1
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Acosta-Ramirez I, Conover C, Larsen J, Plange PNA, Kilic U, Muller B, Iverson NM. Development of sterile platform for quantification of extracellular analytes via single walled carbon nanotubes. Anal Biochem 2024; 693:115582. [PMID: 38825160 PMCID: PMC11251094 DOI: 10.1016/j.ab.2024.115582] [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: 03/05/2024] [Revised: 05/23/2024] [Accepted: 05/30/2024] [Indexed: 06/04/2024]
Abstract
Progress has been made studying cell-cell signaling communication processes. However, due to limitations of current sensors on time and spatial resolution, the role of many extracellular analytes is still unknown. A single walled carbon nanotube (SWNT) platform was previously developed based on the avidin-biotin immobilization of SWNT to a glass substrate. The SWNT platform provides real time feedback about analyte concentration and has a high concentration of evenly distributed sensors, both of which are essential for the study of extracellular analytes. Unfortunately, this initial SWNT platform is synthesized through unsterile conditions and cannot be sterilized post-production due to the delicate nature of the sensors, making it unsuitable for in vitro work. Herein the multiple-step process for SWNT immobilization is modified and the platform's biocompatibility is assessed in terms of sterility, cytotoxicity, cell proliferation, and cell morphology through comparison with non-sensors controls. The results demonstrate the SWNT platform's sterility and lack of toxicity over 72 h. The proliferation rate and morphology profiles for cells growing on the SWNT platform are similar to those grown on tissue culture substrates. This novel nano-sensor platform preserves cell health and cell functionality over time, offering opportunities to study extracellular analytes gradients in cellular communication.
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Affiliation(s)
- Ivon Acosta-Ramirez
- Department of Biological Systems Engineering, College of Agricultural Sciences and Natural Resources, University of Nebraska-Lincoln, 4240 Fair St, Lincoln NE, 68504, United States.
| | - Carley Conover
- Department of Biological Systems Engineering, College of Agricultural Sciences and Natural Resources, University of Nebraska-Lincoln, 4240 Fair St, Lincoln NE, 68504, United States.
| | - Jacob Larsen
- Department of Chemistry, College of Arts and Sciences, University of Nebraska-Lincoln, 639 N 12th Street, Lincoln NE, 68508, United States.
| | - Portia N A Plange
- Department of Biological Systems Engineering, College of Agricultural Sciences and Natural Resources, University of Nebraska-Lincoln, 4240 Fair St, Lincoln NE, 68504, United States.
| | - Ufuk Kilic
- Department of Electrical and Computer Engineering, University of Nebraska-Lincoln, 900 N 16th St, Lincoln NE, 68508, United States.
| | - Becca Muller
- Department of Biological Systems Engineering, College of Agricultural Sciences and Natural Resources, University of Nebraska-Lincoln, 4240 Fair St, Lincoln NE, 68504, United States
| | - Nicole M Iverson
- Department of Biological Systems Engineering, College of Agricultural Sciences and Natural Resources, University of Nebraska-Lincoln, 4240 Fair St, Lincoln NE, 68504, United States.
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2
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Ryan A, Rahman S, Williams RM. Optical Aptamer-Based Cytokine Nanosensor Detects Macrophage Activation by Bacterial Toxins. ACS Sens 2024; 9:3697-3706. [PMID: 38934367 PMCID: PMC11287749 DOI: 10.1021/acssensors.4c00887] [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: 04/16/2024] [Revised: 06/10/2024] [Accepted: 06/20/2024] [Indexed: 06/28/2024]
Abstract
Overactive or dysregulated cytokine expression is a hallmark of many acute and chronic inflammatory diseases. This is true for acute or chronic infections, neurodegenerative diseases, autoimmune diseases, cardiovascular diseases, cancer, and others. Cytokines such as interleukin-6 (IL-6) are known therapeutic targets and biomarkers for such inflammatory diseases. Platforms for cytokine detection are, therefore, desirable tools for both research and clinical applications. Single-walled carbon nanotubes (SWCNT) are versatile nanomaterials with near-infrared fluorescence that can serve as transducers for optical sensors. When functionalized with an analyte-specific recognition element, SWCNT emission may become sensitive and selective toward the desired target. SWCNT-aptamer sensors are easily assembled, inexpensive, and biocompatible. In this work, we introduced a nanosensor design based on SWCNT and a DNA aptamer specific to IL-6. We first evaluated several SWCNT-aptamer constructs based on this simple direct complexation method, wherein the aptamer both solubilizes the SWCNT and confers sensitivity to IL-6. The sensor limit of detection, 105 ng/mL, lies in the relevant range for pathological IL-6 levels. Upon investigation of sensor kinetics, we found rapid response within seconds of antigen addition which continued over the course of 3 h. We found that this sensor construct is stable and the aptamer is not displaced from the nanotube surface during IL-6 detection. Finally, we investigated the ability of this sensor construct to detect macrophage activation caused by bacterial lipopolysaccharides (LPS) in an in vitro model of disease, finding rapid and sensitive detection of macrophage-expressed IL-6. We are confident that further development of this sensor will have novel implications for diagnosis of acute and chronic inflammatory diseases, in addition to contributing to the understanding of the role of cytokines in these diseases.
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Affiliation(s)
- Amelia
K. Ryan
- Department
of Biomedical Engineering, The City College
of New York, New York, New York 10031, United States
| | - Syeda Rahman
- Department
of Biomedical Engineering, The City College
of New York, New York, New York 10031, United States
| | - Ryan M. Williams
- Department
of Biomedical Engineering, The City College
of New York, New York, New York 10031, United States
- PhD
Program in Chemistry, Graduate Center, City
University of New York, New York, New York 10016, United States
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3
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Basu S, Hendler-Neumark A, Bisker G. Monitoring Enzyme Activity Using Near-Infrared Fluorescent Single-Walled Carbon Nanotubes. ACS Sens 2024; 9:2237-2253. [PMID: 38669585 PMCID: PMC11129355 DOI: 10.1021/acssensors.4c00377] [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: 02/18/2024] [Revised: 04/03/2024] [Accepted: 04/16/2024] [Indexed: 04/28/2024]
Abstract
Enzymes serve as pivotal biological catalysts that accelerate essential chemical reactions, thereby influencing a variety of physiological processes. Consequently, the monitoring of enzyme activity and inhibition not only yields crucial insights into health and disease conditions but also forms the basis of research in drug discovery, toxicology, and the understanding of disease mechanisms. In this context, near-infrared (NIR) fluorescent single-walled carbon nanotubes (SWCNTs) have emerged as effective tools for tracking enzyme activity and inhibition through diverse strategies. This perspective explores the physicochemical attributes of SWCNTs that render them well-suited for such monitoring. Additionally, we delve into the various strategies developed so far for successfully monitoring enzyme activity and inhibition, emphasizing the distinctive features of each principle. Furthermore, we contrast the benefits of SWCNT-based NIR probes with conventional gold standards in monitoring enzyme activity. Lastly, we highlight the current challenges faced in this field and suggest potential solutions to propel it forward. This perspective aims to contribute to the ongoing progress in biodiagnostics and seeks to engage the wider community in developing and applying enzymatic assays using SWCNTs.
