Links to all our papers may be found on Google Scholar
2025
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The nucleoid of rapidly growing Escherichia coli localizes close to the inner membrane and is organized by transcription, translation, and cell geometry
Christoph Spahn, Stuart Middlemiss, Estibaliz Gómez-de-Mariscal, and 4 more authors
Nature Communications, 2025
2024
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Complement-mediated killing of Escherichia coli by mechanical destabilization of the cell envelope
Georgina Benn, Christian Bortolini, David M Roberts, and 3 more authors
The EMBO Journal, 2024
Complement proteins eliminate Gram-negative bacteria in the blood via the formation of membrane attack complex (MAC) pores in the outer membrane. However, it remains unclear how outer membrane poration leads to inner membrane permeation and cell lysis. Using atomic force microscopy (AFM) on living Escherichia coli (E. coli), we probed MAC-induced changes in the cell envelope and correlated these with subsequent cell death. Initially, bacteria survived despite the formation of hundreds of MACs that were randomly distributed over the cell surface. This was followed by larger-scale disruption of the outer membrane, including propagating defects and fractures, and by an overall swelling and stiffening of the bacterial surface, which precede inner membrane permeation. We conclude that bacterial cell lysis is only an indirect effect of MAC formation; outer membrane poration leads to mechanical destabilization of the cell envelope, reducing its ability to contain the turgor pressure, leading to inner membrane permeation and cell death.
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Molecular motor tug-of-war regulates elongasome cell wall synthesis dynamics in Bacillus subtilis
Stuart Middlemiss, Matthieu Blandenet, David M. Roberts, and 8 more authors
Nature Communications, 2024
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Self-organization of mortal filaments and its role in bacterial division ring formation
Christian Vanhille-Campos, Kevin D. Whitley, Philipp Radler, and 3 more authors
Nature Physics, 2024
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Peptidoglycan synthesis drives a single population of septal cell wall synthases during division in Bacillus subtilis
KD Whitley, J Grimshaw, DM Roberts, and 3 more authors
Nature Microbiology, 2024
2023
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Transertion and cell geometry organize the Escherichia coli nucleoid during rapid growth
Christoph Spahn, Stuart Middlemiss, Estibaliz Gómez-de-Mariscal, and 4 more authors
bioRxiv, 2023
2022
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High-resolution imaging of bacterial spatial organization with vertical cell imaging by nanostructured immobilization (VerCINI)
Kevin D Whitley, Stuart Middlemiss, Calum Jukes, and 2 more authors
Nature Protocols, 2022
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Open microscopy in the life sciences: quo vadis?
Johannes Hohlbein, Benedict Diederich, Barbora Marsikova, and 5 more authors
Nature Methods, 2022
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DeepBacs for multi-task bacterial image analysis using open-source deep learning approaches
Christoph Spahn, Estibaliz Gómez-de-Mariscal, Romain F Laine, and 8 more authors
Communications Biology, 2022
2021
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FtsZ treadmilling is essential for Z-ring condensation and septal constriction initiation in Bacillus subtilis cell division
Kevin D Whitley, Calum Jukes, Nicholas Tregidgo, and 6 more authors
Nature communications, 2021
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Democratising deep learning for microscopy with ZeroCostDL4Mic
Lucas Chamier, Romain F Laine, Johanna Jukkala, and 8 more authors
Nature communications, 2021
2020
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Geometric principles underlying the proliferation of a model cell system
Ling Juan Wu, Seoungjun Lee, Sungshic Park, and 4 more authors
Nature communications, 2020
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Virtual-SMLM, a virtual environment for real-time interactive SMLM acquisition
J Griffié, TA Pham, C Sieben, and 6 more authors
bioRxiv, 2020
2019
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Super-resolution fight club: assessment of 2D and 3D single-molecule localization microscopy software
Daniel Sage, Thanh-An Pham, Hazen Babcock, and 8 more authors
Nature methods, 2019
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Movement dynamics of divisome proteins and PBP2x: FtsW in cells of Streptococcus pneumoniae
Amilcar J Perez, Yann Cesbron, Sidney L Shaw, and 8 more authors
Proceedings of the National Academy of Sciences, 2019
2018
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Probing the mechanistic principles of bacterial cell division with super-resolution microscopy
