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Martinez LP, Mina Villarreal MC, Zaza C, Barella M, Acuna GP, Stefani FD, Violi IL, Gargiulo J. Thermometries for Single Nanoparticles Heated with Light. ACS Sens 2024; 9:1049-1064. [PMID: 38482790 DOI: 10.1021/acssensors.4c00012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/23/2024]
Abstract
The development of efficient nanoscale photon absorbers, such as plasmonic or high-index dielectric nanostructures, allows the remotely controlled release of heat on the nanoscale using light. These photothermal nanomaterials have found applications in various research and technological fields, ranging from materials science to biology. However, measuring the nanoscale thermal fields remains an open challenge, hindering full comprehension and control of nanoscale photothermal phenomena. Here, we review and discuss existent thermometries suitable for single nanoparticles heated under illumination. These methods are classified in four categories according to the region where they assess temperature: (1) the average temperature within a diffraction-limited volume, (2) the average temperature at the immediate vicinity of the nanoparticle surface, (3) the temperature of the nanoparticle itself, and (4) a map of the temperature around the nanoparticle with nanoscale spatial resolution. In the latter, because it is the most challenging and informative type of method, we also envisage new combinations of technologies that could be helpful in retrieving nanoscale temperature maps. Finally, we analyze and provide examples of strategies to validate the results obtained using different thermometry methods.
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Affiliation(s)
- Luciana P Martinez
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Argentina
| | - M Cristina Mina Villarreal
- Instituto de Nanosistemas, Universidad Nacional de San Martín, Av. 25 de mayo 1069, B1650HML San Martín, Buenos Aires, Argentina
| | - Cecilia Zaza
- London Centre for Nanotechnology, University College London, 17-19 Gordon Street, London WC1H 0AH, United Kingdom
| | - Mariano Barella
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH-1700, Switzerland
| | - Guillermo P Acuna
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH-1700, Switzerland
| | - Fernando D Stefani
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Argentina
- Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Güiraldes 2620, C1428EHA Ciudad Autónoma de Buenos Aires, Argentina
| | - Ianina L Violi
- Instituto de Nanosistemas, Universidad Nacional de San Martín, Av. 25 de mayo 1069, B1650HML San Martín, Buenos Aires, Argentina
| | - Julian Gargiulo
- Instituto de Nanosistemas, Universidad Nacional de San Martín, Av. 25 de mayo 1069, B1650HML San Martín, Buenos Aires, Argentina
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2
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Yeşilyurt ATM, Sanz-Paz M, Zhu F, Wu X, Sunil KS, Acuna GP, Huang JS. Unidirectional Meta-Emitters Based on the Kerker Condition Assembled by DNA Origami. ACS Nano 2023; 17:19189-19196. [PMID: 37721852 DOI: 10.1021/acsnano.3c05649] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/20/2023]
Abstract
Optical quantum emitters near nanostructures have access to additional relaxation channels and thus exhibit structure-dependent emission properties, including quantum yield and emission directionality. A well-engineered quantum emitter-plasmonic nanostructure hybrid can be considered as an optical meta-emitter consisting of a transmitting nanoantenna driven by an optical-frequency generator. In this work, the DNA origami fabrication method is used to construct ultracompact unidirectional meta-emitters composed of a plasmonic trimer nanoantenna driven by a single dye molecule. The origami is designed to bring the dye to the gap to simultaneously excite the electric and magnetic dipole modes of the trimer nanoantenna. The interference of these modes fulfills the Kerker condition at the fluorophore's emission band, enabling unidirectional emission. We report unidirectional emission from a single molecule with a front-to-back ratio of up to 10.7 dB accompanied by a maximum emission enhancement of 23-fold.
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Affiliation(s)
| | - Maria Sanz-Paz
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH 1700, Switzerland
| | - Fangjia Zhu
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH 1700, Switzerland
| | - Xiaofei Wu
- Leibniz Institute of Photonic Technology, Albert-Einstein-Straße 9, Jena 07745, Germany
| | - Karthika Suma Sunil
- Leibniz Institute of Photonic Technology, Albert-Einstein-Straße 9, Jena 07745, Germany
| | - Guillermo P Acuna
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH 1700, Switzerland
- National Center of Competence in Research Bio-Inspired Materials, University of Fribourg, Chemin des Verdiers 4, Fribourg CH-1700, Switzerland
| | - Jer-Shing Huang
- Leibniz Institute of Photonic Technology, Albert-Einstein-Straße 9, Jena 07745, Germany
- Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich-Schiller-Universität Jena, Jena 07743, Germany
- Research Center for Applied Sciences, Academia Sinica, Taipei 11529, Taiwan
- Department of Electrophysics, National Yang Ming Chiao Tung University, Hsinchu 30010, Taiwan
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3
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Sanz-Paz M, Zhu F, Bruder N, Kołątaj K, Fernández-Domínguez AI, Acuna GP. DNA Origami Assembled Nanoantennas for Manipulating Single-Molecule Spectral Emission. Nano Lett 2023. [PMID: 37338206 DOI: 10.1021/acs.nanolett.3c01818] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 06/21/2023]
Abstract
The emission spectrum of a dye is given by the energy of all of the possible radiative transitions weighted by their probability. This spectrum can be altered with optical nanoantennas that are able to manipulate the decay rate of nearby emitters by modifying the local density of photonic states. Here, we make use of DNA origami to precisely place an individual dye at different positions around a gold nanorod and show how this affects the emission spectrum of the dye. In particular, we observe a strong suppression or enhancement of the transitions to different vibrational levels of the excitonic ground state, depending on the spectral overlap with the nanorod resonance. This reshaping can be used to experimentally extract the spectral dependence of the radiative decay rate enhancement. Furthermore, for some cases, we argue that the drastic alteration of the fluorescence spectrum could arise from the violation of Kasha's rule.
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Affiliation(s)
- María Sanz-Paz
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH-1700, Switzerland
| | - Fangjia Zhu
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH-1700, Switzerland
| | - Nicolas Bruder
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH-1700, Switzerland
| | - Karol Kołątaj
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH-1700, Switzerland
| | - Antonio I Fernández-Domínguez
- Departamento de Física Teórica de la Materia Condensada and Condensed Matter Physics Center (IFIMAC), Universidad Autónoma de Madrid, E-28049 Madrid, Spain
| | - Guillermo P Acuna
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH-1700, Switzerland
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4
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Zaza C, Chiarelli G, Zweifel LP, Pilo-Pais M, Sisamakis E, Barachati F, Stefani FD, Acuna GP. Super-Resolved FRET Imaging by Confocal Fluorescence-Lifetime Single-Molecule Localization Microscopy. Small Methods 2023:e2201565. [PMID: 37132097 DOI: 10.1002/smtd.202201565] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Received: 11/25/2022] [Revised: 04/02/2023] [Indexed: 05/04/2023]
Abstract
Fluorescence Resonance Energy Transfer (FRET)-based approaches are unique tools for sensing the immediate surroundings and interactions of (bio)molecules. FRET imaging and Fluorescence Lifetime Imaging Microscopy (FLIM) enable the visualization of the spatial distribution of molecular interactions and functional states. However, conventional FLIM and FRET imaging provide average information over an ensemble of molecules within a diffraction-limited volume, which limits the spatial information, accuracy, and dynamic range of the observed signals. Here, an approach to obtain super-resolved FRET imaging based on single-molecule localization microscopy using an early prototype of a commercial time-resolved confocal microscope is demonstrated. DNA Points Accumulation for Imaging in Nanoscale Topography with fluorogenic probes provides a suitable combination of background reduction and binding kinetics compatible with the scanning speed of usual confocal microscopes. A single laser is used to excite the donor, a broad detection band is employed to retrieve both donor and acceptor emission, and FRET events are detected from lifetime information.
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Affiliation(s)
- Cecilia Zaza
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, Ciudad Autónoma de Buenos Aires, C1425FQD, Argentina
| | - Germán Chiarelli
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg, CH-1700, Switzerland
| | - Ludovit P Zweifel
- Biozentrum, University of Basel, Spitalstrasse 41, Basel, CH-4056, Switzerland
| | - Mauricio Pilo-Pais
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg, CH-1700, Switzerland
| | | | - Fabio Barachati
- PicoQuant GmbH, Rudower Chaussee 29 (IGZ), 12489, Berlin, Germany
| | - Fernando D Stefani
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, Ciudad Autónoma de Buenos Aires, C1425FQD, Argentina
- Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Güiraldes 2620, Ciudad Autónoma de Buenos Aires, C1428EHA, Argentina
| | - Guillermo P Acuna
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg, CH-1700, Switzerland
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5
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Velásquez-Hernández MDJ, Linares-Moreau M, Brandner LA, Marmiroli B, Barella M, Acuna GP, Zilio SD, Verstreken MFK, Kravchenko DE, Linder-Patton OM, Evans JD, Wiltsche H, Carraro F, Wolinski H, Ameloot R, Doonan C, Falcaro P. Fabrication of 3D Oriented MOF Micropatterns with Anisotropic Fluorescent Properties. Adv Mater 2023:e2211478. [PMID: 36934320 DOI: 10.1002/adma.202211478] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/07/2022] [Revised: 03/15/2023] [Indexed: 05/03/2023]
Abstract
Micropatterning crystalline materials with oriented pores is necessary for the fabrication of devices with anisotropic properties. Crystalline and porous metal-organic frameworks (MOFs) are ideal materials as their chemical and structural mutability enables precise tuning of functional properties for applications ranging from microelectronics to photonics. Herein, a patternable oriented MOF film is designed: by using a photomask under X-ray exposure, the MOF film decomposes in the irradiated areas, remaining intact in the unexposed regions. The MOF film acts simultaneously as a resist and as functional porous material. While the heteroepitaxial growth from aligned Cu(OH)2 nanobelts is used to deposit oriented MOF films, the sensitivity to radiation is achieved by integrating a brominated dicarboxylate ligand (Br2 BDC) into a copper-based MOF Cu2 L2 DABCO (DABCO = 1,4-diazabicyclo[2.2.2]octane; L = BDC/Br2 BDC). The lithographed samples act as diffraction gratings upon irradiation with a laser, thus confirming the quality of the extended MOF micropattern. Furthermore, the oriented MOF patterns are functionalized with fluorescent dyes. As a result, by rotating the polarization angle of the laser excitation, the alignment of the dye in the MOF is demonstrated. By controlling the functional response to light, this MOF patterning protocol can be used for the microfabrication of optical components for photonic devices.