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Affiliation(s)
- Srestha Basu
- Department
of Biomedical Engineering, Faculty of Engineering, Tel Aviv University, Tel Aviv 6997801, Israel
| | - Adi Hendler-Neumark
- Department
of Biomedical Engineering, Faculty of Engineering, Tel Aviv University, Tel Aviv 6997801, Israel
| | - Gili Bisker
- Department
of Biomedical Engineering, Faculty of Engineering, Tel Aviv University, Tel Aviv 6997801, Israel
- Center
for Physics and Chemistry of Living Systems, Tel Aviv University, Tel Aviv 6997801, Israel
- Center
for Nanoscience and Nanotechnology, Tel
Aviv University, Tel Aviv 6997801, Israel
- Center
for Light-Matter Interaction, Tel Aviv University, Tel Aviv 6997801, Israel
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4
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Ryan AK, Rahman S, Williams RM. An optical aptamer-based cytokine nanosensor detects macrophage activation by bacterial toxins. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.04.05.588290. [PMID: 38617274 PMCID: PMC11014583 DOI: 10.1101/2024.04.05.588290] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/16/2024]
Abstract
Overactive or dysregulated cytokine expression is hallmark of many acute and chronic inflammatory diseases. This is true for acute or chronic infection, neurodegenerative diseases, autoimmune diseases, cardiovascular disease, cancer, and others. Cytokines such as interleukin-6 (IL-6) are known therapeutic targets and biomarkers for such inflammatory diseases. Platforms for cytokine detection are therefore desirable tools for both research and clinical applications. Single-walled carbon nanotubes (SWCNT) are versatile nanomaterials with near-infrared fluorescence that can serve as transducers for optical sensors. When functionalized with an analyte-specific recognition element, SWCNT emission may become sensitive and selective towards the desired target. SWCNT-aptamer sensors are easily assembled, inexpensive, and biocompatible. In this work, we introduced a nanosensor design based on SWCNT and a DNA aptamer specific to IL-6. We first evaluated several SWCNT-aptamer constructs based on this simple direct complexation method, wherein the aptamer both solubilizes the SWCNT and confers sensitivity to IL-6. The sensor limit of detection, 105 ng/mL, lies in the relevant range for pathological IL-6 levels. Upon investigation of sensor kinetics, we found rapid response within seconds of antigen addition which continued over the course of three hours. We found that this sensor construct is stable, and the aptamer is not displaced from the nanotube surface during IL-6 detection. Finally, we investigated the ability of this sensor construct to detect macrophage activation caused by bacterial lipopolysaccharides (LPS) in an in vitro model of disease, finding rapid and sensitive detection of macrophage-expressed IL-6. We are confident further development of this sensor will have novel implications for diagnosis of acute and chronic inflammatory diseases, in addition to contributing to the understanding of the role of cytokines in these diseases.
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Affiliation(s)
- Amelia K. Ryan
- The City College of New York, Department of Biomedical Engineering, New York, NY 10031
| | - Syeda Rahman
- The City College of New York, Department of Biomedical Engineering, New York, NY 10031
| | - Ryan M. Williams
- The City College of New York, Department of Biomedical Engineering, New York, NY 10031
- PhD Program in Chemistry, Graduate Center, City University of New York, New York, NY 10016
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5
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Krasley A, Li E, Galeana JM, Bulumulla C, Beyene AG, Demirer GS. Carbon Nanomaterial Fluorescent Probes and Their Biological Applications. Chem Rev 2024; 124:3085-3185. [PMID: 38478064 PMCID: PMC10979413 DOI: 10.1021/acs.chemrev.3c00581] [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: 08/16/2023] [Revised: 02/01/2024] [Accepted: 02/09/2024] [Indexed: 03/28/2024]
Abstract
Fluorescent carbon nanomaterials have broadly useful chemical and photophysical attributes that are conducive to applications in biology. In this review, we focus on materials whose photophysics allow for the use of these materials in biomedical and environmental applications, with emphasis on imaging, biosensing, and cargo delivery. The review focuses primarily on graphitic carbon nanomaterials including graphene and its derivatives, carbon nanotubes, as well as carbon dots and carbon nanohoops. Recent advances in and future prospects of these fields are discussed at depth, and where appropriate, references to reviews pertaining to older literature are provided.
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Affiliation(s)
- Andrew
T. Krasley
- Janelia
Research Campus, Howard Hughes Medical Institute, 19700 Helix Drive, Ashburn, Virginia 20147, United States
| | - Eugene Li
- Division
of Chemistry and Chemical Engineering, California
Institute of Technology, 1200 E. California Boulevard, Pasadena, California 91125, United States
| | - Jesus M. Galeana
- Division
of Chemistry and Chemical Engineering, California
Institute of Technology, 1200 E. California Boulevard, Pasadena, California 91125, United States
| | - Chandima Bulumulla
- Janelia
Research Campus, Howard Hughes Medical Institute, 19700 Helix Drive, Ashburn, Virginia 20147, United States
| | - Abraham G. Beyene
- Janelia
Research Campus, Howard Hughes Medical Institute, 19700 Helix Drive, Ashburn, Virginia 20147, United States
| | - Gozde S. Demirer
- Division
of Chemistry and Chemical Engineering, California
Institute of Technology, 1200 E. California Boulevard, Pasadena, California 91125, United States
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6
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Metternich JT, Hill B, Wartmann JAC, Ma C, Kruskop RM, Neutsch K, Herbertz S, Kruss S. Signal Amplification and Near-Infrared Translation of Enzymatic Reactions by Nanosensors. Angew Chem Int Ed Engl 2024; 63:e202316965. [PMID: 38100133 DOI: 10.1002/anie.202316965] [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: 11/08/2023] [Indexed: 01/18/2024]
Abstract
Enzymatic reactions are used to detect analytes in a range of biochemical methods. To measure the presence of an analyte, the enzyme is conjugated to a recognition unit and converts a substrate into a (colored) product that is detectable by visible (VIS) light. Thus, the lowest enzymatic turnover that can be detected sets a limit on sensitivity. Here, we report that substrates and products of horseradish peroxidase (HRP) and β-galactosidase change the near-infrared (NIR) fluorescence of (bio)polymer modified single-walled carbon nanotubes (SWCNTs). They translate a VIS signal into a beneficial NIR signal. Moreover, the affinity of the nanosensors leads to a higher effective local concentration of the reactants. This causes a non-linear sensor-based signal amplification and translation (SENSAT). We find signal enhancement up to ≈120x for the HRP substrate p-phenylenediamine (PPD), which means that reactions below the limit of detection in the VIS can be followed in the NIR (≈1000 nm). The approach is also applicable to other substrates such as 3,3'-5,5'-tetramethylbenzidine (TMB). An adsorption-based theoretical model fits the observed signals and corroborates the sensor-based enhancement mechanism. This approach can be used to amplify signals, translate them into the NIR and increase sensitivity of biochemical assays.
