Austria
| | - Georges Pavlidis
- Nanoscale Devices Characterization Division, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
| | - Jeffrey J. Schwartz
- Institute for Research in Electronics and Applied Physics, University of Maryland, College Park, MD 20742, USA
- Nanoscale Devices Characterization Division, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
| | - Liya Yu
- Center for Nanoscale Science and Technology, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
| | - Robert Ilic
- Center for Nanoscale Science and Technology, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
| | - Andrea Centrone
- Nanoscale Devices Characterization Division, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
| | - Vladimir A. Aksyuk
- Microsystems and Nanotechnology Division, National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
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33
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Benedis DV, Dazzi A, Rivallan M, Pirngruber GD. Surface Heterogeneity in Amorphous Silica Nanoparticles Evidenced from Tapping AFM-IR Nanospectroscopy. Anal Chem 2023; 95:1505-1512. [PMID: 36535897 DOI: 10.1021/acs.analchem.2c04533] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
In this work, we propose to evaluate and validate an emerging spectroscopic space-resolved technique: atomic force microscopy coupled with infrared spectroscopy (AFM-IR) for inorganic materials in tapping mode at the nanoscale. For this aim, a preliminary investigation of sample preparation techniques was done and the stability of tapping AFM-IR spectra was evaluated on reference samples [poly(methyl methacrylate) and silica]. It was concluded that for a homogeneous polymer, it is possible to compare AFM-IR spectra with conventional Fourier-transform infrared (FTIR) spectra obtained in transmission. When an inorganic solid is considered, AFM-IR spectra are different from the global FTIR spectrum which indicates that the AFM-IR technique probes a volume which is not representative of global composition, that is, the external surface layer. Moreover, local infrared spectra recorded in the tapping mode of the external surface are significantly different depending on the analyzed regions of the same particle and between particles of the amorphous silica, implying surface heterogeneity. The AFM-IR technique allows surface description of amorphous inorganic materials at the nanoscale and opens new frontiers in the characterization of functional nanoscale and crystalline materials.
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Affiliation(s)
- Denys V Benedis
- Institute of Chemical Physics, Paris-Saclay University, 91400Orsay, France.,IFP Energies Nouvelles, Rond-Point de l'échangeur de Solaize, BP 3, 69360Solaize, France
| | - Alexandre Dazzi
- Institute of Chemical Physics, Paris-Saclay University, 91400Orsay, France
| | - Mickaël Rivallan
- IFP Energies Nouvelles, Rond-Point de l'échangeur de Solaize, BP 3, 69360Solaize, France
| | - Gerhard D Pirngruber
- IFP Energies Nouvelles, Rond-Point de l'échangeur de Solaize, BP 3, 69360Solaize, France
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34
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Jakob DS, Centrone A. Visible to Mid-IR Spectromicroscopy with Top-Down Illumination and Nanoscale (≈10 nm) Resolution. Anal Chem 2022; 94:15564-15569. [PMID: 36321942 PMCID: PMC9798386 DOI: 10.1021/acs.analchem.2c03685] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Photothermal induced resonance (PTIR), an atomic force microscopy (AFM) analogue of IR spectroscopy also known as AFM-IR, is capable of nanoscale lateral resolution and finds broad applications in biology and materials science. Here, the spectral range of a top-illumination PTIR setup operating in contact-mode is expanded for the first time to the visible and near-IR spectral ranges. The result is a tool that yields absorption spectra and maps of electronic and vibrational features with spatial resolution down to ≈10 nm. In addition to the improved resolution, the setup enables light-polarization-dependent PTIR experiments in the visible and near-IR ranges for the first time. While previous PTIR implementations in the visible used total internal reflection illumination requiring challenging sample preparations on an optically transparent prism, the top illumination used here greatly simplifies sample preparation and will foster a broad application of this method.