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Affiliation(s)
| | - Mercedes Linares-Moreau
- Institute of Physical and Theoretical Chemistry, Graz University of Technology, Graz, 8010, Austria
| | - Lea A Brandner
- Institute of Physical and Theoretical Chemistry, Graz University of Technology, Graz, 8010, Austria
| | - Benedetta Marmiroli
- Institute of Inorganic Chemistry, Graz University of Technology, Graz, 8010, Austria
| | - Mariano Barella
- Department of Physics, University of Fribourg, Fribourg, CH-1700, Switzerland
| | - Guillermo P Acuna
- Department of Physics, University of Fribourg, Fribourg, CH-1700, Switzerland
| | - Simone Dal Zilio
- Istituto Officina dei Materiali CNR, Edificio MM-SS, Basovizza, Trieste, 34149, Italy
| | - Margot F K Verstreken
- Centre for Membrane Separations, Adsorption, Catalysis and Spectroscopy for Sustainable Solutions (cMACS), KU Leuven, Leuven, 3001, Belgium
| | - Dmitry E Kravchenko
- Centre for Membrane Separations, Adsorption, Catalysis and Spectroscopy for Sustainable Solutions (cMACS), KU Leuven, Leuven, 3001, Belgium
| | - Oliver M Linder-Patton
- Department of Chemistry, The University of Adelaide, Adelaide, South Australia, 5005, Australia
| | - Jack D Evans
- Department of Chemistry, The University of Adelaide, Adelaide, South Australia, 5005, Australia
| | - Helmar Wiltsche
- Institute of Analytical Chemistry and Food Chemistry, Graz University of Technology, Graz, 8010, Austria
| | - Francesco Carraro
- Institute of Physical and Theoretical Chemistry, Graz University of Technology, Graz, 8010, Austria
| | - Heimo Wolinski
- Institute of Molecular Biosciences, Field of Excellence BioHealth, University of Graz, Graz, 8010, Austria
| | - Rob Ameloot
- Centre for Membrane Separations, Adsorption, Catalysis and Spectroscopy for Sustainable Solutions (cMACS), KU Leuven, Leuven, 3001, Belgium
| | - Christian Doonan
- Department of Chemistry, The University of Adelaide, Adelaide, South Australia, 5005, Australia
| | - Paolo Falcaro
- Institute of Physical and Theoretical Chemistry, Graz University of Technology, Graz, 8010, Austria
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6
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Kocabey S, Chiarelli G, Acuna GP, Ruegg C. Ultrasensitive and multiplexed miRNA detection system with DNA-PAINT. Biosens Bioelectron 2023; 224:115053. [PMID: 36608362 DOI: 10.1016/j.bios.2022.115053] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2022] [Revised: 12/27/2022] [Accepted: 12/28/2022] [Indexed: 12/31/2022]
Abstract
MiRNAs hold great potential as biomarkers for the early detection and monitoring of diseases based on their differential expression profiles. Therefore, the sensitive, specific and accurate detection of miRNAs represents an emerging new tool to improve diagnosis and treatment of several diseases, cancer in particular. DNA origami-based miRNA detection is particularly advantageous as it allows to incorporate multiple attachment sites to capture different target miRNAs at the nanoscale. In this work, we present a DNA origami nanoarray system providing distance-dependent recognition of miRNAs by applying super-resolution microscopy technique; DNA-PAINT (point accumulation for imaging in nanoscale topography). The sensor can detect up to 4 miRNAs either separately or in combination based on the relative distance to the boundary markers on the structure using a single imager strand. The detection is highly sensitive, with a limit of detection down to the low femtomolar range (11 fM - 388 fM) and has a large dynamic range up to 10 nM without need for amplification. Moreover, our detection system can discriminate single base mismatches with low false positive rates. Using our strategy, we demonstrate the detection of endogenous miRNAs from cell extracts of cancer cell lines and plasma from breast cancer patients. Overall, we developed an ultrasensitive and amplification-free, DNA-PAINT imaging-based miRNA detection method using DNA origami nanoarray system for the detection of breast-cancer associated miRNAs which potentially provides a sensitive and accurate alternative to the current multiplexed diagnostic technologies.
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Affiliation(s)
- Samet Kocabey
- Laboratory of Experimental and Translational Oncology, Department of Oncology, Microbiology and Immunology, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 18, PER17, 1700, Fribourg, Switzerland.
| | - Germán Chiarelli
- Photonic Nanosystems, Department of Physics, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 3, PER08, 1700, Fribourg, Switzerland
| | - Guillermo P Acuna
- Photonic Nanosystems, Department of Physics, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 3, PER08, 1700, Fribourg, Switzerland
| | - Curzio Ruegg
- Laboratory of Experimental and Translational Oncology, Department of Oncology, Microbiology and Immunology, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 18, PER17, 1700, Fribourg, Switzerland
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7
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Trofymchuk K, Kołątaj K, Glembockyte V, Zhu F, Acuna GP, Liedl T, Tinnefeld P. Gold Nanorod DNA Origami Antennas for 3 Orders of Magnitude Fluorescence Enhancement in NIR. ACS Nano 2023; 17:1327-1334. [PMID: 36594816 DOI: 10.1021/acsnano.2c09577] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
DNA origami has taken a leading position in organizing materials at the nanoscale for various applications such as manipulation of light by exploiting plasmonic nanoparticles. We here present the arrangement of gold nanorods in a plasmonic nanoantenna dimer enabling up to 1600-fold fluorescence enhancement of a conventional near-infrared (NIR) dye positioned at the plasmonic hotspot between the nanorods. Transmission electron microscopy, dark-field spectroscopy, and fluorescence analysis together with numerical simulations give us insights on the heterogeneity of the observed enhancement values. The size of our hotspot region is ∼12 nm, granted by using the recently introduced design of NAnoantenna with Cleared HotSpot (NACHOS), which provides enough space for placing of tailored bioassays. Additionally, the possibility to synthesize nanoantennas in solution might allow for production upscaling.
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Affiliation(s)
- Kateryna Trofymchuk
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, 81377München, Germany
| | - Karol Kołątaj
- Faculty of Physics and Center for NanoScience (CeNS), Ludwig-Maximilians-University, Geschwister-Scholl-Platz 1, 80539Munich, Germany
- Département de Physique - Photonic Nanosystems, Université de Fribourg - Faculté des Sciences et Médicine, Chemin de Musée 3, CH-1700Fribourg, Switzerland
| | - Viktorija Glembockyte
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, 81377München, Germany
| | - Fangjia Zhu
- Département de Physique - Photonic Nanosystems, Université de Fribourg - Faculté des Sciences et Médicine, Chemin de Musée 3, CH-1700Fribourg, Switzerland
| | - Guillermo P Acuna
- Département de Physique - Photonic Nanosystems, Université de Fribourg - Faculté des Sciences et Médicine, Chemin de Musée 3, CH-1700Fribourg, Switzerland
| | - Tim Liedl
- Faculty of Physics and Center for NanoScience (CeNS), Ludwig-Maximilians-University, Geschwister-Scholl-Platz 1, 80539Munich, Germany
| | - Philip Tinnefeld
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, 81377München, Germany
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8
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Stamatopoulou PE, Droulias S, Acuna GP, Mortensen NA, Tserkezis C. Reconfigurable chirality with achiral excitonic materials in the strong-coupling regime. Nanoscale 2022; 14:17581-17588. [PMID: 36408680 DOI: 10.1039/d2nr05063c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
We introduce and theoretically analyze the concept of manipulating optical chirality via strong coupling of the optical modes of chiral nanostructures with excitonic transitions in molecular layers or semiconductors. With chirality being omnipresent in chemistry and biomedicine, and highly desirable for technological applications related to efficient light manipulation, the design of nanophotonic architectures that sense the handedness of molecules or generate the desired light polarization in an externally controllable manner is of major interdisciplinary importance. Here we propose that such capabilities can be provided by the mode splitting resulting from polaritonic hybridization. Starting with an object with well-known chiroptical response-here, for a proof of concept, a chiral sphere-we show that strong coupling with a nearby excitonic material generates two spectral branches that retain the object's high chirality density, which manifest most clearly through anticrossings in circular-dichroism or differential-scattering dispersion diagrams. These windows can be controlled by the intrinsic properties of the excitonic layer and the strength of the interaction, enabling thus the post-fabrication manipulation of optical chirality. Our findings are further verified via simulations of circular dichroism of a realistic chiral architecture, namely a helical assembly of plasmonic nanospheres embedded in a resonant matrix.
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Affiliation(s)
- P Elli Stamatopoulou
- Center for Nano Optics, University of Southern Denmark, Campusvej 55, DK-5230 Odense M, Denmark.
| | - Sotiris Droulias
- Department of Digital Systems, University of Piraeus, GR-18534, Piraeus, Greece
| | - Guillermo P Acuna
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH-1700, Switzerland
| | - N Asger Mortensen
- Center for Nano Optics, University of Southern Denmark, Campusvej 55, DK-5230 Odense M, Denmark.
- Danish Institute for Advanced Study, University of Southern Denmark, Campusvej 55, DK-5230 Odense M, Denmark
| | - Christos Tserkezis
- Center for Nano Optics, University of Southern Denmark, Campusvej 55, DK-5230 Odense M, Denmark.