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Affiliation(s)
- Justus T Metternich
- Department of Chemistry, Ruhr-University Bochum, Universitätsstrasse 150, 44801, Bochum, Germany
- Biomedical Nanosensors, Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
| | - Björn Hill
- Department of Chemistry, Ruhr-University Bochum, Universitätsstrasse 150, 44801, Bochum, Germany
| | - Janus A C Wartmann
- Department of Chemistry, Ruhr-University Bochum, Universitätsstrasse 150, 44801, Bochum, Germany
| | - Chen Ma
- Department of Chemistry, Ruhr-University Bochum, Universitätsstrasse 150, 44801, Bochum, Germany
| | - Rebecca M Kruskop
- Biomedical Nanosensors, Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
| | - Krisztian Neutsch
- Department of Chemistry, Ruhr-University Bochum, Universitätsstrasse 150, 44801, Bochum, Germany
| | - Svenja Herbertz
- Biomedical Nanosensors, Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
| | - Sebastian Kruss
- Department of Chemistry, Ruhr-University Bochum, Universitätsstrasse 150, 44801, Bochum, Germany
- Biomedical Nanosensors, Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
- Center for Nanointegration Duisburg-Essen (CENIDE), Carl-Benz-Strasse 199, 47057, Duisburg, Germany
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7
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Metternich JT, Wartmann JAC, Sistemich L, Nißler R, Herbertz S, Kruss S. Near-Infrared Fluorescent Biosensors Based on Covalent DNA Anchors. J Am Chem Soc 2023. [PMID: 37367958 DOI: 10.1021/jacs.3c03336] [Citation(s) in RCA: 11] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/28/2023]
Abstract
Semiconducting single-walled carbon nanotubes (SWCNTs) are versatile near-infrared (NIR) fluorophores. They are noncovalently modified to create sensors that change their fluorescence when interacting with biomolecules. However, noncovalent chemistry has several limitations and prevents a consistent way to molecular recognition and reliable signal transduction. Here, we introduce a widely applicable covalent approach to create molecular sensors without impairing the fluorescence in the NIR (>1000 nm). For this purpose, we attach single-stranded DNA (ssDNA) via guanine quantum defects as anchors to the SWCNT surface. A connected sequence without guanines acts as flexible capture probe allowing hybridization with complementary nucleic acids. Hybridization modulates the SWCNT fluorescence and the magnitude increases with the length of the capture sequence (20 > 10 ≫ 6 bases). The incorporation of additional recognition units via this sequence enables a generic route to NIR fluorescent biosensors with improved stability. To demonstrate the potential, we design sensors for bacterial siderophores and the SARS CoV-2 spike protein. In summary, we introduce covalent guanine quantum defect chemistry as rational design concept for biosensors.
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Affiliation(s)
- Justus T Metternich
- Department of Chemistry, Ruhr-University Bochum, 44801 Bochum, Germany
- Biomedical Nanosensors, Fraunhofer Institute for Microelectronic Circuits and Systems, 47057 Duisburg, Germany
| | | | - Linda Sistemich
- Department of Chemistry, Ruhr-University Bochum, 44801 Bochum, Germany
| | - Robert Nißler
- Nanoparticle Systems Engineering Laboratory, ETH Zürich, 8092 Zürich, Switzerland
- Laboratory for Particles-Biology Interactions, Empa, 9014 St. Gallen, Switzerland
| | - Svenja Herbertz
- Biomedical Nanosensors, Fraunhofer Institute for Microelectronic Circuits and Systems, 47057 Duisburg, Germany
| | - Sebastian Kruss
- Department of Chemistry, Ruhr-University Bochum, 44801 Bochum, Germany
- Biomedical Nanosensors, Fraunhofer Institute for Microelectronic Circuits and Systems, 47057 Duisburg, Germany
- Center for Nanointegration Duisburg-Essen (CENIDE), 47057 Duisburg, Germany
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8
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Ackermann J, Stegemann J, Smola T, Reger E, Jung S, Schmitz A, Herbertz S, Erpenbeck L, Seidl K, Kruss S. High Sensitivity Near-Infrared Imaging of Fluorescent Nanosensors. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2023; 19:e2206856. [PMID: 36610045 DOI: 10.1002/smll.202206856] [Citation(s) in RCA: 11] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2022] [Revised: 11/27/2022] [Indexed: 06/17/2023]
Abstract
Biochemical processes are fast and occur on small-length scales, which makes them difficult to measure. Optical nanosensors based on single-wall carbon nanotubes (SWCNTs) are able to capture such dynamics. They fluoresce in the near-infrared (NIR, 850-1700 nm) tissue transparency window and the emission wavelength depends on their chirality. However, NIR imaging requires specialized indium gallium arsenide (InGaAs) cameras with a typically low resolution because the quantum yield of normal Si-based cameras rapidly decreases in the NIR. Here, an efficient one-step phase separation approach to isolate monochiral (6,4)-SWCNTs (880 nm emission) from mixed SWCNT samples is developed. It enables imaging them in the NIR with high-resolution standard Si-based cameras (>50× more pixels). (6,4)-SWCNTs modified with (GT)10 -ssDNA become highly sensitive to the important neurotransmitter dopamine. These sensors are 1.7× brighter and 7.5× more sensitive and allow fast imaging (<50 ms). They enable high-resolution imaging of dopamine release from cells. Thus, the assembly of biosensors from (6,4)-SWCNTs combines the advantages of nanosensors working in the NIR with the sensitivity of (Si-based) cameras and enables broad usage of these nanomaterials.
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Affiliation(s)
- Julia Ackermann
- Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
- Department EBS, University Duisburg-Essen, Bismarkstrasse 81, 47057, Duisburg, Germany
| | - Jan Stegemann
- Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
- Department of Chemistry, Ruhr-University Bochum, Universitätsstrasse 150, 44801, Bochum, Germany
| | - Tim Smola
- Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
- Department EBS, University Duisburg-Essen, Bismarkstrasse 81, 47057, Duisburg, Germany
| | - Eline Reger
- Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
- Department EBS, University Duisburg-Essen, Bismarkstrasse 81, 47057, Duisburg, Germany
| | - Sebastian Jung
- ZEMOS Center for Solvation Science, Ruhr-University Bochum, Universitätsstrasse 150, 44801, Bochum, Germany
| | - Anne Schmitz
- Department of Dermatology, University Hospital Münster, Von-Esmarch-Strasse 58, 48149, Münster, Germany
| | - Svenja Herbertz
- Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
| | - Luise Erpenbeck
- Department of Dermatology, University Hospital Münster, Von-Esmarch-Strasse 58, 48149, Münster, Germany
| | - Karsten Seidl
- Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
- Department EBS, University Duisburg-Essen, Bismarkstrasse 81, 47057, Duisburg, Germany
- Center for Nanointegration Duisburg-Essen (CENIDE), Carl-Benz-Strasse 199, 47057, Duisburg, Germany
| | - Sebastian Kruss
- Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
- Department of Chemistry, Ruhr-University Bochum, Universitätsstrasse 150, 44801, Bochum, Germany
- Center for Nanointegration Duisburg-Essen (CENIDE), Carl-Benz-Strasse 199, 47057, Duisburg, Germany
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9
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Wulf V, Bisker G. Single-Walled Carbon Nanotubes as Fluorescent Probes for Monitoring the Self-Assembly and Morphology of Peptide/Polymer Hybrid Hydrogels. NANO LETTERS 2022; 22:9205-9214. [PMID: 36259520 PMCID: PMC9706665 DOI: 10.1021/acs.nanolett.2c01587] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2022] [Revised: 10/12/2022] [Indexed: 05/20/2023]
Abstract
Hydrogels formed via supramolecular self-assembly of fluorenylmethyloxycarbonyl (Fmoc)-conjugated amino acids provide excellent scaffolds for 3D cell culture, tissue engineering, and tissue recovery matrices. Such hydrogels are usually characterized by rheology or electron microscopy, which are invasive and cannot provide real-time information. Here, we incorporate near-infrared fluorescent single-walled carbon nanotubes (SWCNTs) into Fmoc-diphenylalanine hydrogels as fluorescent probes, reporting in real-time on the morphology and time-dependent structural changes of the self-assembled hydrogels in the transparency window of biological tissue. We further demonstrate that the gelation process and structural changes upon the addition of cross-linking ions are transduced into spectral modulations of the SWCNT-fluorescence. Moreover, morphological differences of the hydrogels induced by polymer additives are manifested in unique features in fluorescence images of the incorporated SWCNTs. SWCNTs can thus serve as optical probes for noninvasive, long-term monitoring of the self-assembly gelation process and the fate of the resulting peptide hydrogel during long-term usage.