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Affiliation(s)
- Devon S Jakob
- Nanoscale Device Characterization Division, Physical Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Drive, Gaithersburg, Maryland 20899, United States
| | - Andrea Centrone
- Nanoscale Device Characterization Division, Physical Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Drive, Gaithersburg, Maryland 20899, United States
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35
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Infrared nanospectroscopic imaging of DNA molecules on mica surface. Sci Rep 2022; 12:18972. [PMID: 36348038 PMCID: PMC9643503 DOI: 10.1038/s41598-022-23637-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Accepted: 11/02/2022] [Indexed: 11/09/2022] Open
Abstract
Significant efforts have been done in last two decades to develop nanoscale spectroscopy techniques owning to their great potential for single-molecule structural detection and in addition, to resolve open questions in heterogeneous biological systems, such as protein-DNA complexes. Applying IR-AFM technique has become a powerful leverage for obtaining simultaneous absorption spectra with a nanoscale spatial resolution for studied proteins, however the AFM-IR investigation of DNA molecules on surface, as a benchmark for a nucleoprotein complexes nanocharacterization, has remained elusive. Herein, we demonstrate methodological approach for acquisition of AFM-IR mapping modalities with corresponding absorption spectra based on two different DNA deposition protocols on spermidine and Ni2+ pretreated mica surface. The nanoscale IR absorbance of distinctly formed DNA morphologies on mica are demonstrated through series of AFM-IR absorption maps with corresponding IR spectrum. Our results thus demonstrate the sensitivity of AFM-IR nanospectroscopy for a nucleic acid research with an open potential to be employed in further investigation of nucleoprotein complexes.
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36
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Xue M, Ye S, Ma X, Ye F, Wang C, Zhu L, Yang Y, Chen J. Single-Vesicle Infrared Nanoscopy for Noninvasive Tumor Malignancy Diagnosis. J Am Chem Soc 2022; 144:20278-20287. [DOI: 10.1021/jacs.2c07393] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Mengfei Xue
- Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China
- Wenzhou Institute, University of Chinese Academy of Sciences, Wenzhou, Zhejiang 325001, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Siyuan Ye
- CAS Key Laboratory of Standardization and Measurement for Nanotechnology, CAS Key Laboratory of Biological Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology, Beijing 100190, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- Department of Chemistry, Tsinghua University, Beijing 100084, China
| | - Xiaopeng Ma
- The First Affiliated Hospital University of Science and Technology of China, Anhui Provincial Hospital, Hefei, Anhui 230000, China
| | - Fangfu Ye
- Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China
- Wenzhou Institute, University of Chinese Academy of Sciences, Wenzhou, Zhejiang 325001, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- Oujiang Laboratory, Wenzhou, Zhejiang 325000, China
| | - Chen Wang
- CAS Key Laboratory of Standardization and Measurement for Nanotechnology, CAS Key Laboratory of Biological Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology, Beijing 100190, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Ling Zhu
- CAS Key Laboratory of Standardization and Measurement for Nanotechnology, CAS Key Laboratory of Biological Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology, Beijing 100190, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yanlian Yang
- CAS Key Laboratory of Standardization and Measurement for Nanotechnology, CAS Key Laboratory of Biological Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology, Beijing 100190, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Jianing Chen
- Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- Songshan Lake Materials Laboratory, Dongguan, Guangdong 523808, China
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37
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Torres-Davila FE, Molinari M, Blair RG, Rochdi N, Tetard L. Enhancing Infrared Light-Matter Interaction for Deterministic and Tunable Nanomachining of Hexagonal Boron Nitride. NANO LETTERS 2022; 22:8196-8202. [PMID: 36122311 DOI: 10.1021/acs.nanolett.2c02841] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Tailoring two-dimensional (2D) materials functionalities is closely intertwined with defect engineering. Conventional methods do not offer the necessary control to locally introduce and study defects in 2D materials, especially in non-vacuum environments. Here, an infrared pulsed laser focused under the metallic tip of an atomic force microscope cantilever is used to create nanoscale defects in hexagonal boron nitride (h-BN) and to subsequently investigate the induced lattice distortions by means of nanoscale infrared (nano-IR) spectroscopy. The effects of incoming light power, exposure time, and environmental conditions on the defected regions are considered. Nano-IR spectra complement the morphology maps by revealing changes in lattice vibrations that distinguish the defects formed under various environments. This work introduces versatile experimental avenues to trigger and probe local reactions that functionalize 2D materials through defect creation with a higher level of precision for applications in sensing, catalysis, optoelectronics, quantum computing, and beyond.