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9
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Domljanovic I, Loretan M, Kempter S, Acuna GP, Kocabey S, Ruegg C. DNA origami book biosensor for multiplex detection of cancer-associated nucleic acids. Nanoscale 2022; 14:15432-15441. [PMID: 36219167 PMCID: PMC9612396 DOI: 10.1039/d2nr03985k] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/20/2022] [Accepted: 09/03/2022] [Indexed: 06/16/2023]
Abstract
DNA nanotechnology provides a promising approach for the development of biomedical point-of-care diagnostic nanoscale devices that are easy to use and cost-effective, highly sensitive and thus constitute an alternative to expensive, complex diagnostic devices. Moreover, DNA nanotechnology-based devices are particularly advantageous for applications in oncology, owing to being ideally suited for the detection of cancer-associated nucleic acids, including circulating tumor-derived DNA fragments (ctDNAs), circulating microRNAs (miRNAs) and other RNA species. Here, we present a dynamic DNA origami book biosensor that is precisely decorated with arrays of fluorophores acting as donors and acceptors and also fluorescence quenchers that produce a strong optical readout upon exposure to external stimuli for the single or dual detection of target oligonucleotides and miRNAs. This biosensor allowed the detection of target molecules either through the decrease of Förster resonance energy transfer (FRET) or an increase in the fluorescence intensity profile owing to a rotation of the constituent top layer of the structure. Single-DNA origami experiments showed that detection of two targets can be achieved simultaneously within 10 min with a limit of detection in the range of 1-10 pM. Overall, our DNA origami book biosensor design showed sensitive and specific detection of synthetic target oligonucleotides and natural miRNAs extracted from cancer cells. Based on these results, we foresee that our DNA origami biosensor may be developed into a cost-effective point-of-care diagnostic strategy for the specific and sensitive detection of a variety of DNAs and RNAs, such as ctDNAs, miRNAs, mRNAs, and viral DNA/RNAs in human samples.
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Affiliation(s)
- Ivana Domljanovic
- Laboratory of Experimental and Translational Oncology, Department of Oncology, Microbiology and Immunology, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 18, PER17, 1700 Fribourg, Switzerland.
| | - Morgane Loretan
- Photonic Nanosystems, Department of Physics, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 3, PER08, 1700 Fribourg, Switzerland.
| | - Susanne Kempter
- Department of Physics, Ludwig-Maximilians-University, Geschwister-Scholl-Platz 1, 80539 Munich, Germany
| | - Guillermo P Acuna
- Photonic Nanosystems, Department of Physics, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 3, PER08, 1700 Fribourg, Switzerland.
| | - Samet Kocabey
- Laboratory of Experimental and Translational Oncology, Department of Oncology, Microbiology and Immunology, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 18, PER17, 1700 Fribourg, Switzerland.
| | - Curzio Ruegg
- Laboratory of Experimental and Translational Oncology, Department of Oncology, Microbiology and Immunology, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 18, PER17, 1700 Fribourg, Switzerland.
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10
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Adamczyk AK, Huijben TAPM, Sison M, Di Luca A, Chiarelli G, Vanni S, Brasselet S, Mortensen KI, Stefani FD, Pilo-Pais M, Acuna GP. DNA Self-Assembly of Single Molecules with Deterministic Position and Orientation. ACS Nano 2022; 16:16924-16931. [PMID: 36065997 DOI: 10.1021/acsnano.2c06936] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
An ideal nanofabrication method should allow the organization of nanoparticles and molecules with nanometric positional precision, stoichiometric control, and well-defined orientation. The DNA origami technique has evolved into a highly versatile bottom-up nanofabrication methodology that fulfils almost all of these features. It enables the nanometric positioning of molecules and nanoparticles with stoichiometric control, and even the orientation of asymmetrical nanoparticles along predefined directions. However, orienting individual molecules has been a standing challenge. Here, we show how single molecules, namely, Cy5 and Cy3 fluorophores, can be incorporated in a DNA origami with controlled orientation by doubly linking them to oligonucleotide strands that are hybridized while leaving unpaired bases in the scaffold. Increasing the number of bases unpaired induces a stretching of the fluorophore linkers, reducing its mobility freedom, and leaves more space for the fluorophore to accommodate and find different sites for interaction with the DNA. Particularly, we explore the effects of leaving 0, 2, 4, 6, and 8 bases unpaired and find extreme orientations for 0 and 8 unpaired bases, corresponding to the molecules being perpendicular and parallel to the DNA double-helix, respectively. We foresee that these results will expand the application field of DNA origami toward the fabrication of nanodevices involving a wide range of orientation-dependent molecular interactions, such as energy transfer, intermolecular electron transport, catalysis, exciton delocalization, or the electromagnetic coupling of a molecule to specific resonant nanoantenna modes.
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Affiliation(s)
- Aleksandra K Adamczyk
- Department of Physics, University of Fribourg, Chemin du Musée 3, FribourgCH-1700, Switzerland
| | - Teun A P M Huijben
- Department of Health Technology, Technical University of Denmark, Anker Engelunds Vej 101, 2800Kongens Lyngby, Denmark
| | - Miguel Sison
- Aix Marseille Univ, CNRS, Centrale Marseille, Institut Fresnel, F-13013Marseille, France
| | - Andrea Di Luca
- Department of Biology, University of Fribourg, Chemin du Musée 10, FribourgCH-1700, Switzerland
| | - Germán Chiarelli
- Department of Physics, University of Fribourg, Chemin du Musée 3, FribourgCH-1700, Switzerland
| | - Stefano Vanni
- Department of Biology, University of Fribourg, Chemin du Musée 10, FribourgCH-1700, Switzerland
| | - Sophie Brasselet
- Aix Marseille Univ, CNRS, Centrale Marseille, Institut Fresnel, F-13013Marseille, France
| | - Kim I Mortensen
- Department of Health Technology, Technical University of Denmark, Anker Engelunds Vej 101, 2800Kongens Lyngby, Denmark
| | - Fernando D Stefani
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQDCiudad Autónoma de Buenos Aires, Argentina
- Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Güiraldes 2620, C1428EHACiudad Autónoma de Buenos Aires, Argentina
| | - Mauricio Pilo-Pais
- Department of Physics, University of Fribourg, Chemin du Musée 3, FribourgCH-1700, Switzerland
| | - Guillermo P Acuna
- Department of Physics, University of Fribourg, Chemin du Musée 3, FribourgCH-1700, Switzerland
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11
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Zhu F, Sanz-Paz M, Fernández-Domínguez AI, Pilo-Pais M, Acuna GP. Optical Ultracompact Directional Antennas Based on a Dimer Nanorod Structure. Nanomaterials (Basel) 2022; 12:2841. [PMID: 36014705 PMCID: PMC9416387 DOI: 10.3390/nano12162841] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/25/2022] [Revised: 08/10/2022] [Accepted: 08/13/2022] [Indexed: 06/15/2023]
Abstract
Controlling directionality of optical emitters is of utmost importance for their application in communication and biosensing devices. Metallic nanoantennas have been proven to affect both excitation and emission properties of nearby emitters, including the directionality of their emission. In this regard, optical directional nanoantennas based on a Yagi-Uda design have been demonstrated in the visible range. Despite this impressive proof of concept, their overall size (~λ2/4) and considerable number of elements represent obstacles for the exploitation of these antennas in nanophotonic applications and for their incorporation onto photonic chips. In order to address these challenges, we investigate an alternative design. In particular, we numerically study the performance of a recently demonstrated "ultracompact" optical antenna based on two parallel gold nanorods arranged as a side-to-side dimer. Our results confirm that the excitation of the antiphase mode of the antenna by a nanoemitter placed in its near-field can lead to directional emission. Furthermore, in order to verify the feasibility of this design and maximize the functionality, we study the effect on the directionality of several parameters, such as the shape of the nanorods, possible defects in the dimer assembly, and different positions and orientations of the nanoemitter. We conclude that this design is robust to structural variations, making it suitable for experimental upscaling.
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Affiliation(s)
- Fangjia Zhu
- Department of Physics, University of Fribourg, Chemin du Musée 3, CH-1700 Fribourg, Switzerland
| | - María Sanz-Paz
- Department of Physics, University of Fribourg, Chemin du Musée 3, CH-1700 Fribourg, Switzerland
| | - Antonio I. Fernández-Domínguez
- Departamento de Física Teórica de la Materia Condensada and Condensed Matter Physics Center (IFIMAC), Universidad Autónoma de Madrid, E-28049 Madrid, Spain
| | - Mauricio Pilo-Pais
- Department of Physics, University of Fribourg, Chemin du Musée 3, CH-1700 Fribourg, Switzerland
| | - Guillermo P. Acuna
- Department of Physics, University of Fribourg, Chemin du Musée 3, CH-1700 Fribourg, Switzerland
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12
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Zhu F, Sanz-Paz M, Fernández-Domínguez AI, Zhuo X, Liz-Marzán LM, Stefani FD, Pilo-Pais M, Acuna GP. DNA-Templated Ultracompact Optical Antennas for Unidirectional Single-Molecule Emission. Nano Lett 2022; 22:6402-6408. [PMID: 35875900 DOI: 10.1021/acs.nanolett.2c02424] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Optical antennas are nanostructures designed to manipulate light-matter interactions by interfacing propagating light with localized optical fields. In recent years, numerous devices have been realized to efficiently tailor the absorption and/or emission rates of fluorophores. By contrast, modifying the spatial characteristics of their radiation fields remains challenging. Successful phased array nanoantenna designs have required the organization of several elements over a footprint comparable to the operating wavelength. Here, we report unidirectional emission of a single fluorophore using an ultracompact optical antenna. The design consists of two side-by-side gold nanorods self-assembled via DNA origami, which also controls the positioning of the single-fluorophore. Our results show that when a single fluorescent molecule is positioned at the tip of one nanorod and emits at a frequency capable of driving the antenna in the antiphase mode, unidirectional emission with a forward to backward ratio of up to 9.9 dB can be achieved.