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Affiliation(s)
- Verena Wulf
- Department
of Biomedical Engineering, Faculty of Engineering, Tel-Aviv University, Tel Aviv 6997801, Israel
| | - Gili Bisker
- Department
of Biomedical Engineering, Faculty of Engineering, Tel-Aviv University, Tel Aviv 6997801, Israel
- The
Center for Physics and Chemistry of Living Systems, Tel-Aviv University, Tel Aviv 6997801, Israel
- Center
for Nanoscience and Nanotechnology, Tel-Aviv
University, Tel Aviv 6997801, Israel
- Center
for Light Matter Interaction, Tel-Aviv University, Tel Aviv 6997801, Israel
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10
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Antonucci A, Reggente M, Roullier C, Gillen AJ, Schuergers N, Zubkovs V, Lambert BP, Mouhib M, Carata E, Dini L, Boghossian AA. Carbon nanotube uptake in cyanobacteria for near-infrared imaging and enhanced bioelectricity generation in living photovoltaics. NATURE NANOTECHNOLOGY 2022; 17:1111-1119. [PMID: 36097045 DOI: 10.1038/s41565-022-01198-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2020] [Accepted: 07/20/2022] [Indexed: 06/15/2023]
Abstract
The distinctive properties of single-walled carbon nanotubes (SWCNTs) have inspired the development of many novel applications in the field of cell nanobiotechnology. However, studies thus far have not explored the effect of SWCNT functionalization on transport across the cell walls of prokaryotes. We explore the uptake of SWCNTs in Gram-negative cyanobacteria and demonstrate a passive length-dependent and selective internalization of SWCNTs decorated with positively charged biomolecules. We show that lysozyme-coated SWCNTs spontaneously penetrate the cell walls of a unicellular strain and a multicellular strain. A custom-built spinning-disc confocal microscope was used to image the distinct near-infrared SWCNT fluorescence within the autofluorescent cells, revealing a highly inhomogeneous distribution of SWCNTs. Real-time near-infrared monitoring of cell growth and division reveal that the SWCNTs are inherited by daughter cells. Moreover, these nanobionic living cells retained photosynthetic activity and showed an improved photo-exoelectrogenicity when incorporated into bioelectrochemical devices.
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Affiliation(s)
- Alessandra Antonucci
- Institute of Chemical Sciences and Engineering (ISIC), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Melania Reggente
- Institute of Chemical Sciences and Engineering (ISIC), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Charlotte Roullier
- Institute of Chemical Sciences and Engineering (ISIC), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Alice J Gillen
- Institute of Chemical Sciences and Engineering (ISIC), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Nils Schuergers
- Institute of Chemical Sciences and Engineering (ISIC), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
- Institute of Biology III, University of Freiburg, Freiburg, Germany
| | - Vitalijs Zubkovs
- Institute of Chemical Sciences and Engineering (ISIC), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
- Swiss Center for Electronics and Microtechnology (CSEM), Landquart, Switzerland
| | - Benjamin P Lambert
- Institute of Chemical Sciences and Engineering (ISIC), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Mohammed Mouhib
- Institute of Chemical Sciences and Engineering (ISIC), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Elisabetta Carata
- Department of Biological and Environmental Sciences and Technologies (DiSTeBA), University of Salento, Lecce, Italy
| | - Luciana Dini
- Department of Biology and Biotechnology Charles Darwin, Sapienza University of Rome, CNR Nanotec, Lecce, Italy
| | - Ardemis A Boghossian
- Institute of Chemical Sciences and Engineering (ISIC), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland.
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11
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Nißler R, Ackermann J, Ma C, Kruss S. Prospects of Fluorescent Single-Chirality Carbon Nanotube-Based Biosensors. Anal Chem 2022; 94:9941-9951. [PMID: 35786856 DOI: 10.1021/acs.analchem.2c01321] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Semiconducting single-wall carbon nanotubes (SWCNTs) fluoresce in the near-infrared (NIR), and the emission wavelength depends on their structure (chirality). Interactions with other molecules affect their fluorescence, which has successfully been used for SWCNT-based molecular sensors. So far, most such sensors are assembled from crude mixtures of different SWCNT chiralities, which causes polydisperse sensor responses as well as spectral congestion and limits their performance. The advent of chirality-pure SWCNTs is about to overcome this limitation and paves the way for the next generation of biosensors. Here, we discuss the first examples of chirality-pure SWCNT-based fluorescent biosensors. We introduce routes to such sensors via aqueous two-phase extraction-assisted purification of SWCNTs and highlight the critical interplay between purification and surface modification procedures. Applications include the NIR detection and imaging of neurotransmitters, reactive oxygen species, lipids, bacterial motives, and plant metabolites. Most importantly, we outline a path toward how such monodisperse (chirality-pure) sensors will enable advanced multiplexed sensing with enhanced bioanalytical performance.
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Affiliation(s)
- Robert Nißler
- Nanoparticle Systems Engineering Lab, ETH Zurich, Sonneggstrasse 3, 8092 Zurich, Switzerland.,Laboratory for Particles-Biology Interactions, Swiss Federal Laboratories for Materials Science and Technology, Lerchenfeldstrasse 5, 9014 St. Gallen, Switzerland.,Department of Chemistry, Bochum University, Universitätsstrasse 150, 44801 Bochum, Germany
| | - Julia Ackermann
- Fraunhofer Institute of Microelectronic Circuits and Systems, Finkenstrasse 61, 47057 Duisburg, Germany
| | - Chen Ma
- Department of Chemistry, Bochum University, Universitätsstrasse 150, 44801 Bochum, Germany
| | - Sebastian Kruss
- Department of Chemistry, Bochum University, Universitätsstrasse 150, 44801 Bochum, Germany.,Fraunhofer Institute of Microelectronic Circuits and Systems, Finkenstrasse 61, 47057 Duisburg, Germany
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12
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Polymethyl(1-Butyric acidyl)silane-Assisted Dispersion and Density Gradient Ultracentrifugation Separation of Single-Walled Carbon Nanotubes. NANOMATERIALS 2022; 12:nano12122094. [PMID: 35745430 PMCID: PMC9227055 DOI: 10.3390/nano12122094] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/27/2022] [Revised: 06/13/2022] [Accepted: 06/14/2022] [Indexed: 11/16/2022]
Abstract
Individual single–walled carbon nanotubes (SWNTs) with distinct electronic types are crucial for the fabrication of SWNTs–based electronic and magnetic devices. Herein, the water–soluble polymethyl(1–butyric acidyl)silane (BA–PMS) was synthesized via the hydrosilylation reaction between 3–butenoic acid and polymethylsilane catalyzed by 2,2′–azodibutyronitrile. As a new dispersant, BA–PMS displayed a quite good dispersing capacity to arc–discharged SWNTs and moderate selectivity for metallic species. The application of sucrose–DGU, the density gradient ultracentrifugation with sucrose as the gradient medium, to the co–surfactants (BA–PMS and sodium dodecyl sulfonate) individually dispersed SWNTs yielded metallic SWNTs of 85.6% purity and semiconducting SWNTs of 99% purity, respectively. This work paves a path to the DGU separation of the SWNTs dispersed by polymer–based dispersants with hydrophobic alkyl chains.
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13
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Ackermann J, Metternich JT, Herbertz S, Kruss S. Biosensing with Fluorescent Carbon Nanotubes. Angew Chem Int Ed Engl 2022; 61:e202112372. [PMID: 34978752 PMCID: PMC9313876 DOI: 10.1002/anie.202112372] [Citation(s) in RCA: 64] [Impact Index Per Article: 32.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2021] [Revised: 12/28/2021] [Indexed: 12/23/2022]
Abstract
Biosensors are powerful tools for modern basic research and biomedical diagnostics. Their development requires substantial input from the chemical sciences. Sensors or probes with an optical readout, such as fluorescence, offer rapid, minimally invasive sensing of analytes with high spatial and temporal resolution. The near‐infrared (NIR) region is beneficial because of the reduced background and scattering of biological samples (tissue transparency window) in this range. In this context, single‐walled carbon nanotubes (SWCNTs) have emerged as versatile NIR fluorescent building blocks for biosensors. Here, we provide an overview of advances in SWCNT‐based NIR fluorescent molecular sensors. We focus on chemical design strategies for diverse analytes and summarize insights into the photophysics and molecular recognition. Furthermore, different application areas are discussed—from chemical imaging of cellular systems and diagnostics to in vivo applications and perspectives for the future.