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Affiliation(s)
- Fernand E Torres-Davila
- NanoScience Technology Center, University of Central Florida, Orlando, Florida 32826, United States
- Physics Department, University of Central Florida, Orlando, Florida 32816, United States
| | - Michael Molinari
- Institute of Chemistry and Biology of Membranes and Nano-objects (CBMN), CNRS UMR 5248, IPB, Université de Bordeaux, 33607 Pessac, France
| | - Richard G Blair
- Florida Space Institute, University of Central Florida, Orlando, Florida 32826, United States
- Renewable Energy and Chemical Transformations Cluster (REACT), University of Central Florida, Orlando, Florida 32816, United States
| | - Nabil Rochdi
- Laboratory of Innovative Materials, Energy and Sustainable Development (IMED-Lab), Cadi Ayyad University, Marrakesh 40000, Morocco
- Department of Physics, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakesh 40000, Morocco
| | - Laurene Tetard
- NanoScience Technology Center, University of Central Florida, Orlando, Florida 32826, United States
- Physics Department, University of Central Florida, Orlando, Florida 32816, United States
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38
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Probing both sides of the story. Proc Natl Acad Sci U S A 2022; 119:e2212419119. [PMID: 36070345 PMCID: PMC9499575 DOI: 10.1073/pnas.2212419119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/04/2022] Open
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39
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Dou T, Zens C, Schröder K, Jiang Y, Makarov AA, Kupfer S, Kurouski D. Solid-to-Liposome Conformational Transition of Phosphatidylcholine and Phosphatidylserine Probed by Atomic Force Microscopy, Infrared Spectroscopy, and Density Functional Theory Calculations. Anal Chem 2022; 94:13243-13249. [PMID: 36107722 PMCID: PMC10405298 DOI: 10.1021/acs.analchem.2c03061] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Liposomes are emerging therapeutic formulations for site-specific delivery of chemotherapeutic drugs. The efficiency and selectivity of drug delivery by these carriers largely rely on their surface properties, shape, and size. There is a growing demand for analytical approaches that can be used for structural and morphological characterization of liposomes at the single-vesicle level. AFM-IR is a modern optical nanoscopic technique that combines the advantages of scanning probe microscopy and infrared spectroscopy. Our findings show that AFM-IR can be used to probe conformational changes in phospholipids that take place upon their assembly into liposomes. Such conclusions can be made based on the corresponding changes in intensities of the lipid vibrational bands as the molecules transition from a solid state into large unilamellar vesicles (LUVs). This spectroscopic analysis of LUV formation together with density functional theory calculations also reveals the extent to which the molecular conformation and local environment of the functional groups alter the AFM-IR spectra of phospholipids. Using melittin as a test protein, we also examined the extent to which LUVs can be used for protein internalization. We found that melittin enters LUVs nearly instantaneously, which protects it from possible structural modifications that are caused by a changing environment. This foundational work empowers AFM-IR analysis of liposomes and opens new avenues for determination of the molecular mechanisms of liposome-drug interactions.
