High-fidelity 3D live-cell nanoscopy through data-driven enhanced super-resolution radial fluctuation

Romain F Laine; Hannah S Heil; Simao Coelho; Jonathon Nixon-Abell; Angélique Jimenez; Theresa Wiesner; Damián Martínez; Tommaso Galgani; Louise Régnier; Aki Stubb; Gautier Follain; Samantha Webster; Jesse Goyette; Aurelien Dauphin; Audrey Salles; Siân Culley; Guillaume Jacquemet; Bassam Hajj; Christophe Leterrier; Ricardo Henriques

doi:10.1038/s41592-023-02057-w

High-fidelity 3D live-cell nanoscopy through data-driven enhanced super-resolution radial fluctuation

Romain F Laine, Hannah S Heil, Simao Coelho, Jonathon Nixon-Abell, Angélique Jimenez, Theresa Wiesner, Damián Martínez, Tommaso Galgani, Louise Régnier, Aki Stubb, Gautier Follain, Samantha Webster, Jesse Goyette, Aurelien Dauphin, Audrey Salles, Siân Culley, Guillaume Jacquemet, Bassam Hajj, Christophe Leterrier, Ricardo Henriques

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Abstract

Live-cell super-resolution microscopy enables the imaging of biological structure dynamics below the diffraction limit. Here we present enhanced super-resolution radial fluctuations (eSRRF), substantially improving image fidelity and resolution compared to the original SRRF method. eSRRF incorporates automated parameter optimization based on the data itself, giving insight into the trade-off between resolution and fidelity. We demonstrate eSRRF across a range of imaging modalities and biological systems. Notably, we extend eSRRF to three dimensions by combining it with multifocus microscopy. This realizes live-cell volumetric super-resolution imaging with an acquisition speed of ~1 volume per second. eSRRF provides an accessible super-resolution approach, maximizing information extraction across varied experimental conditions while minimizing artifacts. Its optimal parameter prediction strategy is generalizable, moving toward unbiased and optimized analyses in super-resolution microscopy.

Original language	English
Pages (from-to)	1949-1956
Number of pages	25
Journal	Nature Methods
Volume	20
DOIs	https://doi.org/10.1038/s41592-023-02057-w
Publication status	Published - Dec 2023
MoE publication type	A1 Journal article-refereed

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10.1038/s41592-023-02057-w

s41592-023-02057-w (1)Final published version, 9.35 MBLicence: CC BY

https://urn.fi/URN:NBN:fi-fe20231213153738

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Laine, R. F., Heil, H. S., Coelho, S., Nixon-Abell, J., Jimenez, A., Wiesner, T., Martínez, D., Galgani, T., Régnier, L., Stubb, A., Follain, G., Webster, S., Goyette, J., Dauphin, A., Salles, A., Culley, S., Jacquemet, G., Hajj, B., Leterrier, C., & Henriques, R. (2023). High-fidelity 3D live-cell nanoscopy through data-driven enhanced super-resolution radial fluctuation. Nature Methods, 20, 1949-1956. https://doi.org/10.1038/s41592-023-02057-w

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title = "High-fidelity 3D live-cell nanoscopy through data-driven enhanced super-resolution radial fluctuation",

abstract = "Live-cell super-resolution microscopy enables the imaging of biological structure dynamics below the diffraction limit. Here we present enhanced super-resolution radial fluctuations (eSRRF), substantially improving image fidelity and resolution compared to the original SRRF method. eSRRF incorporates automated parameter optimization based on the data itself, giving insight into the trade-off between resolution and fidelity. We demonstrate eSRRF across a range of imaging modalities and biological systems. Notably, we extend eSRRF to three dimensions by combining it with multifocus microscopy. This realizes live-cell volumetric super-resolution imaging with an acquisition speed of ~1 volume per second. eSRRF provides an accessible super-resolution approach, maximizing information extraction across varied experimental conditions while minimizing artifacts. Its optimal parameter prediction strategy is generalizable, moving toward unbiased and optimized analyses in super-resolution microscopy.",