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Affiliation(s)
- Julia Ackermann
- Biomedical Nanosensors, Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany.,Department EBS, University Duisburg-Essen, Bismarckstrasse 81, 47057, Duisburg, Germany
| | - Justus T Metternich
- Physical Chemistry, Ruhr-University Bochum, Universitätsstrasse 150, 44801, Bochum, Germany.,Biomedical Nanosensors, Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
| | - Svenja Herbertz
- Biomedical Nanosensors, Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
| | - Sebastian Kruss
- Physical Chemistry, Ruhr-University Bochum, Universitätsstrasse 150, 44801, Bochum, Germany.,Biomedical Nanosensors, Fraunhofer Institute for Microelectronic Circuits and Systems, Finkenstrasse 61, 47057, Duisburg, Germany
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14
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Lin Z, Yang Y, Jagota A, Zheng M. Machine Learning-Guided Systematic Search of DNA Sequences for Sorting Carbon Nanotubes. ACS NANO 2022; 16:4705-4713. [PMID: 35213805 DOI: 10.1021/acsnano.1c11448] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
The prerequisite of utilizing DNA in sequence-dependent applications is to search specific sequences. Developing a strategy for efficient DNA sequence screening represents a grand challenge due to the countless possibilities of sequence combination. Herein, relying on sequence-dependent recognition between DNA and single-wall carbon nanotubes (SWCNTs), we demonstrate a method for systematic search of DNA sequences for sorting single-chirality SWCNTs. Different from previously documented empirical search, which has a low efficiency and accuracy, our approach combines machine learning and experimental investigation. The number of resolving sequences and the success rate of finding them are improved from ∼102 to ∼103 and from ∼10% to >90%, respectively. Moreover, the resolving sequence patterns determined from 5-mer and 6-mer short sequences can be extended to sequence search in longer DNA subspaces.
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Affiliation(s)
- Zhiwei Lin
- Materials Science and Engineering Division, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
| | - Yoona Yang
- Department of Chemical & Biomolecular Engineering, Lehigh University, Bethlehem, Pennsylvania 18015, United States
| | - Anand Jagota
- Departments of Chemical & Biomolecular Engineering and of Bioengineering, Lehigh University, Bethlehem, Pennsylvania 18015, United States
| | - Ming Zheng
- Materials Science and Engineering Division, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
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15
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Ackermann J, Metternich JT, Herbertz S, Kruss S. Biosensing with Fluorescent Carbon Nanotubes. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202112372] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Julia Ackermann
- Biomedical Nanosensors Fraunhofer Institute for Microelectronic Circuits and Systems Finkenstrasse 61 47057 Duisburg Germany
- Department EBS University Duisburg-Essen Bismarckstrasse 81 47057 Duisburg Germany
| | - Justus T. Metternich
- Physical Chemistry Ruhr-University Bochum Universitätsstrasse 150 44801 Bochum Germany
- Biomedical Nanosensors Fraunhofer Institute for Microelectronic Circuits and Systems Finkenstrasse 61 47057 Duisburg Germany
| | - Svenja Herbertz
- Biomedical Nanosensors Fraunhofer Institute for Microelectronic Circuits and Systems Finkenstrasse 61 47057 Duisburg Germany
| | - Sebastian Kruss
- Physical Chemistry Ruhr-University Bochum Universitätsstrasse 150 44801 Bochum Germany
- Biomedical Nanosensors Fraunhofer Institute for Microelectronic Circuits and Systems Finkenstrasse 61 47057 Duisburg Germany
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16
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Mann FA, Galonska P, Herrmann N, Kruss S. Quantum defects as versatile anchors for carbon nanotube functionalization. Nat Protoc 2022; 17:727-747. [PMID: 35110739 DOI: 10.1038/s41596-021-00663-6] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2021] [Accepted: 11/03/2021] [Indexed: 11/09/2022]
Abstract
Single-wall carbon nanotubes (SWCNTs) are used in diverse applications that require chemical tailoring of the SWCNT surface, including optical sensing, imaging, targeted drug delivery and single-photon generation. SWCNTs have been noncovalently modified with (bio)polymers to preserve their intrinsic near-infrared fluorescence. However, demanding applications (e.g., requiring stability in biological fluids) would benefit from a stable covalent linkage between the SWCNT and the functional unit (e.g., antibody, fluorophore, drug). Here we present how to use diazonium salt chemistry to introduce sp3 quantum defects in the SWCNT carbon lattice to serve as handles for conjugation while preserving near-infrared fluorescence. In this protocol, we describe the straightforward, stable (covalent), highly versatile and scalable functionalization of SWCNTs with biomolecules such as peptides and proteins to yield near-infrared fluorescent SWCNT bioconjugates. We provide a step-by-step procedure covering SWCNT dispersion, quantum defect incorporation, bioconjugation, in situ peptide synthesis on SWCNTs, and characterization, which can be completed in 5-7 d.
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Affiliation(s)
- Florian A Mann
- Physical Chemistry II, Ruhr-Universität Bochum, Bochum, Germany.,Institute of Physical Chemistry, Göttingen University, Göttingen, Germany
| | | | - Niklas Herrmann
- Institute of Physical Chemistry, Göttingen University, Göttingen, Germany
| | - Sebastian Kruss
- Physical Chemistry II, Ruhr-Universität Bochum, Bochum, Germany. .,Institute of Physical Chemistry, Göttingen University, Göttingen, Germany. .,Fraunhofer Institute for Microelectronic Circuits and Systems, Duisburg, Germany.
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17
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Ouassil N, Pinals RL, Del Bonis-O’Donnell JT, Wang JW, Landry MP. Supervised learning model predicts protein adsorption to carbon nanotubes. SCIENCE ADVANCES 2022; 8:eabm0898. [PMID: 34995109 PMCID: PMC8741178 DOI: 10.1126/sciadv.abm0898] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
Engineered nanoparticles are advantageous for biotechnology applications including biomolecular sensing and delivery. However, testing compatibility and function of nanotechnologies in biological systems requires a heuristic approach, where unpredictable protein corona formation prevents their effective implementation. We develop a random forest classifier trained with mass spectrometry data to identify proteins that adsorb to nanoparticles based solely on the protein sequence (78% accuracy, 70% precision). We model proteins that populate the corona of a single-walled carbon nanotube (SWCNT)–based nanosensor and study the relationship between the protein’s amino acid–based properties and binding capacity. Protein features associated with increased likelihood of SWCNT binding include high content of solvent-exposed glycines and nonsecondary structure–associated amino acids. To evaluate its predictive power, we apply the classifier to identify proteins with high binding affinity to SWCNTs, with experimental validation. The developed classifier provides a step toward undertaking the otherwise intractable problem of predicting protein-nanoparticle interactions.
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Affiliation(s)
- Nicholas Ouassil
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, CA 94720, USA
| | - Rebecca L. Pinals
- Picower Institute for Learning and Memory, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | | | - Jeffrey W. Wang
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, CA 94720, USA
| | - Markita P. Landry
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, CA 94720, USA
- Chan Zuckerberg Biohub, San Francisco, CA 94158, USA
- Innovative Genomics Institute (IGI), Berkeley, CA 94720, USA
- California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, Berkeley, CA 94720, USA
- Corresponding author.