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Affiliation(s)
- Fangjia Zhu
- Department of Physics, University of Fribourg, Fribourg CH-1700, Switzerland
| | - María Sanz-Paz
- Department of Physics, University of Fribourg, Fribourg CH-1700, Switzerland
| | - Antonio I Fernández-Domínguez
- Departamento de Física Teórica de la Materia Condensada and Condensed Matter Physics Center (IFIMAC), Universidad Autónoma de Madrid, E-28049 Madrid, Spain
| | - Xiaolu Zhuo
- CIC biomaGUNE, Basque Research and Technology Alliance (BRTA), Donostia-San Sebastian 20014, Spain
- Centro de Investigación Biomédica en Red de Bioingeniería, Biomateriales y Nanomedicina (CIBER-BBN), Donostia-San Sebastian 20014, Spain
| | - Luis M Liz-Marzán
- CIC biomaGUNE, Basque Research and Technology Alliance (BRTA), Donostia-San Sebastian 20014, Spain
- Centro de Investigación Biomédica en Red de Bioingeniería, Biomateriales y Nanomedicina (CIBER-BBN), Donostia-San Sebastian 20014, Spain
- Ikerbasque, Basque Foundation for Science, 48009 Bilbao, Spain
| | - Fernando D Stefani
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), C1425FQD Ciudad Autónoma de Buenos Aires, Argentina
- Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, C1428EHA Ciudad Autónoma de Buenos Aires, Argentina
| | - Mauricio Pilo-Pais
- Department of Physics, University of Fribourg, Fribourg CH-1700, Switzerland
| | - Guillermo P Acuna
- Department of Physics, University of Fribourg, Fribourg CH-1700, Switzerland
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13
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Masullo LA, Szalai AM, Lopez LF, Pilo-Pais M, Acuna GP, Stefani FD. Correction: An alternative to MINFLUX that enables nanometer resolution in a confocal microscope. Light Sci Appl 2022; 11:251. [PMID: 35945208 PMCID: PMC9363481 DOI: 10.1038/s41377-022-00942-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Affiliation(s)
- Luciano A Masullo
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Buenos Aires, Argentina
- Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Güiraldes 2620, C1428EHA Ciudad Autónoma de Buenos Aires, Buenos Aires, Argentina
| | - Alan M Szalai
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Buenos Aires, Argentina
| | - Lucía F Lopez
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Buenos Aires, Argentina
| | - Mauricio Pilo-Pais
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg, CH-1700, Switzerland
| | - Guillermo P Acuna
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg, CH-1700, Switzerland
| | - Fernando D Stefani
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Buenos Aires, Argentina.
- Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Güiraldes 2620, C1428EHA Ciudad Autónoma de Buenos Aires, Buenos Aires, Argentina.
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14
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Masullo LA, Szalai AM, Lopez LF, Pilo-Pais M, Acuna GP, Stefani FD. An alternative to MINFLUX that enables nanometer resolution in a confocal microscope. Light Sci Appl 2022; 11:199. [PMID: 35773265 PMCID: PMC9247048 DOI: 10.1038/s41377-022-00896-4] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2022] [Revised: 06/11/2022] [Accepted: 06/15/2022] [Indexed: 05/31/2023]
Abstract
Localization of single fluorescent emitters is key for physicochemical and biophysical measurements at the nanoscale and beyond ensemble averaging. Examples include single-molecule tracking and super-resolution imaging by single-molecule localization microscopy. Among the numerous localization methods available, MINFLUX outstands for achieving a ~10-fold improvement in resolution over wide-field camera-based approaches, reaching the molecular scale at moderate photon counts. Widespread application of MINFLUX and related methods has been hindered by the technical complexity of the setups. Here, we present RASTMIN, a single-molecule localization method based on raster scanning a light pattern comprising a minimum of intensity. RASTMIN delivers ~1-2 nm localization precision with usual fluorophores and is easily implementable on a standard confocal microscope with few modifications. We demonstrate the performance of RASTMIN in localization of single molecules and super-resolution imaging of DNA origami structures.
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Affiliation(s)
- Luciano A Masullo
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Buenos Aires, Argentina
- Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Güiraldes 2620, C1428EHA Ciudad Autónoma de Buenos Aires, Buenos Aires, Argentina
| | - Alan M Szalai
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Buenos Aires, Argentina
| | - Lucía F Lopez
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Buenos Aires, Argentina
| | - Mauricio Pilo-Pais
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg, CH-1700, Switzerland
| | - Guillermo P Acuna
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg, CH-1700, Switzerland
| | - Fernando D Stefani
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Buenos Aires, Argentina.
- Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Güiraldes 2620, C1428EHA Ciudad Autónoma de Buenos Aires, Buenos Aires, Argentina.
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15
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Hübner K, Joshi H, Aksimentiev A, Stefani FD, Tinnefeld P, Acuna GP. Determining the In-Plane Orientation and Binding Mode of Single Fluorescent Dyes in DNA Origami Structures. ACS Nano 2021; 15:5109-5117. [PMID: 33660975 DOI: 10.1021/acsnano.0c10259] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
We present a technique to determine the orientation of single fluorophores attached to DNA origami structures based on two measurements. First, the orientation of the absorption transition dipole of the molecule is determined through a polarization-resolved excitation measurement. Second, the orientation of the DNA origami structure is obtained from a DNA-PAINT nanoscopy measurement. Both measurements are performed consecutively on a fluorescence wide-field microscope. We employed this approach to study the orientation of single ATTO 647N, ATTO 643, and Cy5 fluorophores covalently attached to a 2D rectangular DNA origami structure with different nanoenvironments, achieved by changing both the fluorophores' binding position and immediate vicinity. Our results show that when fluorophores are incorporated with additional space, for example, by omitting nucleotides in an elsewise double-stranded environment, they tend to stick to the DNA and to adopt a preferred orientation that depends more on the specific molecular environment than on the fluorophore type. With the aid of all-atom molecular dynamics simulations, we rationalized our observations and provide insight into the fluorophores' probable binding modes. We believe this work constitutes an important step toward manipulating the orientation of single fluorophores in DNA origami structures, which is vital for the development of more efficient and reproducible self-assembled nanophotonic devices.
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Affiliation(s)
- Kristina Hübner
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, Butenandtstr. 5-13 Haus E, 81377 München, Germany
| | - Himanshu Joshi
- Department of Physics, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Aleksei Aksimentiev
- Department of Physics, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Fernando D Stefani
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Argentina
- Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Güiraldes 2620, C1428EHA Ciudad Autónoma de Buenos Aires, Argentina
| | - Philip Tinnefeld
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, Butenandtstr. 5-13 Haus E, 81377 München, Germany
| | - Guillermo P Acuna
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH-1700, Switzerland
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16
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Barella M, Violi IL, Gargiulo J, Martinez LP, Goschin F, Guglielmotti V, Pallarola D, Schlücker S, Pilo-Pais M, Acuna GP, Maier SA, Cortés E, Stefani FD. In Situ Photothermal Response of Single Gold Nanoparticles through Hyperspectral Imaging Anti-Stokes Thermometry. ACS Nano 2021; 15:2458-2467. [PMID: 32941001 DOI: 10.1021/acsnano.0c06185] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
Several fields of applications require a reliable characterization of the photothermal response and heat dissipation of nanoscopic systems, which remains a challenging task for both modeling and experimental measurements. Here, we present an implementation of anti-Stokes thermometry that enables the in situ photothermal characterization of individual nanoparticles (NPs) from a single hyperspectral photoluminescence confocal image. The method is label-free, potentially applicable to any NP with detectable anti-Stokes emission, and does not require any prior information about the NP itself or the surrounding media. With it, we first studied the photothermal response of spherical gold NPs of different sizes on glass substrates, immersed in water, and found that heat dissipation is mainly dominated by the water for NPs larger than 50 nm. Then, the role of the substrate was studied by comparing the photothermal response of 80 nm gold NPs on glass with sapphire and graphene, two materials with high thermal conductivity. For a given irradiance level, the NPs reach temperatures 18% lower on sapphire and 24% higher on graphene than on bare glass. The fact that the presence of a highly conductive material such as graphene leads to a poorer thermal dissipation demonstrates that interfacial thermal resistances play a very significant role in nanoscopic systems and emphasize the need for in situ experimental thermometry techniques. The developed method will allow addressing several open questions about the role of temperature in plasmon-assisted applications, especially ones where NPs of arbitrary shapes are present in complex matrixes and environments.