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Affiliation(s)
- Tianyi Dou
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas 77843, United States
| | - Clara Zens
- Institute of Physical Chemistry, Friedrich Schiller University Jena, Helmholtzweg 4, 07743 Jena, Germany
| | - Katrin Schröder
- Institute of Physical Chemistry, Friedrich Schiller University Jena, Helmholtzweg 4, 07743 Jena, Germany
| | - Yuan Jiang
- Merck & Company Inc., MRL, Analytical Research & Development, Boston, Massachusetts 02115, United States
| | - Alexey A. Makarov
- Merck & Company Inc., MRL, Analytical Research & Development, Boston, Massachusetts 02115, United States
| | - Stephan Kupfer
- Institute of Physical Chemistry, Friedrich Schiller University Jena, Helmholtzweg 4, 07743 Jena, Germany
| | - Dmitry Kurouski
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas 77843, United States
- Department of Biomedical Engineering, Texas A&M University, College Station, Texas 77843, United States
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40
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Schwartz JJ, Pavlidis G, Centrone A. Understanding Cantilever Transduction Efficiency and Spatial Resolution in Nanoscale Infrared Microscopy. Anal Chem 2022; 94:13126-13135. [PMID: 36099442 DOI: 10.1021/acs.analchem.2c02612] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
Photothermal induced resonance (PTIR), also known as AFM-IR, enables nanoscale infrared (IR) imaging and spectroscopy by using the tip of an atomic force microscope to transduce the local photothermal expansion and contraction of a sample. The signal transduction efficiency and spatial resolution of PTIR depend on a multitude of sample, cantilever, and illumination source parameters in ways that are not yet well understood. Here, we elucidate and separate the effects of laser pulse length, pulse shape, sample thermalization time (τ), interfacial thermal conductance, and cantilever detection frequency by devising analytical and numerical models that link a sample's photothermal excitations to the cantilever dynamics over a broad bandwidth (10 MHz). The models indicate that shorter laser pulses excite probe oscillations over broader bandwidths and should be preferred for measuring samples with shorter thermalization times. Furthermore, we show that the spatial resolution critically depends on the interfacial thermal conductance between dissimilar materials and improves monotonically, but not linearly, with increasing cantilever detection frequencies. The resolution can be enhanced for samples that do not fully thermalize between pulses (i.e., laser repetition rates ≳ 1/3τ) as the probed depth becomes smaller than the film thickness. We believe that the insights presented here will accelerate the adoption and impact of PTIR analyses across a wide range of applications by informing experimental designs and measurement strategies as well as by guiding future technical advances.
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Affiliation(s)
- Jeffrey J Schwartz
- Laboratory for Physical Sciences, College Park, Maryland 20740, United States.,Physical Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
| | - Georges Pavlidis
- Physical Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States.,Department of Mechanical Engineering, University of Connecticut, Storrs, Connecticut 06269, United States
| | - Andrea Centrone
- Physical Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
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41
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Bazin D, Bouderlique E, Tang E, Daudon M, Haymann JP, Frochot V, Letavernier E, Van de Perre E, Williams JC, Lingeman JE, Borondics F. Using mid infrared to perform investigations beyond the diffraction limits of microcristalline pathologies: advantages and limitation of Optical PhotoThermal IR spectroscopy. CR CHIM 2022. [DOI: 10.5802/crchim.196] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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42
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Bohlmann Kunz M, Podorova Y, Armstrong ZT, Zanni MT. Time-Domain Photothermal AFM Spectroscopy via Femtosecond Pulse Shaping. Anal Chem 2022; 94:12374-12382. [PMID: 36040762 DOI: 10.1021/acs.analchem.2c01920] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
A time-domain version of photothermal microscopy using an atomic force microscope (AFM) is reported, which we call Fourier transform photothermal (FTPT) spectroscopy, where the delay between two laser pulses is varied and the Fourier transform is computed. An acousto-optic modulator-based pulse shaper sets the delay and phases of the pulses shot-to-shot at 100 kHz, enabling background subtraction and data collection in the rotating frame. The pulse shaper is also used to flatten the pulse spectrum, thereby eliminating the need for normalization by the laser spectrum. We demonstrate the method on 6,13-bis(triisopropylsilylethynyl)pentacene (TIPS-Pn) microcrystals and Mn-phthalocyanine islands, confirming subdiffraction spatial resolution, and providing new spectroscopic insights likely linked to structural defects in the crystals.