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18
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Ouassil N, Pinals RL, Del Bonis-O'Donnell JT, Wang JW, Landry MP. Supervised learning model predicts protein adsorption to carbon nanotubes. SCIENCE ADVANCES 2022. [PMID: 34995109 DOI: 10.5281/zenodo.5640140] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
Abstract
Engineered nanoparticles are advantageous for biotechnology applications including biomolecular sensing and delivery. However, testing compatibility and function of nanotechnologies in biological systems requires a heuristic approach, where unpredictable protein corona formation prevents their effective implementation. We develop a random forest classifier trained with mass spectrometry data to identify proteins that adsorb to nanoparticles based solely on the protein sequence (78% accuracy, 70% precision). We model proteins that populate the corona of a single-walled carbon nanotube (SWCNT)–based nanosensor and study the relationship between the protein’s amino acid–based properties and binding capacity. Protein features associated with increased likelihood of SWCNT binding include high content of solvent-exposed glycines and nonsecondary structure–associated amino acids. To evaluate its predictive power, we apply the classifier to identify proteins with high binding affinity to SWCNTs, with experimental validation. The developed classifier provides a step toward undertaking the otherwise intractable problem of predicting protein-nanoparticle interactions.
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Affiliation(s)
- Nicholas Ouassil
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, CA 94720, USA
| | - Rebecca L Pinals
- Picower Institute for Learning and Memory, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | | | - Jeffrey W Wang
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, CA 94720, USA
| | - Markita P Landry
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, CA 94720, USA
- Chan Zuckerberg Biohub, San Francisco, CA 94158, USA
- Innovative Genomics Institute (IGI), Berkeley, CA 94720, USA
- California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, Berkeley, CA 94720, USA
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19
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Wulf V, Slor G, Rathee P, Amir RJ, Bisker G. Dendron-Polymer Hybrids as Tailorable Responsive Coronae of Single-Walled Carbon Nanotubes. ACS NANO 2021; 15:20539-20549. [PMID: 34878763 DOI: 10.1021/acsnano.1c09125] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Functional composite materials that can change their spectral properties in response to external stimuli have a plethora of applications in fields ranging from sensors to biomedical imaging. One of the most promising types of materials used to design spectrally active composites are fluorescent single-walled carbon nanotubes (SWCNTs), noncovalently functionalized by synthetic amphiphilic polymers. These coated SWCNTs can exhibit modulations in their fluorescence spectra in response to interactions with target analytes. Hence, identifying new amphiphiles with interchangeable building blocks that can form individual coronae around the SWCNTs and can be tailored for a specific application is of great interest. This study presents highly modular amphiphilic polymer-dendron hybrids, composed of hydrophobic dendrons and hydrophilic polyethylene glycol (PEG) that can be synthesized with a high degree of structural freedom, for suspending SWCNTs in aqueous solution. Taking advantage of the high molecular precision of these PEG-dendrons, we show that precise differences in the chemical structure of the hydrophobic end groups of the dendrons can be used to control the interactions of the amphiphiles with the SWCNT surface. These interactions can be directly related to differences in the intrinsic near-infrared fluorescence emission of the various chiralities in a SWCNT sample. Utilizing the susceptibility of the PEG-dendrons toward enzymatic degradation, we demonstrate the ability to monitor enzymatic activity through changes in the SWCNT fluorescent signal. These findings pave the way for a rational design of functional SWCNTs, which can be used for optical sensing of enzymatic activity in the near-infrared spectral range.
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Affiliation(s)
- Verena Wulf
- Department of Biomedical Engineering, Faculty of Engineering, Tel-Aviv University, Tel Aviv 6997801, Israel
| | - Gadi Slor
- Department of Organic Chemistry, School of Chemistry, Faculty of Exact Sciences, Tel-Aviv University, Tel-Aviv 6997801, Israel
- The Center for Physics and Chemistry of Living Systems, Tel-Aviv University, Tel Aviv 6997801, Israel
- Center for Nanoscience and Nanotechnology, Tel-Aviv University, Tel Aviv 6997801, Israel
| | - Parul Rathee
- Department of Organic Chemistry, School of Chemistry, Faculty of Exact Sciences, Tel-Aviv University, Tel-Aviv 6997801, Israel
- The Center for Physics and Chemistry of Living Systems, Tel-Aviv University, Tel Aviv 6997801, Israel
- Center for Nanoscience and Nanotechnology, Tel-Aviv University, Tel Aviv 6997801, Israel
| | - Roey J Amir
- Department of Organic Chemistry, School of Chemistry, Faculty of Exact Sciences, Tel-Aviv University, Tel-Aviv 6997801, Israel
- The Center for Physics and Chemistry of Living Systems, Tel-Aviv University, Tel Aviv 6997801, Israel
- Center for Nanoscience and Nanotechnology, Tel-Aviv University, Tel Aviv 6997801, Israel
- ADAMA Center for Novel Delivery Systems in Crop Protection, Tel-Aviv University, Tel Aviv 6997801, Israel
| | - Gili Bisker
- Department of Biomedical Engineering, Faculty of Engineering, Tel-Aviv University, Tel Aviv 6997801, Israel
- The Center for Physics and Chemistry of Living Systems, Tel-Aviv University, Tel Aviv 6997801, Israel
- Center for Nanoscience and Nanotechnology, Tel-Aviv University, Tel Aviv 6997801, Israel
- Center for Light Matter Interaction, Tel-Aviv University, Tel Aviv 6997801, Israel
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20
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Selvaggio G, Nißler R, Nietmann P, Patra A, Patalag LJ, Janshoff A, Werz DB, Kruss S. NIR-emitting benzene-fused oligo-BODIPYs for bioimaging. Analyst 2021; 147:230-237. [PMID: 34897304 DOI: 10.1039/d1an01850g] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Near-infrared (NIR) fluorophores are emerging tools for biophotonics because of their reduced scattering, increased tissue penetration and low phototoxicity. However, the library of NIR fluorophores is still limited. Here, we report the NIR fluorescence of two benzene-fused oligo-BODIPYs in their hexameric (H) and octameric (O) forms. These dyes emit bright NIR fluorescence (H: maxima 943/1075 nm, O: maxima 976/1115 nm) that can be excited in the NIR (H = 921 nm, O = 956 nm) or non-resonantly over a broad range in the visible region. The emission bands of H show a bathochromic shift and peak sharpening with increasing dye concentration. Furthermore, the emission maxima of both H and O shift up to 20 nm in solvents of different polarity. These dyes can be used as NIR ink and imaged remotely on the macroscopic level with a stand-off distance of 20 cm. We furthermore demonstrate their versatility for biophotonics by coating microscale beads and performing microrheology via NIR video particle tracking (NIR-VPT) in biopolymer (F-actin) networks. No photodamaging of the actin filaments takes place, which is typically observed for visible fluorophores and highlights the advantages of these NIR dyes.