Seamus Holden
Current opinion in microbiology, 2018
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Constriction rate modulation can drive cell size control and homeostasis in C. crescentus
Ambroise Lambert, Aster Vanhecke, Anna Archetti, and 6 more authors
Iscience, 2018
2017
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Treadmilling by FtsZ filaments drives peptidoglycan synthesis and bacterial cell division
Alexandre W Bisson-Filho, Yen-Pang Hsu, Georgia R Squyres, and 8 more authors
Science, 2017
2016
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Super-resolution fight club
Seamus Holden, and Daniel Sage
Nature Photonics, 2016
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Functional dichotomy and distinct nanoscale assemblies of a cell cycle-controlled bipolar zinc-finger regulator
Johann Mignolet, Seamus Holden, Matthieu Berge, and 5 more authors
Elife, 2016
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Modularity and determinants of a (bi-) polarization control system from free-living and obligate intracellular bacteria
Matthieu Berge, Sebastien Campagne, Johann Mignolet, and 5 more authors
Elife, 2016
2015
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PALMsiever: a tool to turn raw data into results for single-molecule localization microscopy
Thomas Pengo, Seamus J Holden, and Suliana Manley
Bioinformatics, 2015
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Correction of a depth-dependent lateral distortion in 3D super-resolution imaging
Lina Carlini, Seamus J Holden, Kyle M Douglass, and 1 more author
PLoS One, 2015
2014
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Photoactivated localization microscopy for cellular imaging
Paulina Achurra, Seamus Holden, Thomas Pengo, and 1 more author
Super-Resolution Microscopy Techniques in the Neurosciences, 2014
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High throughput 3D super-resolution microscopy reveals Caulobacter crescentus in vivo Z-ring organization
Seamus J Holden, Thomas Pengo, Karin L Meibom, and 3 more authors
Proceedings of the National Academy of Sciences, 2014
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FALCON: fast and unbiased reconstruction of high-density super-resolution microscopy data
Junhong Min, Cédric Vonesch, Hagai Kirshner, and 6 more authors
Scientific reports, 2014
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3D high-density localization microscopy using hybrid astigmatic/biplane imaging and sparse image reconstruction
Junhong Min, Seamus J Holden, Lina Carlini, and 3 more authors
Biomedical optics express, 2014
2013
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Multiscale Spatial Organization of RNA Polymerase in Escherichia coli
Ulrike Endesfelder, Kieran Finan, Seamus J Holden, and 3 more authors
Biophysical Journal, 2013
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Optimisation and control of sampling rate in localisation microscopy
S Holden, Thomas Pengo, and Suliana Manley
In 10th International Conference on Sampling Theory and Applications, 2013
2011
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DAOSTORM: an algorithm for high-density super-resolution microscopy
Seamus J Holden, Stephan Uphoff, and Achillefs N Kapanidis
Nature Methods, 2011
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Identifying molecular dynamics in single-molecule FRET experiments with burst variance analysis
Joseph P Torella, Seamus J Holden, Yusdi Santoso, and 2 more authors
Biophysical journal, 2011
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Improved methods for sub-diffraction-limit single-molecule fluorescence measurements
Seamus J Holden
Oxford University, 2011
2010
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Monitoring multiple distances within a single molecule using switchable FRET
Stephan Uphoff, Seamus J Holden, Ludovic Le Reste, and 4 more authors
Nature Methods, 2010
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Single-Molecule DNA Biosensors for Protein and Ligand Detection
Konstantinos Lymperopoulos, Robert Crawford, Joseph P Torella, and 4 more authors
Angewandte Chemie International Edition, 2010
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Defining the Limits of Single-Molecule FRET Resolution in TIRF Microscopy
Seamus J Holden, Stephan Uphoff, Johannes Hohlbein, and 4 more authors
Biophysical Journal, 2010
2009
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Alternating-Laser Excitation and Pulsed-Interleaved Excitation of Single Molecules
Seamus J Holden, and Achillefs N Kapanidis
Single Particle Tracking and Single Molecule Energy Transfer, 2009
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Single-molecule FRET: methods and biological applications
Ling Chin Hwang, Johannes Hohlbein, Seamus J Holden, and 1 more author
Handbook of single-molecule biophysics, 2009