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Affiliation(s)
- Mariano Barella
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, 1425, CABA Argentina
| | - Ianina L Violi
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, 1425, CABA Argentina
- Instituto de Nanosistemas, UNSAM-CONICET, Avenida 25 de Mayo 1021, San Martín, 1650, Argentina
| | - Julian Gargiulo
- Chair in Hybrid Nanosystems, Nanoinstitute Munich, Faculty of Physics, Ludwig-Maximilians-Universität München, 80799, München, Germany
| | - Luciana P Martinez
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, 1425, CABA Argentina
| | - Florian Goschin
- Chair in Hybrid Nanosystems, Nanoinstitute Munich, Faculty of Physics, Ludwig-Maximilians-Universität München, 80799, München, Germany
| | - Victoria Guglielmotti
- Instituto de Nanosistemas, UNSAM-CONICET, Avenida 25 de Mayo 1021, San Martín, 1650, Argentina
| | - Diego Pallarola
- Instituto de Nanosistemas, UNSAM-CONICET, Avenida 25 de Mayo 1021, San Martín, 1650, Argentina
| | - Sebastian Schlücker
- Physical Chemistry I, Department of Chemistry and Center for Nanointegration Duisburg-Essen (CENIDE), University of Duisburg-Essen, Duisburg-Essen 45141, Germany
| | - Mauricio Pilo-Pais
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH-1700, Switzerland
| | - Guillermo P Acuna
- Department of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH-1700, Switzerland
| | - Stefan A Maier
- Chair in Hybrid Nanosystems, Nanoinstitute Munich, Faculty of Physics, Ludwig-Maximilians-Universität München, 80799, München, Germany
- The Blackett Laboratory, Department of Physics, Imperial College London, London SW72AZ, United Kingdom
| | - Emiliano Cortés
- Chair in Hybrid Nanosystems, Nanoinstitute Munich, Faculty of Physics, Ludwig-Maximilians-Universität München, 80799, München, Germany
| | - Fernando D Stefani
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, 1425, CABA Argentina
- Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Int. Güiraldes 2620, 1428, CABA Argentina
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17
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Trofymchuk K, Glembockyte V, Grabenhorst L, Steiner F, Vietz C, Close C, Pfeiffer M, Richter L, Schütte ML, Selbach F, Yaadav R, Zähringer J, Wei Q, Ozcan A, Lalkens B, Acuna GP, Tinnefeld P. Addressable nanoantennas with cleared hotspots for single-molecule detection on a portable smartphone microscope. Nat Commun 2021; 12:950. [PMID: 33574261 PMCID: PMC7878865 DOI: 10.1038/s41467-021-21238-9] [Citation(s) in RCA: 38] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2020] [Accepted: 01/13/2021] [Indexed: 02/06/2023] Open
Abstract
The advent of highly sensitive photodetectors and the development of photostabilization strategies made detecting the fluorescence of single molecules a routine task in many labs around the world. However, to this day, this process requires cost-intensive optical instruments due to the truly nanoscopic signal of a single emitter. Simplifying single-molecule detection would enable many exciting applications, e.g., in point-of-care diagnostic settings, where costly equipment would be prohibitive. Here, we introduce addressable NanoAntennas with Cleared HOtSpots (NACHOS) that are scaffolded by DNA origami nanostructures and can be specifically tailored for the incorporation of bioassays. Single emitters placed in NACHOS emit up to 461-fold (average of 89 ± 7-fold) brighter enabling their detection with a customary smartphone camera and an 8-US-dollar objective lens. To prove the applicability of our system, we built a portable, battery-powered smartphone microscope and successfully carried out an exemplary single-molecule detection assay for DNA specific to antibiotic-resistant Klebsiella pneumonia on the road. Single-molecule fluorescence currently requires specialized imaging equipment due to the low signal of a single emitter. Here the authors introduce NanoAntennas with Cleared HOtSpots (NACHOS) to boost the signal sufficient for detection of a single emitter by a smartphone, opening the door to point-of-care applications.
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Affiliation(s)
- Kateryna Trofymchuk
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, München, Germany. .,Institute for Physical and Theoretical Chemistry - NanoBioScience and Braunschweig Integrated Centre of Systems Biology (BRICS), Technische Universität Braunschweig, Braunschweig, Germany.
| | - Viktorija Glembockyte
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, München, Germany.
| | - Lennart Grabenhorst
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, München, Germany
| | - Florian Steiner
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, München, Germany
| | - Carolin Vietz
- Institute for Physical and Theoretical Chemistry - NanoBioScience and Braunschweig Integrated Centre of Systems Biology (BRICS), Technische Universität Braunschweig, Braunschweig, Germany
| | - Cindy Close
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, München, Germany
| | - Martina Pfeiffer
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, München, Germany
| | - Lars Richter
- Institute for Physical and Theoretical Chemistry - NanoBioScience and Braunschweig Integrated Centre of Systems Biology (BRICS), Technische Universität Braunschweig, Braunschweig, Germany
| | - Max L Schütte
- Institute for Physical and Theoretical Chemistry - NanoBioScience and Braunschweig Integrated Centre of Systems Biology (BRICS), Technische Universität Braunschweig, Braunschweig, Germany
| | - Florian Selbach
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, München, Germany
| | - Renukka Yaadav
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, München, Germany
| | - Jonas Zähringer
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, München, Germany
| | - Qingshan Wei
- Department of Chemical and Biomolecular Engineering, North Carolina State University, Raleigh, NC, USA
| | - Aydogan Ozcan
- Electrical & Computer Engineering Department, Bioengineering Department, California NanoSystems Institute (CNSI), and Department of Surgery, University of California, Los Angeles, CA, USA
| | - Birka Lalkens
- Institut für Halbleitertechnik, Laboratory for Emerging Nanometrology LENA, TU Braunschweig, Langer Kamp 6a/b, Braunschweig, Germany
| | - Guillermo P Acuna
- Département de Physique - Photonic Nanosystems, Université de Fribourg - Faculté des Sciences et Médicine, Fribourg, Switzerland.
| | - Philip Tinnefeld
- Department of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universität München, München, Germany.
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18
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Maccaferri N, Barbillon G, Koya AN, Lu G, Acuna GP, Garoli D. Recent advances in plasmonic nanocavities for single-molecule spectroscopy. Nanoscale Adv 2021; 3:633-642. [PMID: 36133836 PMCID: PMC9418431 DOI: 10.1039/d0na00715c] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/26/2020] [Accepted: 11/04/2020] [Indexed: 05/12/2023]
Abstract
Plasmonic nanocavities are able to engineer and confine electromagnetic fields to subwavelength volumes. In the past decade, they have enabled a large set of applications, in particular for sensing, optical trapping, and the investigation of physical and chemical phenomena at a few or single-molecule levels. This extreme sensitivity is possible thanks to the highly confined local field intensity enhancement, which depends on the geometry of plasmonic nanocavities. Indeed, suitably designed structures providing engineered local optical fields lead to enhanced optical sensing based on different phenomena such as surface enhanced Raman scattering, fluorescence, and Förster resonance energy transfer. In this mini-review, we illustrate the most recent results on plasmonic nanocavities, with specific emphasis on the detection of single molecules.
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Affiliation(s)
- Nicolò Maccaferri
- Department of Physics and Materials Science, University of Luxembourg 162a avenue de la Faïencerie L-1511 Luxembourg Luxembourg
| | | | | | - Guowei Lu
- State Key Laboratory for Mesoscopic Physics, Collaborative Innovation Center of Quantum Matter, Peking University Beijing 100871 China
| | - Guillermo P Acuna
- Département de Physique - Photonic Nanosystems, Université de Fribourg CH-1700 Fribourg Switzerland
| | - Denis Garoli
- Istituto Italiano di Tecnologia Via Morego 30 16163 Genova Italy
- Faculty of Science and Technology, Free University of Bozen-Bolzano Piazza università 1 39100 Bolzano Italy
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19
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Loretan M, Domljanovic I, Lakatos M, Rüegg C, Acuna GP. DNA Origami as Emerging Technology for the Engineering of Fluorescent and Plasmonic-Based Biosensors. Materials (Basel) 2020; 13:E2185. [PMID: 32397498 PMCID: PMC7254321 DOI: 10.3390/ma13092185] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/07/2020] [Revised: 04/30/2020] [Accepted: 05/05/2020] [Indexed: 12/23/2022]
Abstract
DNA nanotechnology is a powerful and promising tool for the development of nanoscale devices for numerous and diverse applications. One of the greatest potential fields of application for DNA nanotechnology is in biomedicine, in particular biosensing. Thanks to the control over their size, shape, and fabrication, DNA origami represents a unique opportunity to assemble dynamic and complex devices with precise and predictable structural characteristics. Combined with the addressability and flexibility of the chemistry for DNA functionalization, DNA origami allows the precise design of sensors capable of detecting a large range of different targets, encompassing RNA, DNA, proteins, small molecules, or changes in physico-chemical parameters, that could serve as diagnostic tools. Here, we review some recent, salient developments in DNA origami-based sensors centered on optical detection methods (readout) with a special emphasis on the sensitivity, the selectivity, and response time. We also discuss challenges that still need to be addressed before this approach can be translated into robust diagnostic devices for bio-medical applications.
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Affiliation(s)
- Morgane Loretan
- Photonic Nanosystems, Department of Physics, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 3, PER08, 1700 Fribourg, Switzerland; (M.L.); (G.P.A.)
| | - Ivana Domljanovic
- Laboratory of Experimental and Translational Oncology, Department of Oncology, Microbiology and Immunology, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 18, PER17, 1700 Fribourg, Switzerland;
| | - Mathias Lakatos
- Photonic Nanosystems, Department of Physics, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 3, PER08, 1700 Fribourg, Switzerland; (M.L.); (G.P.A.)
| | - Curzio Rüegg
- Laboratory of Experimental and Translational Oncology, Department of Oncology, Microbiology and Immunology, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 18, PER17, 1700 Fribourg, Switzerland;
| | - Guillermo P. Acuna
- Photonic Nanosystems, Department of Physics, Faculty of Science and Medicine, University of Fribourg, Chemin du Musée 3, PER08, 1700 Fribourg, Switzerland; (M.L.); (G.P.A.)
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20
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Hübner K, Pilo-Pais M, Selbach F, Liedl T, Tinnefeld P, Stefani FD, Acuna GP. Directing Single-Molecule Emission with DNA Origami-Assembled Optical Antennas. Nano Lett 2019; 19:6629-6634. [PMID: 31449421 DOI: 10.1021/acs.nanolett.9b02886] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
We demonstrate the capability of DNA self-assembled optical antennas to direct the emission of an individual fluorophore, which is free to rotate. DNA origami is used to fabricate optical antennas composed of two colloidal gold nanoparticles separated by a predefined gap and to place a single Cy5 fluorophore near the gap center. Although the fluorophore is able to rotate, its excitation and far-field emission is mediated by the antenna, with the emission directionality following a dipolar pattern according to the antenna main resonant mode. This work is intended to set out the basis for manipulating the emission pattern of single molecules with self-assembled optical antennas based on colloidal nanoparticles.