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Affiliation(s)
- Gabriele Selvaggio
- Department of Chemistry and Biochemistry, Ruhr-University Bochum, 44801 Bochum, Germany. .,Institute of Physical Chemistry, Georg-August University Göttingen, 37077 Göttingen, Germany
| | - Robert Nißler
- Department of Chemistry and Biochemistry, Ruhr-University Bochum, 44801 Bochum, Germany. .,Institute of Physical Chemistry, Georg-August University Göttingen, 37077 Göttingen, Germany
| | - Peter Nietmann
- Institute of Physical Chemistry, Georg-August University Göttingen, 37077 Göttingen, Germany
| | - Atanu Patra
- Technical University of Braunschweig, Institute of Organic Chemistry, 38106 Braunschweig, Germany
| | - Lukas J Patalag
- Technical University of Braunschweig, Institute of Organic Chemistry, 38106 Braunschweig, Germany
| | - Andreas Janshoff
- Institute of Physical Chemistry, Georg-August University Göttingen, 37077 Göttingen, Germany
| | - Daniel B Werz
- Technical University of Braunschweig, Institute of Organic Chemistry, 38106 Braunschweig, Germany
| | - Sebastian Kruss
- Department of Chemistry and Biochemistry, Ruhr-University Bochum, 44801 Bochum, Germany. .,Institute of Physical Chemistry, Georg-August University Göttingen, 37077 Göttingen, Germany.,Fraunhofer Institute for Microelectronic Circuits and Systems, 47057 Duisburg, Germany
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21
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Affiliation(s)
- Beant Kaur Billing
- University Centre for Research and Development Chandigarh University Gharuan Mohali 140413 India
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22
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Algar WR, Massey M, Rees K, Higgins R, Krause KD, Darwish GH, Peveler WJ, Xiao Z, Tsai HY, Gupta R, Lix K, Tran MV, Kim H. Photoluminescent Nanoparticles for Chemical and Biological Analysis and Imaging. Chem Rev 2021; 121:9243-9358. [PMID: 34282906 DOI: 10.1021/acs.chemrev.0c01176] [Citation(s) in RCA: 123] [Impact Index Per Article: 41.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Research related to the development and application of luminescent nanoparticles (LNPs) for chemical and biological analysis and imaging is flourishing. Novel materials and new applications continue to be reported after two decades of research. This review provides a comprehensive and heuristic overview of this field. It is targeted to both newcomers and experts who are interested in a critical assessment of LNP materials, their properties, strengths and weaknesses, and prospective applications. Numerous LNP materials are cataloged by fundamental descriptions of their chemical identities and physical morphology, quantitative photoluminescence (PL) properties, PL mechanisms, and surface chemistry. These materials include various semiconductor quantum dots, carbon nanotubes, graphene derivatives, carbon dots, nanodiamonds, luminescent metal nanoclusters, lanthanide-doped upconversion nanoparticles and downshifting nanoparticles, triplet-triplet annihilation nanoparticles, persistent-luminescence nanoparticles, conjugated polymer nanoparticles and semiconducting polymer dots, multi-nanoparticle assemblies, and doped and labeled nanoparticles, including but not limited to those based on polymers and silica. As an exercise in the critical assessment of LNP properties, these materials are ranked by several application-related functional criteria. Additional sections highlight recent examples of advances in chemical and biological analysis, point-of-care diagnostics, and cellular, tissue, and in vivo imaging and theranostics. These examples are drawn from the recent literature and organized by both LNP material and the particular properties that are leveraged to an advantage. Finally, a perspective on what comes next for the field is offered.
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Affiliation(s)
- W Russ Algar
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada
| | - Melissa Massey
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada
| | - Kelly Rees
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada
| | - Rehan Higgins
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada
| | - Katherine D Krause
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada
| | - Ghinwa H Darwish
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada
| | - William J Peveler
- School of Chemistry, Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, U.K
| | - Zhujun Xiao
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada
| | - Hsin-Yun Tsai
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada
| | - Rupsa Gupta
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada
| | - Kelsi Lix
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada
| | - Michael V Tran
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada
| | - Hyungki Kim
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada
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23
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Pinals RL, Ledesma F, Yang D, Navarro N, Jeong S, Pak JE, Kuo L, Chuang YC, Cheng YW, Sun HY, Landry MP. Rapid SARS-CoV-2 Spike Protein Detection by Carbon Nanotube-Based Near-Infrared Nanosensors. NANO LETTERS 2021; 21:2272-2280. [PMID: 33635655 PMCID: PMC10493163 DOI: 10.1021/acs.nanolett.1c00118] [Citation(s) in RCA: 103] [Impact Index Per Article: 34.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
To effectively track and eliminate COVID-19, it is critical to develop tools for rapid and accessible diagnosis of actively infected individuals. Here, we introduce a single-walled carbon nanotube (SWCNT)-based optical sensing approach toward this end. We construct a nanosensor based on SWCNTs noncovalently functionalized with ACE2, a host protein with high binding affinity for the SARS-CoV-2 spike protein. The presence of the SARS-CoV-2 spike protein elicits a robust, 2-fold nanosensor fluorescence increase within 90 min of spike protein exposure. We characterize the nanosensor stability and sensing mechanism and passivate the nanosensor to preserve sensing response in saliva and viral transport medium. We further demonstrate that these ACE2-SWCNT nanosensors retain sensing capacity in a surface-immobilized format, exhibiting a 73% fluorescence turn-on response within 5 s of exposure to 35 mg/L SARS-CoV-2 virus-like particles. Our data demonstrate that ACE2-SWCNT nanosensors can be developed into an optical tool for rapid SARS-CoV-2 detection.
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Affiliation(s)
- Rebecca L Pinals
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California 94720, United States
| | - Francis Ledesma
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California 94720, United States
| | - Darwin Yang
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California 94720, United States
| | - Nicole Navarro
- Department of Chemistry, University of California, Berkeley, California 94720, United States
| | - Sanghwa Jeong
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California 94720, United States
| | - John E Pak
- Chan Zuckerberg Biohub, San Francisco, California 94158, United States
| | - Lili Kuo
- Wadsworth Center, New York State Department of Health, Slingerlands, New York 12159, United States
| | - Yung-Chun Chuang
- Leadgene Biomedical Inc., Tainan 71042, Taiwan
- Department of Medical Laboratory Science and Biotechnology, College of Medicine, National Cheng Kung University, Tainan 70101, Taiwan
| | | | - Hung-Yu Sun
- Institute of Molecular Medicine, College of Medicine, National Cheng Kung University, Tainan 70101, Taiwan
| | - Markita P Landry
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California 94720, United States
- Chan Zuckerberg Biohub, San Francisco, California 94158, United States
- Innovative Genomics Institute (IGI), Berkeley, California 94720, United States
- California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, California 94720, United States
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Mann FA, Herrmann N, Opazo F, Kruss S. Quantum Defects as a Toolbox for the Covalent Functionalization of Carbon Nanotubes with Peptides and Proteins. Angew Chem Int Ed Engl 2020; 59:17732-17738. [PMID: 32511874 PMCID: PMC7540668 DOI: 10.1002/anie.202003825] [Citation(s) in RCA: 36] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2020] [Revised: 04/24/2020] [Indexed: 12/16/2022]
Abstract
Single-walled carbon nanotubes (SWCNTs) are a 1D nanomaterial that shows fluorescence in the near-infrared (NIR, >800 nm). In the past, covalent chemistry was less explored to functionalize SWCNTs as it impairs NIR emission. However, certain sp3 defects (quantum defects) in the carbon lattice have emerged that preserve NIR fluorescence and even introduce a new, red-shifted emission peak. Here, we report on quantum defects, introduced using light-driven diazonium chemistry, that serve as anchor points for peptides and proteins. We show that maleimide anchors allow conjugation of cysteine-containing proteins such as a GFP-binding nanobody. In addition, an Fmoc-protected phenylalanine defect serves as a starting point for conjugation of visible fluorophores to create multicolor SWCNTs and in situ peptide synthesis directly on the nanotube. Therefore, these quantum defects are a versatile platform to tailor both the nanotube's photophysical properties as well as their surface chemistry.
