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Nanobody Detection of Standard Fluorescent Proteins Enables Multi-Target DNA-PAINT with High Resolution and Minimal Displacement Errors

DNA point accumulation for imaging in nanoscale topography (PAINT) is a rapidly developing fluorescence super-resolution technique, which allows for reaching spatial resolutions below 10 nm. It also enables the imaging of multiple targets in the same sample. However, using DNA-PAINT to observe cellu...

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Autores principales: Sograte-Idrissi, Shama, Oleksiievets, Nazar, Isbaner, Sebastian, Eggert-Martinez, Mariana, Enderlein, Jörg, Tsukanov, Roman, Opazo, Felipe
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6357156/
https://www.ncbi.nlm.nih.gov/pubmed/30646582
http://dx.doi.org/10.3390/cells8010048
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author Sograte-Idrissi, Shama
Oleksiievets, Nazar
Isbaner, Sebastian
Eggert-Martinez, Mariana
Enderlein, Jörg
Tsukanov, Roman
Opazo, Felipe
author_facet Sograte-Idrissi, Shama
Oleksiievets, Nazar
Isbaner, Sebastian
Eggert-Martinez, Mariana
Enderlein, Jörg
Tsukanov, Roman
Opazo, Felipe
author_sort Sograte-Idrissi, Shama
collection PubMed
description DNA point accumulation for imaging in nanoscale topography (PAINT) is a rapidly developing fluorescence super-resolution technique, which allows for reaching spatial resolutions below 10 nm. It also enables the imaging of multiple targets in the same sample. However, using DNA-PAINT to observe cellular structures at such resolution remains challenging. Antibodies, which are commonly used for this purpose, lead to a displacement between the target protein and the reporting fluorophore of 20–25 nm, thus limiting the resolving power. Here, we used nanobodies to minimize this linkage error to ~4 nm. We demonstrate multiplexed imaging by using three nanobodies, each able to bind to a different family of fluorescent proteins. We couple the nanobodies with single DNA strands via a straight forward and stoichiometric chemical conjugation. Additionally, we built a versatile computer-controlled microfluidic setup to enable multiplexed DNA-PAINT in an efficient manner. As a proof of principle, we labeled and imaged proteins on mitochondria, the Golgi apparatus, and chromatin. We obtained super-resolved images of the three targets with 20 nm resolution, and within only 35 minutes acquisition time.
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spelling pubmed-63571562019-02-06 Nanobody Detection of Standard Fluorescent Proteins Enables Multi-Target DNA-PAINT with High Resolution and Minimal Displacement Errors Sograte-Idrissi, Shama Oleksiievets, Nazar Isbaner, Sebastian Eggert-Martinez, Mariana Enderlein, Jörg Tsukanov, Roman Opazo, Felipe Cells Article DNA point accumulation for imaging in nanoscale topography (PAINT) is a rapidly developing fluorescence super-resolution technique, which allows for reaching spatial resolutions below 10 nm. It also enables the imaging of multiple targets in the same sample. However, using DNA-PAINT to observe cellular structures at such resolution remains challenging. Antibodies, which are commonly used for this purpose, lead to a displacement between the target protein and the reporting fluorophore of 20–25 nm, thus limiting the resolving power. Here, we used nanobodies to minimize this linkage error to ~4 nm. We demonstrate multiplexed imaging by using three nanobodies, each able to bind to a different family of fluorescent proteins. We couple the nanobodies with single DNA strands via a straight forward and stoichiometric chemical conjugation. Additionally, we built a versatile computer-controlled microfluidic setup to enable multiplexed DNA-PAINT in an efficient manner. As a proof of principle, we labeled and imaged proteins on mitochondria, the Golgi apparatus, and chromatin. We obtained super-resolved images of the three targets with 20 nm resolution, and within only 35 minutes acquisition time. MDPI 2019-01-14 /pmc/articles/PMC6357156/ /pubmed/30646582 http://dx.doi.org/10.3390/cells8010048 Text en © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Sograte-Idrissi, Shama
Oleksiievets, Nazar
Isbaner, Sebastian
Eggert-Martinez, Mariana
Enderlein, Jörg
Tsukanov, Roman
Opazo, Felipe
Nanobody Detection of Standard Fluorescent Proteins Enables Multi-Target DNA-PAINT with High Resolution and Minimal Displacement Errors
title Nanobody Detection of Standard Fluorescent Proteins Enables Multi-Target DNA-PAINT with High Resolution and Minimal Displacement Errors
title_full Nanobody Detection of Standard Fluorescent Proteins Enables Multi-Target DNA-PAINT with High Resolution and Minimal Displacement Errors
title_fullStr Nanobody Detection of Standard Fluorescent Proteins Enables Multi-Target DNA-PAINT with High Resolution and Minimal Displacement Errors
title_full_unstemmed Nanobody Detection of Standard Fluorescent Proteins Enables Multi-Target DNA-PAINT with High Resolution and Minimal Displacement Errors
title_short Nanobody Detection of Standard Fluorescent Proteins Enables Multi-Target DNA-PAINT with High Resolution and Minimal Displacement Errors
title_sort nanobody detection of standard fluorescent proteins enables multi-target dna-paint with high resolution and minimal displacement errors
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6357156/
https://www.ncbi.nlm.nih.gov/pubmed/30646582
http://dx.doi.org/10.3390/cells8010048
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