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Affiliation(s)
- Kristina Hübner
- Department of Chemistry and Center for NanoScience , Ludwig-Maximilians-Universität München , Butenandtstr. 5-13 Haus E , 81377 München , Germany
| | - Mauricio Pilo-Pais
- Faculty of Physics and Center for NanoScience , Ludwig-Maximilians-Universität München , Geschwister-Scholl-Platz 1 , 80539 München , Germany
- Department of Physics , University of Fribourg , Chemin du Musée 3 , Fribourg CH-1700 , Switzerland
| | - Florian Selbach
- Department of Chemistry and Center for NanoScience , Ludwig-Maximilians-Universität München , Butenandtstr. 5-13 Haus E , 81377 München , Germany
| | - Tim Liedl
- Faculty of Physics and Center for NanoScience , Ludwig-Maximilians-Universität München , Geschwister-Scholl-Platz 1 , 80539 München , Germany
| | - Philip Tinnefeld
- Department of Chemistry and Center for NanoScience , Ludwig-Maximilians-Universität München , Butenandtstr. 5-13 Haus E , 81377 München , Germany
| | - Fernando D Stefani
- Centro de Investigaciones en Bionanociencias (CIBION) , Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET) , Godoy Cruz 2390, C1425FQD, Ciudad Autónoma de Buenos Aires , Argentina
- Departamento de Física, Facultad de Ciencias Exactas y Naturales , Universidad de Buenos Aires , Güiraldes 2620, C1428EHA, Ciudad Autónoma de Buenos Aires , Argentina
| | - Guillermo P Acuna
- Department of Physics , University of Fribourg , Chemin du Musée 3 , Fribourg CH-1700 , Switzerland
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21
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Kaminska I, Bohlen J, Rocchetti S, Selbach F, Acuna GP, Tinnefeld P. Distance Dependence of Single-Molecule Energy Transfer to Graphene Measured with DNA Origami Nanopositioners. Nano Lett 2019; 19:4257-4262. [PMID: 31251640 DOI: 10.1021/acs.nanolett.9b00172] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Despite the thorough investigation of graphene since 2004, altering its surface chemistry and reproducible functionalization remain challenging. This hinders fabrication of more complex hybrid materials with controlled architectures, and as a consequence the development of sensitive and reliable sensors and biological assays. In this contribution, we introduce DNA origami structures as nanopositioners for placing single dye molecules at controlled distances from graphene. The measurements of fluorescence intensity and lifetime of single emitters carried out for distances ranging from 3 to 58 nm confirmed the d-4 dependence of the excitation energy transfer to graphene. Moreover, we determined the characteristic distance for 50% efficiency of the energy transfer from single dyes to graphene to be 17.7 nm. Using pyrene molecules as a glue to immobilize DNA origami nanostructures of various shape on graphene opens new possibilities to develop graphene-based biophysics and biosensing.
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Affiliation(s)
- I Kaminska
- Institute of Physical Chemistry of the Polish Academy of Sciences , 01-224 Warsaw , Poland
| | - J Bohlen
- Department of Chemistry and Center for NanoScience , Ludwig-Maximilians-Universität München , 80539 München , Germany
| | - S Rocchetti
- Department of Chemistry and Center for NanoScience , Ludwig-Maximilians-Universität München , 80539 München , Germany
| | - F Selbach
- Department of Chemistry and Center for NanoScience , Ludwig-Maximilians-Universität München , 80539 München , Germany
| | - G P Acuna
- Department of Physics , Université de Fribourg , Ch. du Musée 3 , CH-1700 Fribourg , Switzerland
| | - P Tinnefeld
- Department of Chemistry and Center for NanoScience , Ludwig-Maximilians-Universität München , 80539 München , Germany
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22
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Bohlen J, Cuartero-González Á, Pibiri E, Ruhlandt D, Fernández-Domínguez AI, Tinnefeld P, Acuna GP. Plasmon-assisted Förster resonance energy transfer at the single-molecule level in the moderate quenching regime. Nanoscale 2019; 11:7674-7681. [PMID: 30946424 DOI: 10.1039/c9nr01204d] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Metallic nanoparticles were shown to affect Förster energy transfer between fluorophore pairs. However, to date, the net plasmonic effect on FRET is still under dispute, with experiments showing efficiency enhancement and reduction. This controversy is due to the challenges involved in the precise positioning of FRET pairs in the near field of a metallic nanostructure, as well as in the accurate characterization of the plasmonic impact on the FRET mechanism. Here, we use the DNA origami technique to place a FRET pair 10 nm away from the surface of gold nanoparticles with sizes ranging from 5 to 20 nm. In this configuration, the fluorophores experience only moderate plasmonic quenching. We use the acceptor bleaching approach to extract the FRET rate constant and efficiency on immobilized single FRET pairs based solely on the donor lifetime. This technique does not require a posteriori correction factors neither a priori knowledge of the acceptor quantum yield, and importantly, it is performed in a single spectral channel. Our results allow us to conclude that, despite the plasmon-assisted Purcell enhancement experienced by donor and acceptor partners, the gold nanoparticles in our samples have a negligible effect on the FRET rate, which in turns yields a reduction of the transfer efficiency.
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Affiliation(s)
- J Bohlen
- Institute for Physical and Theoretical Chemistry - NanoBioScience and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology, Braunschweig, Germany.
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23
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Vietz C, Schütte ML, Wei Q, Richter L, Lalkens B, Ozcan A, Tinnefeld P, Acuna GP. Benchmarking Smartphone Fluorescence-Based Microscopy with DNA Origami Nanobeads: Reducing the Gap toward Single-Molecule Sensitivity. ACS Omega 2019; 4:637-642. [PMID: 30775643 PMCID: PMC6372172 DOI: 10.1021/acsomega.8b03136] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2018] [Accepted: 12/24/2018] [Indexed: 05/18/2023]
Abstract
Smartphone-based fluorescence microscopy has been rapidly developing over the last few years, enabling point-of-need detection of cells, bacteria, viruses, and biomarkers. These mobile microscopy devices are cost-effective, field-portable, and easy to use, and benefit from economies of scale. Recent developments in smartphone camera technology have improved their performance, getting closer to that of lab microscopes. Here, we report the use of DNA origami nanobeads with predefined numbers of fluorophores to quantify the sensitivity of a smartphone-based fluorescence microscope in terms of the minimum number of detectable molecules per diffraction-limited spot. With the brightness of a single dye molecule as a reference, we compare the performance of color and monochrome sensors embedded in state-of-the-art smartphones. Our results show that the monochrome sensor of a smartphone can achieve better sensitivity, with a detection limit of ∼10 fluorophores per spot. The use of DNA origami nanobeads to quantify the minimum number of detectable molecules of a sensor is broadly applicable to evaluate the sensitivity of various optical instruments.
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Affiliation(s)
- Carolin Vietz
- Institute
for Physical & Theoretical Chemistry, Braunschweig Integrated
Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology
(LENA), Braunschweig University of Technology, Rebenring 56, 38106 Braunschweig, Germany
| | - Max L. Schütte
- Institute
for Physical & Theoretical Chemistry, Braunschweig Integrated
Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology
(LENA), Braunschweig University of Technology, Rebenring 56, 38106 Braunschweig, Germany
| | - Qingshan Wei
- Department
of Chemical and Biomolecular Engineering, North Carolina State University, Raleigh, North Carolina 27695, United States
| | - Lars Richter
- Institute
for Physical & Theoretical Chemistry, Braunschweig Integrated
Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology
(LENA), Braunschweig University of Technology, Rebenring 56, 38106 Braunschweig, Germany
| | - Birka Lalkens
- Department
Chemie and Center for NanoScience, Ludwig-Maximilians-Universitaet
Muenchen, Butenandtstr.
5-13 Haus E, 81377 Muenchen, Germany
| | - Aydogan Ozcan
- Electrical
& Computer Engineering Department, Bioengineering Department,
California NanoSystems Institute (CNSI), and Department of Surgery, University of California, Los Angeles, Los Angeles, California 90095, United States
- E-mail: . Tel: +1 310 825 0915 (A.O.)
| | - Philip Tinnefeld
- Department
Chemie and Center for NanoScience, Ludwig-Maximilians-Universitaet
Muenchen, Butenandtstr.
5-13 Haus E, 81377 Muenchen, Germany
- E-mail: . Tel: +49 89 2180 77549. Fax: +49 89 2180 77548 (P.T.)
| | - Guillermo P. Acuna
- Institute
for Physical & Theoretical Chemistry, Braunschweig Integrated
Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology
(LENA), Braunschweig University of Technology, Rebenring 56, 38106 Braunschweig, Germany
- Department
of Physics, University of Fribourg, Chemin du Musée 3, Fribourg CH-1700, Switzerland
- E-mail: . Tel: +41 26 300 9631. Fax: +41 26 300 9030 (G.P.A.)
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24
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Kuzyk A, Jungmann R, Acuna GP, Liu N. DNA Origami Route for Nanophotonics. ACS Photonics 2018; 5:1151-1163. [PMID: 30271812 PMCID: PMC6156112 DOI: 10.1021/acsphotonics.7b01580] [Citation(s) in RCA: 118] [Impact Index Per Article: 19.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2017] [Revised: 02/06/2018] [Accepted: 02/11/2018] [Indexed: 05/21/2023]
Abstract
The specificity and simplicity of the Watson-Crick base pair interactions make DNA one of the most versatile construction materials for creating nanoscale structures and devices. Among several DNA-based approaches, the DNA origami technique excels in programmable self-assembly of complex, arbitrary shaped structures with dimensions of hundreds of nanometers. Importantly, DNA origami can be used as templates for assembly of functional nanoscale components into three-dimensional structures with high precision and controlled stoichiometry. This is often beyond the reach of other nanofabrication techniques. In this Perspective, we highlight the capability of the DNA origami technique for realization of novel nanophotonic systems. First, we introduce the basic principles of designing and fabrication of DNA origami structures. Subsequently, we review recent advances of the DNA origami applications in nanoplasmonics, single-molecule and super-resolution fluorescent imaging, as well as hybrid photonic systems. We conclude by outlining the future prospects of the DNA origami technique for advanced nanophotonic systems with tailored functionalities.