author = "Laine, {Romain F} and Heil, {Hannah S} and Simao Coelho and Jonathon Nixon-Abell and Ang{\'e}lique Jimenez and Theresa Wiesner and Dami{\'a}n Mart{\'i}nez and Tommaso Galgani and Louise R{\'e}gnier and Aki Stubb and Gautier Follain and Samantha Webster and Jesse Goyette and Aurelien Dauphin and Audrey Salles and Si{\^a}n Culley and Guillaume Jacquemet and Bassam Hajj and Christophe Leterrier and Ricardo Henriques",

note = "{\textcopyright} 2023. The Author(s).",

year = "2023",

month = dec,

doi = "10.1038/s41592-023-02057-w",

language = "English",

volume = "20",

pages = "1949--1956",

journal = "Nature Methods",

issn = "1548-7091",

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Laine, RF, Heil, HS, Coelho, S, Nixon-Abell, J, Jimenez, A, Wiesner, T, Martínez, D, Galgani, T, Régnier, L, Stubb, A, Follain, G, Webster, S, Goyette, J, Dauphin, A, Salles, A, Culley, S, Jacquemet, G, Hajj, B, Leterrier, C & Henriques, R 2023, 'High-fidelity 3D live-cell nanoscopy through data-driven enhanced super-resolution radial fluctuation', Nature Methods, vol. 20, pp. 1949-1956. https://doi.org/10.1038/s41592-023-02057-w

TY - JOUR

T1 - High-fidelity 3D live-cell nanoscopy through data-driven enhanced super-resolution radial fluctuation

AU - Laine, Romain F

AU - Heil, Hannah S

AU - Coelho, Simao

AU - Nixon-Abell, Jonathon

AU - Jimenez, Angélique

AU - Wiesner, Theresa

AU - Martínez, Damián

AU - Galgani, Tommaso

AU - Régnier, Louise

AU - Stubb, Aki

AU - Follain, Gautier

AU - Webster, Samantha

AU - Goyette, Jesse

AU - Dauphin, Aurelien

AU - Salles, Audrey

AU - Culley, Siân

AU - Jacquemet, Guillaume

AU - Hajj, Bassam

AU - Leterrier, Christophe

AU - Henriques, Ricardo

PY - 2023/12

Y1 - 2023/12

N2 - Live-cell super-resolution microscopy enables the imaging of biological structure dynamics below the diffraction limit. Here we present enhanced super-resolution radial fluctuations (eSRRF), substantially improving image fidelity and resolution compared to the original SRRF method. eSRRF incorporates automated parameter optimization based on the data itself, giving insight into the trade-off between resolution and fidelity. We demonstrate eSRRF across a range of imaging modalities and biological systems. Notably, we extend eSRRF to three dimensions by combining it with multifocus microscopy. This realizes live-cell volumetric super-resolution imaging with an acquisition speed of ~1 volume per second. eSRRF provides an accessible super-resolution approach, maximizing information extraction across varied experimental conditions while minimizing artifacts. Its optimal parameter prediction strategy is generalizable, moving toward unbiased and optimized analyses in super-resolution microscopy.

AB - Live-cell super-resolution microscopy enables the imaging of biological structure dynamics below the diffraction limit. Here we present enhanced super-resolution radial fluctuations (eSRRF), substantially improving image fidelity and resolution compared to the original SRRF method. eSRRF incorporates automated parameter optimization based on the data itself, giving insight into the trade-off between resolution and fidelity. We demonstrate eSRRF across a range of imaging modalities and biological systems. Notably, we extend eSRRF to three dimensions by combining it with multifocus microscopy. This realizes live-cell volumetric super-resolution imaging with an acquisition speed of ~1 volume per second. eSRRF provides an accessible super-resolution approach, maximizing information extraction across varied experimental conditions while minimizing artifacts. Its optimal parameter prediction strategy is generalizable, moving toward unbiased and optimized analyses in super-resolution microscopy.

U2 - 10.1038/s41592-023-02057-w

DO - 10.1038/s41592-023-02057-w

M3 - Article

C2 - 37957430

SN - 1548-7091

VL - 20

SP - 1949

EP - 1956

JO - Nature Methods

JF - Nature Methods

ER -

High-fidelity 3D live-cell nanoscopy through data-driven enhanced super-resolution radial fluctuation

Abstract

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