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Affiliation(s)
- Miriam Bohlmann Kunz
- , Department of Chemistry, University of Wisconsin-Madison, 1101 University Ave., Madison, Wisconsin 53706, United States
| | - Yulia Podorova
- , Department of Chemistry, University of Wisconsin-Madison, 1101 University Ave., Madison, Wisconsin 53706, United States
| | - Zachary T Armstrong
- , Department of Chemistry, University of Wisconsin-Madison, 1101 University Ave., Madison, Wisconsin 53706, United States
| | - Martin T Zanni
- , Department of Chemistry, University of Wisconsin-Madison, 1101 University Ave., Madison, Wisconsin 53706, United States
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43
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Applications of Spectroscopic Techniques for Characterization of Polymer Nanocomposite: A Review. J Inorg Organomet Polym Mater 2022. [DOI: 10.1007/s10904-022-02461-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/15/2022]
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44
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Banerjee S, Holcombe B, Ringold S, Foes A, Naik T, Baghel D, Ghosh A. Nanoscale Infrared Spectroscopy Identifies Structural Heterogeneity in Individual Amyloid Fibrils and Prefibrillar Aggregates. J Phys Chem B 2022; 126:5832-5841. [PMID: 35914320 DOI: 10.1021/acs.jpcb.2c04797] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Amyloid plaques are one of the central manifestations of Alzheimer's disease pathology. Aggregation of the amyloid beta (Aβ) protein from amorphous oligomeric species to mature fibrils has been extensively studied. However, structural heterogeneities in prefibrillar species, and how that affects the structure of later-stage aggregates are not yet well understood. The integration of infrared spectroscopy with atomic force microscopy (AFM-IR) allows for identifying the signatures of individual nanoscale aggregates by spatially resolving spectra. We use AFM-IR to demonstrate that amyloid oligomers exhibit significant structural variations as evidenced in their infrared spectra. This heterogeneity is transmitted to and retained in protofibrils and fibrils. We show that amyloid fibrils do not always conform to their putative ordered structure and structurally different domains exist in the same fibril. We further demonstrate that these structural heterogeneities manifest themselves as a lack of β sheet structure in amyloid plaques in Alzheimer's tissue using infrared imaging.
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Affiliation(s)
- Siddhartha Banerjee
- Department of Chemistry and Biochemistry, The University of Alabama, 1007E Shelby Hall, Tuscaloosa, Alabama 35487, United States
| | - Brooke Holcombe
- Department of Chemistry and Biochemistry, The University of Alabama, 1007E Shelby Hall, Tuscaloosa, Alabama 35487, United States
| | - Sydney Ringold
- Department of Chemistry and Biochemistry, The University of Alabama, 1007E Shelby Hall, Tuscaloosa, Alabama 35487, United States
| | - Abigail Foes
- Department of Chemistry and Biochemistry, The University of Alabama, 1007E Shelby Hall, Tuscaloosa, Alabama 35487, United States
| | - Tanmayee Naik
- Department of Chemistry and Biochemistry, The University of Alabama, 1007E Shelby Hall, Tuscaloosa, Alabama 35487, United States
| | - Divya Baghel
- Department of Chemistry and Biochemistry, The University of Alabama, 1007E Shelby Hall, Tuscaloosa, Alabama 35487, United States
| | - Ayanjeet Ghosh
- Department of Chemistry and Biochemistry, The University of Alabama, 1007E Shelby Hall, Tuscaloosa, Alabama 35487, United States
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45
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Wang M, Ramer G, Perez-Morelo DJ, Pavlidis G, Schwartz JJ, Yu L, Ilic R, Aksyuk VA, Centrone A. High Throughput Nanoimaging of Thermal Conductivity and Interfacial Thermal Conductance. NANO LETTERS 2022; 22:4325-4332. [PMID: 35579622 DOI: 10.1021/acs.nanolett.2c00337] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Thermal properties of materials are often determined by measuring thermalization processes; however, such measurements at the nanoscale are challenging because they require high sensitivity concurrently with high temporal and spatial resolutions. Here, we develop an optomechanical cantilever probe and customize an atomic force microscope with low detection noise ≈1 fm/Hz1/2 over a wide (>100 MHz) bandwidth that measures thermalization dynamics with ≈10 ns temporal resolution, ≈35 nm spatial resolution, and high sensitivity. This setup enables fast nanoimaging of thermal conductivity (η) and interfacial thermal conductance (G) with measurement throughputs ≈6000× faster than conventional macroscale-resolution time-domain thermoreflectance acquiring the full sample thermalization. As a proof-of-principle demonstration, 100 × 100 pixel maps of η and G of a polymer particle are obtained in 200 s with a small relative uncertainty (<10%). This work paves the way to study fast thermal dynamics in materials and devices at the nanoscale.