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Affiliation(s)
- Anton Kuzyk
- Max
Planck Institute for Intelligent Systems, Heisenbergstrasse 3, D-70569 Stuttgart, Germany
- Department
of Neuroscience and Biomedical Engineering, Aalto University School of Science, P.O. Box 12200, FI-00076 Aalto, Finland
| | - Ralf Jungmann
- Department
of Physics and Center for Nanoscience, Ludwig
Maximilian University, 80539 Munich, Germany
- Max
Planck Institute of Biochemistry, 82152 Martinsried near Munich, Germany
| | - Guillermo P. Acuna
- Institute
for Physical & Theoretical Chemistry, and Braunschweig Integrated
Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology
(LENA), Braunschweig University of Technology, Rebenring 56, 38106 Braunschweig, Germany
| | - Na Liu
- Max
Planck Institute for Intelligent Systems, Heisenbergstrasse 3, D-70569 Stuttgart, Germany
- Kirchhoff
Institute for Physics, University of Heidelberg, Im Neuenheimer Feld 227, D-69120 Heidelberg, Germany
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25
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Kaminska I, Bohlen J, Mackowski S, Tinnefeld P, Acuna GP. Strong Plasmonic Enhancement of a Single Peridinin-Chlorophyll a-Protein Complex on DNA Origami-Based Optical Antennas. ACS Nano 2018; 12:1650-1655. [PMID: 29353479 DOI: 10.1021/acsnano.7b08233] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
In this contribution, we fabricate hybrid constructs based on a natural light-harvesting complex, peridinin-chlorophyll a-protein, coupled to dimer optical antennas self-assembled with the help of the DNA origami technique. This approach enables controlled positioning of individual complexes at the hotspot of the optical antennas based on large, colloidal gold and silver nanoparticles. Our approach allows us to selectively excite the different pigments present in the harvesting complex, reaching a fluorescence enhancement of 500-fold. This work expands the range of self-assembled functional hybrid constructs for harvesting sunlight and can be further developed for other pigment-proteins and proteins.
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Affiliation(s)
- Izabela Kaminska
- Institute for Physical & Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
- Institute of Physics, Faculty of Physics, Astronomy, and Informatics, Nicolaus Copernicus University , Grudziadzka 5, 87-100 Torun, Poland
| | - Johann Bohlen
- Institute for Physical & Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
- Department Chemie and Center for NanoScience (CeNS), Ludwig-Maximilians-Universitaet Muenchen , Butenandtstr. 5-13 Haus E, 81377 Muenchen, Germany
| | - Sebastian Mackowski
- Institute of Physics, Faculty of Physics, Astronomy, and Informatics, Nicolaus Copernicus University , Grudziadzka 5, 87-100 Torun, Poland
| | - Philip Tinnefeld
- Institute for Physical & Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
- Department Chemie and Center for NanoScience (CeNS), Ludwig-Maximilians-Universitaet Muenchen , Butenandtstr. 5-13 Haus E, 81377 Muenchen, Germany
| | - Guillermo P Acuna
- Institute for Physical & Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
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26
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Abstract
DNA nanotechnology has developed into a state where the design and assembly of complex nanoscale structures has become fast, reliable, cost-effective, and accessible to non-experts. Nanometer-precise positioning of organic (dyes, biomolecules, etc.) and inorganic (metal nanoparticles, colloidal quantum dots, etc.) components on DNA nanostructures is straightforward and modular. In this perspective article, we identify the opportunities and challenges that DNA-assembled devices and materials are facing for optical antennas, metamaterials, and sensing applications. With the abilities of arranging hybrid materials in defined geometries, plasmonic effects will, for example, amplify molecular recognition transduction so that single-molecule events will be measureable with simple devices. On the larger scale, DNA nanotechnology has the potential of breaking the symmetry of common self-assembled functional materials creating pre-defined optical properties such as refractive index tuning, Bragg reflection and topological insulation.
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Affiliation(s)
- Mauricio Pilo-Pais
- Faculty of Physics and Center for Nanoscience, Ludwig-Maximilians-Universität München, 80539, München, Germany
| | - Guillermo P Acuna
- Institute for Physical and Theoretical Chemistry, TU Braunschweig, Braunschweig University of Technology, 38106 Braunschweig, Germany
| | - Philip Tinnefeld
- Department for Chemistry and Center for Nanoscience, Ludwig-Maximilians-Universität München, 81377 München, Germany
| | - Tim Liedl
- Faculty of Physics and Center for Nanoscience, Ludwig-Maximilians-Universität München, 80539, München, Germany
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27
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Ochmann SE, Vietz C, Trofymchuk K, Acuna GP, Lalkens B, Tinnefeld P. Optical Nanoantenna for Single Molecule-Based Detection of Zika Virus Nucleic Acids without Molecular Multiplication. Anal Chem 2017; 89:13000-13007. [DOI: 10.1021/acs.analchem.7b04082] [Citation(s) in RCA: 71] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Sarah E. Ochmann
- Institute
for Physical and Theoretical Chemistry, and Braunschweig Integrated
Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology
(LENA), Braunschweig University of Technology, Rebenring 56, 38106 Braunschweig, Germany
| | - Carolin Vietz
- Institute
for Physical and Theoretical Chemistry, and Braunschweig Integrated
Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology
(LENA), Braunschweig University of Technology, Rebenring 56, 38106 Braunschweig, Germany
| | - Kateryna Trofymchuk
- Institute
for Physical and Theoretical Chemistry, and Braunschweig Integrated
Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology
(LENA), Braunschweig University of Technology, Rebenring 56, 38106 Braunschweig, Germany
| | - Guillermo P. Acuna
- Institute
for Physical and Theoretical Chemistry, and Braunschweig Integrated
Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology
(LENA), Braunschweig University of Technology, Rebenring 56, 38106 Braunschweig, Germany
| | - Birka Lalkens
- Institute
for Physical and Theoretical Chemistry, and Braunschweig Integrated
Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology
(LENA), Braunschweig University of Technology, Rebenring 56, 38106 Braunschweig, Germany
| | - Philip Tinnefeld
- Institute
for Physical and Theoretical Chemistry, and Braunschweig Integrated
Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology
(LENA), Braunschweig University of Technology, Rebenring 56, 38106 Braunschweig, Germany
- Department
of Chemistry and Center for NanoScience, Ludwig-Maximilians-Universitaet Muenchen, Butenandtstrasse 5-13, 81377 Muenchen, Germany
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28
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Vietz C, Lalkens B, Acuna GP, Tinnefeld P. Synergistic Combination of Unquenching and Plasmonic Fluorescence Enhancement in Fluorogenic Nucleic Acid Hybridization Probes. Nano Lett 2017; 17:6496-6500. [PMID: 28956440 DOI: 10.1021/acs.nanolett.7b03844] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
Fluorogenic nucleic acid hybridization probes are widely used for detecting and quantifying nucleic acids. The achieved sensitivity strongly depends on the contrast between a quenched closed form and an unquenched opened form with liberated fluorescence. So far, this contrast was improved by improving the quenching efficiency of the closed form. In this study, we modularly combine these probes with optical antennas used for plasmonic fluorescence enhancement and study the effect of the nanophotonic structure on the fluorescence of the quenched and the opened form. As quenched fluorescent dyes are usually enhanced more by fluorescence enhancement, a detrimental reduction of the contrast between closed and opened form was anticipated. In contrast, we could achieve a surprising increase of the contrast with full additivity of quenching of the dark form and fluorescence enhancement of the bright form. Using single-molecule experiments, we demonstrate that the additivity of the two mechanisms depends on the perfect quenching in the quenched form, and we delineate the rules for new nucleic acid probes for enhanced contrast and absolute brightness. Fluorogenic hybridization probes optimized not only for quenching but also for the brightness of the open form might find application in nucleic acid assays with PCR avoiding detection schemes.
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Affiliation(s)
- Carolin Vietz
- Institute for Physical and Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , Rebenring 56, 38106 Braunschweig, Germany
| | - Birka Lalkens
- Institute for Physical and Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , Rebenring 56, 38106 Braunschweig, Germany
| | - Guillermo P Acuna
- Institute for Physical and Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , Rebenring 56, 38106 Braunschweig, Germany
| | - Philip Tinnefeld
- Institute for Physical and Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , Rebenring 56, 38106 Braunschweig, Germany
- Department of Chemistry, Ludwig-Maximilians-Universitaet Muenchen , Butenandtstr. 5-13, 81377 Muenchen, Germany
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29
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Vietz C, Kaminska I, Sanz Paz M, Tinnefeld P, Acuna GP. Broadband Fluorescence Enhancement with Self-Assembled Silver Nanoparticle Optical Antennas. ACS Nano 2017; 11:4969-4975. [PMID: 28445644 DOI: 10.1021/acsnano.7b01621] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
Plasmonic structures are known to affect the fluorescence properties of dyes placed in close proximity. This effect has been exploited in combination with single-molecule techniques for several applications in the field of biosensing. Among these plasmonic structures, top-down zero-mode waveguides stand out due to their broadband capabilities. In contrast, optical antennas based on gold nanostructures exhibit fluorescence enhancement on a narrow fraction of the visible spectrum typically restricted to the red to near-infrared region. In this contribution, we exploit the DNA origami technique to self-assemble optical antennas based on large (80 nm) silver nanoparticles. We have studied the performance of these antennas with far- and near-field simulations and characterized them experimentally with single-molecule fluorescence measurements. We demonstrate that silver-based optical antennas can yield a fluorescence enhancement of more than 2 orders of magnitude throughout the visible spectral range for high intrinsic quantum yield dyes. Additionally, a comparison between the performance of gold and silver-based antennas is included. The results indicate that silver-based antennas strongly outperform their gold counterparts in the blue and green ranges and exhibit marginal differences in the red range. These characteristics render silver-based optical antennas ready for applications involving several fluorescently labeled species across the visible spectrum.