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Affiliation(s)
- Florian A. Mann
- Institute of Physical ChemistryGeorg-August UniversitätTammannstraße 637077GöttingenGermany
| | - Niklas Herrmann
- Institute of Physical ChemistryGeorg-August UniversitätTammannstraße 637077GöttingenGermany
| | - Felipe Opazo
- Center for Biostructural Imaging of NeurodegenerationVon-Siebold-Straße 3a37075GöttingenGermany
| | - Sebastian Kruss
- Institute of Physical ChemistryGeorg-August UniversitätTammannstraße 637077GöttingenGermany
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Mann FA, Herrmann N, Opazo F, Kruss S. Quantendefekte als Werkzeugkasten für die kovalente Funktionalisierung von Kohlenstoffnanoröhren mit Peptiden und Proteinen. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202003825] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Florian A. Mann
- Institut für Physikalische Chemie Georg-August Universität Tammannstraße 6 37077 Göttingen Deutschland
| | - Niklas Herrmann
- Institut für Physikalische Chemie Georg-August Universität Tammannstraße 6 37077 Göttingen Deutschland
| | - Felipe Opazo
- Center for Biostructural Imaging of Neurodegeneration Von-Siebold-Straße 3a 37075 Göttingen Deutschland
| | - Sebastian Kruss
- Institut für Physikalische Chemie Georg-August Universität Tammannstraße 6 37077 Göttingen Deutschland
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Lambert BP, Gillen AJ, Boghossian AA. Synthetic Biology: A Solution for Tackling Nanomaterial Challenges. J Phys Chem Lett 2020; 11:4791-4802. [PMID: 32441940 DOI: 10.1021/acs.jpclett.0c00929] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
Bioengineers have mastered practical techniques for tuning a biomaterial's properties with only limited information on the relationship between the material's structure and function. These techniques have been quintessential to engineering proteins, which are most often riddled with ill-defined structure-function relationships. In this Perspective, we review bioengineering approaches aimed at overcoming the elusive protein structure-function relation. We extend these principles to engineering synthetic nanomaterials, specifically applying the underlying theory to optical sensors based on single-stranded DNA-wrapped single-walled carbon nanotubes (ssDNA-SWCNTs). Bioengineering techniques such as directed evolution, computational design, and noncanonical synthesis are reviewed in the broader context of nanomaterials engineering. We further provide an order-of-magnitude analysis of empirical approaches that rely on random or guided searches for designing new nanomaterials. The underlying concepts presented in these approaches can be further extended to a broad range of engineering fields confronted with empirical design strategies, including catalysis, metal-organic frameworks (MOFs), pharmaceutical dosing, and optimization algorithms.
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Affiliation(s)
- Benjamin P Lambert
- École Polytechnique Fédérale de Lausanne (EPFL), 1015 Lausanne, Switzerland
| | - Alice J Gillen
- École Polytechnique Fédérale de Lausanne (EPFL), 1015 Lausanne, Switzerland
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27
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Zhao H, Guo L, Lian Y. Dispersion of arc-discharged single-walled carbon nanotubes using the natural α-amino acid derivative N-dodecanoyl leucinate. RSC Adv 2020; 10:21643-21649. [PMID: 35518735 PMCID: PMC9054530 DOI: 10.1039/d0ra02862b] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2020] [Accepted: 05/29/2020] [Indexed: 12/31/2022] Open
Abstract
The natural α-amino acid derivate N-dodecanoyl leucinate was synthesized via Schotten–Baumann reaction and alkali treatment, and was applied to the dispersion of arc-discharged single-walled carbon nanotubes (SWNTs). Optical absorption and Raman scattering spectra as well as AFM observation confirmed the effective individualization and selective dispersion of SWNTs. Moreover, charge transfer from N-dodecanoyl leucinate to SWNTs was evidenced by FT-IR and Raman scattering spectroscopic analyses. We believe that the formation of a charge transfer complex between dispersants and SWNTs is responsible for the effective individualization of SWNTs, and that the charge transfer from dispersants to SWNTs (or from SWNTs to dispersants) is crucial for selective dispersion of semiconducting (or metallic) SWNTs. The synthesized natural α-amino acid derivative N-dodecanoyl leucinate demonstrates an effective and selective dispersion towards arc-discharged SWNTs.![]()
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Affiliation(s)
- Heng Zhao
- Key Laboratory of Functional Inorganic Material Chemistry, Ministry of Education, School of Chemistry and Materials Science, Heilongjiang University Harbin 150080 China +86 451 86608576 +86 451 86608576
| | - Lihua Guo
- Key Laboratory of Photochemical Biomaterials and Energy Storage Material, School of Chemistry and Chemical Engineering, Harbin Normal University Harbin 150025 Heilongjiang China
| | - Yongfu Lian
- Key Laboratory of Functional Inorganic Material Chemistry, Ministry of Education, School of Chemistry and Materials Science, Heilongjiang University Harbin 150080 China +86 451 86608576 +86 451 86608576
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28
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Gillen AJ, Siefman DJ, Wu SJ, Bourmaud C, Lambert B, Boghossian AA. Templating colloidal sieves for tuning nanotube surface interactions and optical sensor responses. J Colloid Interface Sci 2019; 565:55-62. [PMID: 31931299 DOI: 10.1016/j.jcis.2019.12.058] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2019] [Revised: 12/11/2019] [Accepted: 12/15/2019] [Indexed: 12/15/2022]
Abstract
Surfactants offer a tunable approach for modulating the exposed surface area of a nanoparticle. They further present a scalable and cost-effective means for suspending single-walled carbon nanotubes (SWCNTs), which have demonstrated practical use as fluorescence sensors. Though surfactant suspensions show record quantum yields for SWCNTs in aqueous solutions, they lack the selectivity that is vital for optical sensing. We present a new method for controlling the selectivity of optical SWCNT sensors through colloidal templating of the exposed surface area. Colloidal nanotube sensors were obtained using various concentrations of sodium cholate, and their performances were compared to DNA-SWCNT optical sensors. Sensor responses were measured against a library of bioanalytes, including neurotransmitters, amino acids, and sugars. We report an intensity response towards dopamine and serotonin for all sodium cholate-suspended SWCNT concentrations. We further identify a selective, 14.1 nm and 10.3 nm wavelength red-shifting response to serotonin for SWCNTs suspended in 1.5 and 0.5 mM sodium cholate, respectively. Through controlled, adsorption-based tuning of the nanotube surface, this study demonstrates the applicability of sub-critical colloidal suspensions to achieve selectivities exceeding those previously reported for DNA-SWCNT sensors.
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Affiliation(s)
- Alice J Gillen
- École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Daniel J Siefman
- École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland; Institute of Physics (IPHYS), École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Shang-Jung Wu
- École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Claire Bourmaud
- École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Benjamin Lambert
- École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
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29
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Hendler-Neumark A, Bisker G. Fluorescent Single-Walled Carbon Nanotubes for Protein Detection. SENSORS (BASEL, SWITZERLAND) 2019; 19:E5403. [PMID: 31817932 PMCID: PMC6960995 DOI: 10.3390/s19245403] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/26/2019] [Revised: 12/02/2019] [Accepted: 12/05/2019] [Indexed: 01/06/2023]
Abstract
Nanosensors have a central role in recent approaches to molecular recognition in applications like imaging, drug delivery systems, and phototherapy. Fluorescent nanoparticles are particularly attractive for such tasks owing to their emission signal that can serve as optical reporter for location or environmental properties. Single-walled carbon nanotubes (SWCNTs) fluoresce in the near-infrared part of the spectrum, where biological samples are relatively transparent, and they do not photobleach or blink. These unique optical properties and their biocompatibility make SWCNTs attractive for a variety of biomedical applications. Here, we review recent advancements in protein recognition using SWCNTs functionalized with either natural recognition moieties or synthetic heteropolymers. We emphasize the benefits of the versatile applicability of the SWCNT sensors in different systems ranging from single-molecule level to in-vivo sensing in whole animal models. Finally, we discuss challenges, opportunities, and future perspectives.
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Affiliation(s)
| | - Gili Bisker
- Department of Biomedical Engineering, Faculty of Engineering, Tel-Aviv University, Tel Aviv 6997801, Israel;
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