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Affiliation(s)
- Mingkang Wang
- Microsystems and Nanotechnology Division, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
- Institute for Research in Electronics and Applied Physics, University of Maryland, College Park, Maryland 20742, United States
| | - Georg Ramer
- Institute for Research in Electronics and Applied Physics, University of Maryland, College Park, Maryland 20742, United States
- Nanoscale Devices Characterization Division, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
- Institute of Chemical Technologies and Analytics, TU Wien, Getreidemarkt 9, 1060 Vienna, Austria
| | - Diego J Perez-Morelo
- Microsystems and Nanotechnology Division, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
- Institute for Research in Electronics and Applied Physics, University of Maryland, College Park, Maryland 20742, United States
| | - Georges Pavlidis
- Nanoscale Devices Characterization Division, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
- Department of Mechanical Engineering, University of Connecticut, Storrs, Connecticut 06269, United States
| | - Jeffrey J Schwartz
- Institute for Research in Electronics and Applied Physics, University of Maryland, College Park, Maryland 20742, United States
- Nanoscale Devices Characterization Division, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
| | - Liya Yu
- Microsystems and Nanotechnology Division, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
| | - Robert Ilic
- Microsystems and Nanotechnology Division, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
| | - Vladimir A Aksyuk
- Microsystems and Nanotechnology Division, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
| | - Andrea Centrone
- Nanoscale Devices Characterization Division, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
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46
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Schwartz JJ, Jakob DS, Centrone A. A guide to nanoscale IR spectroscopy: resonance enhanced transduction in contact and tapping mode AFM-IR. Chem Soc Rev 2022; 51:5248-5267. [PMID: 35616225 DOI: 10.1039/d2cs00095d] [Citation(s) in RCA: 27] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Infrared (IR) spectroscopy is a broadly applicable, composition sensitive analytical technique. By leveraging the high spatial resolution of atomic force microscopy (AFM), the photothermal effect, and wavelength-tunable lasers, AFM-IR enables IR spectroscopy and imaging with nanoscale (< 10 nm) resolution. The transduction of a sample's photothermal expansion by an AFM probe tip ensures the proportionality between the AFM-IR signal and the sample absorption coefficient, producing images and spectra that are comparable to far-field IR databases and easily interpreted. This convergence of characteristics has spurred robust research efforts to extend AFM-IR capabilities and, in parallel, has enabled AFM-IR to impact numerous fields. In this tutorial review, we present the latest technical breakthroughs in AFM-IR spectroscopy and imaging and discuss its working principles, distinctive characteristics, and best practices for different AFM-IR measurement paradigms. Central to this review, appealing to both expert practitioners and novices alike, is the meticulous understanding of AFM-IR signal transduction, which is essential to take full advantage of AFM-IR capabilities. Here, we critically compile key information and discuss instructive experiments detailing AFM-IR signal transduction and provide guidelines linking experimental parameters to the measurement sensitivity, lateral resolution, and probed depth. Additionally, we provide in-depth tutorials on the most employed AFM-IR variants (resonance-enhanced and tapping mode AFM-IR), discussing technical details and representative applications. Finally, we briefly review recently developed AFM-IR modalities (peak force tapping IR and surface sensitivity mode) and provide insights on the next exciting opportunities and prospects for this fast-growing and evolving field.