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Affiliation(s)
- Carolin Vietz
- Institute for Physical and Theoretical Chemistry, Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
| | - Izabela Kaminska
- Institute for Physical and Theoretical Chemistry, Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
- Institute of Physics, Faculty of Physics, Astronomy, and Informatics, Nicolaus Copernicus University , Grudziadzka 5, 87-100 Torun, Poland
| | - Maria Sanz Paz
- Institute for Physical and Theoretical Chemistry, Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
| | - Philip Tinnefeld
- Institute for Physical and Theoretical Chemistry, Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
| | - Guillermo P Acuna
- Institute for Physical and Theoretical Chemistry, Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
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30
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Puchkova A, Vietz C, Pibiri E, Wünsch B, Sanz Paz M, Acuna GP, Tinnefeld P. DNA Origami Nanoantennas with over 5000-fold Fluorescence Enhancement and Single-Molecule Detection at 25 μM. Nano Lett 2015; 15:8354-9. [PMID: 26523768 DOI: 10.1021/acs.nanolett.5b04045] [Citation(s) in RCA: 77] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
Optical nanoantennas are known to focus freely propagating light and reversely to mediate the emission of a light source located at the nanoantenna hotspot. These effects were previously exploited for fluorescence enhancement and single-molecule detection at elevated concentrations. We present a new generation of self-assembled DNA origami based optical nanoantennas with improved robustness, reduced interparticle distance, and optimized quantum-yield improvement to achieve more than 5000-fold fluorescence enhancement and single-molecule detection at 25 μM background fluorophore concentration. Besides outperforming lithographic optical antennas, DNA origami nanoantennas are additionally capable of incorporating single emitters or biomolecular assays at the antenna hotspot.
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Affiliation(s)
- Anastasiya Puchkova
- Institute for Physical & Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
| | - Carolin Vietz
- Institute for Physical & Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
| | - Enrico Pibiri
- Institute for Physical & Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
| | - Bettina Wünsch
- Institute for Physical & Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
| | - María Sanz Paz
- Institute for Physical & Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
| | - Guillermo P Acuna
- Institute for Physical & Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
| | - Philip Tinnefeld
- Institute for Physical & Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology (BRICS), and Laboratory for Emerging Nanometrology (LENA), Braunschweig University of Technology , 38106 Braunschweig, Germany
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Pibiri E, Holzmeister P, Lalkens B, Acuna GP, Tinnefeld P. Single-molecule positioning in zeromode waveguides by DNA origami nanoadapters. Nano Lett 2014; 14:3499-503. [PMID: 24773477 DOI: 10.1021/nl501064b] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Nanotechnology is challenged by the need to connect top-down produced nanostructures with the bottom-up world of chemistry. A nanobiotechnological prime example is the positioning of single polymerase molecules in small holes in metal films, so-called zeromode waveguides (ZMWs), which is required for single-molecule real-time DNA sequencing. In this work, we present nanoadapters made of DNA (DNA origami) that match the size of the holes so that exactly one nanoadapter fits in each hole. By site-selective functionalization of the DNA origami nanoadapters, we placed single dye molecules in the ZMWs, thus optimizing the hole usage and improving the photophysical properties of dyes compared to stochastically immobilized molecules.
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Affiliation(s)
- Enrico Pibiri
- NanoBioSciences Group, Institute for Physical and Theoretical Chemistry Braunschweig , Hans-Sommer-Strasse 10, 38106 Braunschweig, Lower Saxony, Germany
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Pellegrotti JV, Acuna GP, Puchkova A, Holzmeister P, Gietl A, Lalkens B, Stefani FD, Tinnefeld P. Controlled reduction of photobleaching in DNA origami-gold nanoparticle hybrids. Nano Lett 2014; 14:2831-2836. [PMID: 24690008 DOI: 10.1021/nl500841n] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
The amount of information obtainable from a fluorescence-based measurement is limited by photobleaching: Irreversible photochemical reactions either render the molecules nonfluorescent or shift their absorption and/or emission spectra outside the working range. Photobleaching is evidenced as a decrease of fluorescence intensity with time, or in the case of single molecule measurements, as an abrupt, single-step interruption of the fluorescence emission that determines the end of the experiment. Reducing photobleaching is central for improving fluorescence (functional) imaging, single molecule tracking, and fluorescence-based biosensors and assays. In this single molecule study, we use DNA self-assembly to produce hybrid nanostructures containing individual fluorophores and gold nanoparticles at a controlled separation distance of 8.5 nm. By changing the nanoparticles' size we are able to systematically increase the mean number of photons emitted by the fluorophores before photobleaching.
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Affiliation(s)
- Jesica V Pellegrotti
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET) , Godoy Cruz 2390, C1425FQD Buenos Aires, Argentina
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Heucke SF, Baumann F, Acuna GP, Severin PMD, Stahl SW, Strackharn M, Stein IH, Altpeter P, Tinnefeld P, Gaub HE. Placing individual molecules in the center of nanoapertures. Nano Lett 2014; 14:391-395. [PMID: 23742166 DOI: 10.1021/nl401517a] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
While nanophotonic devices are unfolding their potential for single-molecule fluorescence studies, metallic quenching and steric hindrance, occurring within these structures, raise the desire for site-specific immobilization of the molecule of interest. Here, we refine the single-molecule cut-and-paste technique by optical superresolution routines to immobilize single fluorescent molecules in the center of nanoapertures. By comparing their fluorescence lifetime and intensity to stochastically immobilized fluorophores, we characterize the electrodynamic environment in these nanoapertures and proof the nanometer precision of our loading method.
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Affiliation(s)
- Stephan F Heucke
- Center for Nanoscience and Department of Physics, University of Munich , Amalienstrasse 54, 80799 Munich, Germany
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Abstract
Over the last decade, single-molecule detection has been successfully utilized in the life sciences and materials science. Yet, single-molecule measurements only yield meaningful results when working in a suitable, narrow concentration range. On the one hand, diffraction limits the minimal size of the observation volume in optical single-molecule measurements and consequently a sample must be adequately diluted so that only one molecule resides within the observation volume. On the other hand, at ultra-low concentrations relevant for sensing, the detection volume has to be increased in order to detect molecules in a reasonable timespan. This in turn results in the loss of an optimal signal-to-noise ratio necessary for single-molecule detection. This review discusses the requirements for effective single-molecule fluorescence applications, reflects on the motivation for the extension of the dynamic concentration range of single-molecule measurements and reviews various approaches that have been introduced recently to solve these issues. For the high-concentration limit, we identify four promising strategies including molecular confinement, optical observation volume reduction, temporal separation of signals and well-conceived experimental designs that specifically circumvent the high concentration limit. The low concentration limit is addressed by increasing the measurement speed, parallelization, signal amplification and preconcentration. The further development of these ideas will expand our possibilities to interrogate research questions with the clarity and precision provided only by the single-molecule approach.
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Affiliation(s)
- Phil Holzmeister
- Braunschweig University of Technology, Institute for Physical & Theoretical Chemistry, Hans-Sommer-Str. 10, 38106 Braunschweig, Germany.
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Acuna GP, Holzmeister P, Möller FM, Beater S, Lalkens B, Tinnefeld P. DNA-templated nanoantennas for single-molecule detection at elevated concentrations. J Biomed Opt 2013; 18:65001. [PMID: 23764748 DOI: 10.1117/1.jbo.18.6.065001] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
The dynamic concentration range is one of the major limitations of single-molecule fluorescence techniques. We show how bottom-up nanoantennas enhance the fluorescence intensity in a reduced hotspot, ready for biological applications. We use self-assembled DNA origami structures as a breadboard where gold nanoparticle (NP) dimers are positioned with nanometer precision. A maximum of almost 100-fold intensity enhancement is obtained using 100-nm gold NPs within a gap of 23 nm between the particles. The results obtained are in good agreement with numerical simulations. Due to the intensity enhancement introduced by the nanoantenna, we are able to perform single-molecule measurements at concentrations as high as 500 nM, which represents an increment of 2 orders of magnitude compared to conventional measurements. The combination of metallic NPs with DNA origami structures with docking points for biological assays paves the way for the development of bottom-up inexpensive enhancement chambers for single-molecule measurements at high concentrations where processes like DNA sequencing occur.
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Affiliation(s)
- Guillermo P Acuna
- Technische Universität Braunschweig, Physical and Theoretical Chemistry—NanoBioScience, Hans-Sommer-Strasse 10, 38106 Braunschweig, Germany.
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Acuna GP, Bucher M, Stein IH, Steinhauer C, Kuzyk A, Holzmeister P, Schreiber R, Moroz A, Stefani FD, Liedl T, Simmel FC, Tinnefeld P. Distance dependence of single-fluorophore quenching by gold nanoparticles studied on DNA origami. ACS Nano 2012; 6:3189-95. [PMID: 22439823 DOI: 10.1021/nn2050483] [Citation(s) in RCA: 175] [Impact Index Per Article: 14.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
We study the distance-dependent quenching of fluorescence due to a metallic nanoparticle in proximity of a fluorophore. In our single-molecule measurements, we achieve excellent control over structure and stoichiometry by using self-assembled DNA structures (DNA origami) as a breadboard where both the fluorophore and the 10 nm metallic nanoparticle are positioned with nanometer precision. The single-molecule spectroscopy method employed here reports on the co-localization of particle and dye, while fluorescence lifetime imaging is used to directly obtain the correlation of intensity and fluorescence lifetime for varying particle to dye distances. Our data can be well explained by exact calculations that include dipole-dipole orientation and distances. Fitting with a more practical model for nanosurface energy transfer yields 10.4 nm as the characteristic distance of 50% energy transfer. The use of DNA nanotechnology together with minimal sample usage by attaching the particles to the DNA origami directly on the microscope coverslip paves the way for more complex experiments exploiting dye-nanoparticle interactions.
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Affiliation(s)
- Guillermo P Acuna
- Physical and Theoretical Chemistry-NanoBioScience, TU Braunschweig, Hans-Sommer-Strasse 10, 38106 Braunschweig, Germany.
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Cordes T, Vogelsang J, Steinhauer C, Stein IH, Forthmann C, Gietl A, Schmied JJ, Acuna GP, Laurien S, Lalkens B, Tinnefeld P. Far-Field Nanoscopy with Conventional Fluorophores: Photostability, Photophysics, and Transient Binding. Springer Series on Fluorescence 2012. [DOI: 10.1007/4243_2012_40] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/11/2023]
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