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Affiliation(s)
- Jeffrey J Schwartz
- Laboratory for Physical Sciences, College Park, MD 20740, USA.,Nanoscale Device Characterization Division, Physical Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Drive, Gaithersburg, MD, 20899, USA.
| | - Devon S Jakob
- Nanoscale Device Characterization Division, Physical Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Drive, Gaithersburg, MD, 20899, USA. .,Institute for Soft Matter Synthesis and Metrology, Georgetown University, 3700 O St., NW Washington D.C., 20057, USA
| | - Andrea Centrone
- Nanoscale Device Characterization Division, Physical Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Drive, Gaithersburg, MD, 20899, USA.
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47
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Nakagawa K, Shimura Y, Fukazawa Y, Nishizaki R, Matano S, Oya S, Maki H. Microemitter-Based IR Spectroscopy and Imaging with Multilayer Graphene Thermal Emission. NANO LETTERS 2022; 22:3236-3244. [PMID: 35435683 DOI: 10.1021/acs.nanolett.1c04857] [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: 06/14/2023]
Abstract
IR analyses such as Fourier transform infrared spectroscopy (FTIR) are widely used in many fields; however, the performance of FTIR is limited by the slow speed (∼10 Hz), large footprint (∼ millimeter), and glass bulb structure of IR light sources. Herein, we present IR spectroscopy and imaging based on multilayer-graphene microemitters, which have distinct features: a planar structure, bright intensity, a small footprint (sub-μm2), and high modulation speed of >50 kHz. We developed an IR analysis system based on the multilayer-graphene microemitter and performed IR absorption spectroscopy. We show two-dimensional IR chemical imaging that visualizes the distribution of the chemical information. In addition, we present high-spatial-resolution IR imaging with a spatial resolution of ∼1 μm, far higher than the diffraction limit. The graphene-based IR spectroscopy and imaging can open new routes for IR applications in chemistry, material science, medicine, biology, electronics, and physics.
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Affiliation(s)
- Kenta Nakagawa
- Department of Applied Physics and Physico-Informatics, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama, Kanagawa 223-8522, Japan
- Kanagawa Institute of Industrial Science and Technology (KISTEC), 705-1 Shimoimaizumi, Ebina, Kanagawa 243-0435, Japan
| | - Yui Shimura
- Department of Applied Physics and Physico-Informatics, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama, Kanagawa 223-8522, Japan
| | - Yusuke Fukazawa
- Department of Applied Physics and Physico-Informatics, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama, Kanagawa 223-8522, Japan
| | - Ryosuke Nishizaki
- Department of Applied Physics and Physico-Informatics, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama, Kanagawa 223-8522, Japan
| | - Shinichiro Matano
- Department of Applied Physics and Physico-Informatics, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama, Kanagawa 223-8522, Japan
| | - Shuma Oya
- Department of Applied Physics and Physico-Informatics, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama, Kanagawa 223-8522, Japan
| | - Hideyuki Maki
- Department of Applied Physics and Physico-Informatics, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama, Kanagawa 223-8522, Japan
- Center for Spintronics Research Network, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama, Kanagawa 223-8522, Japan
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48
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Ami D, Mereghetti P, Natalello A. Contribution of Infrared Spectroscopy to the Understanding of Amyloid Protein Aggregation in Complex Systems. Front Mol Biosci 2022; 9:822852. [PMID: 35463965 PMCID: PMC9023755 DOI: 10.3389/fmolb.2022.822852] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2021] [Accepted: 03/14/2022] [Indexed: 11/13/2022] Open
Abstract
Infrared (IR) spectroscopy is a label-free and non-invasive technique that probes the vibrational modes of molecules, thus providing a structure-specific spectrum. The development of infrared spectroscopic approaches that enable the collection of the IR spectrum from a selected sample area, from micro- to nano-scale lateral resolutions, allowed to extend their application to more complex biological systems, such as intact cells and tissues, thus exerting an enormous attraction in biology and medicine. Here, we will present recent works that illustrate in particular the applications of IR spectroscopy to the in situ characterization of the conformational properties of protein aggregates and to the investigation of the other biomolecules surrounding the amyloids. Moreover, we will discuss the potential of IR spectroscopy to the monitoring of cell perturbations induced by protein aggregates. The essential support of multivariate analyses to objectively pull out the significant and non-redundant information from the spectra of highly complex systems will be also outlined.
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Affiliation(s)
- Diletta Ami
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Milano, Italy
- *Correspondence: Diletta Ami, ; Antonino Natalello,
| | | | - Antonino Natalello
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Milano, Italy
- *Correspondence: Diletta Ami, ; Antonino Natalello,
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49
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Experimental characterization techniques for plasmon-assisted chemistry. Nat Rev Chem 2022; 6:259-274. [PMID: 37117871 DOI: 10.1038/s41570-022-00368-8] [Citation(s) in RCA: 25] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 02/04/2022] [Indexed: 12/19/2022]
Abstract
Plasmon-assisted chemistry is the result of a complex interplay between electromagnetic near fields, heat and charge transfer on the nanoscale. The disentanglement of their roles is non-trivial. Therefore, a thorough knowledge of the chemical, structural and spectral properties of the plasmonic/molecular system being used is required. Specific techniques are needed to fully characterize optical near fields, temperature and hot carriers with spatial, energetic and/or temporal resolution. The timescales for all relevant physical and chemical processes can range from a few femtoseconds to milliseconds, which necessitates the use of time-resolved techniques for monitoring the underlying dynamics. In this Review, we focus on experimental techniques to tackle these challenges. We further outline the difficulties when going from the ensemble level to single-particle measurements. Finally, a thorough understanding of plasmon-assisted chemistry also requires a substantial joint experimental and theoretical effort.
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50
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Chen X, Yao Z, Sun Z, Stanciu SG, Basov DN, Hillenbrand R, Liu M. Rapid simulations of hyperspectral near-field images of three-dimensional heterogeneous surfaces - part II. OPTICS EXPRESS 2022; 30:11228-11242. [PMID: 35473071 DOI: 10.1364/oe.452949] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/05/2022] [Accepted: 02/11/2022] [Indexed: 06/14/2023]
Abstract
The modeling of the near-field interaction in the scattering-type scanning near-field optical microscope (s-SNOM) is rapidly advancing, although an accurate yet versatile modeling framework that can be easily adapted to various complex situations is still lacking. In this work, we propose a time-efficient numerical scheme in the quasi-electrostatic limit to capture the tip-sample interaction in the near field. This method considers an extended tip geometry, which is a significant advantage compared to the previously reported method based on the point-dipole approximation. Using this formalism, we investigate, among others, nontrivial questions such as uniaxial and biaxial anisotropy in the near-field interaction, the relationship between various experimental parameters (e.g. tip radius, tapping amplitude, etc.), and the tip-dependent spatial resolution. The demonstrated method further sheds light on the understanding of the contrast mechanism in s-SNOM imaging and spectroscopy, while also representing a valuable platform for future quantitative analysis of the experimental observations.
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