A guide to single-particle tracking

F Simon, LE Weiss, S van Teeffelen - Nature Reviews Methods Primers, 2024 - nature.com
Individual proteins and protein complexes undergo various motion types, including free
diffusion, confinement, subdiffusion and directed motion. Different motion behaviours reflect …

Bacterial DNA excision repair pathways

KJ Wozniak, LA Simmons - Nature Reviews Microbiology, 2022 - nature.com
Bacteria are continuously exposed to numerous endogenous and exogenous DNA-
damaging agents. To maintain genome integrity and ensure cell survival, bacteria have …

ATP-driven separation of liquid phase condensates in bacteria

B Guilhas, JC Walter, J Rech, G David, NO Walliser… - Molecular Cell, 2020 - cell.com
Liquid-liquid phase-separated (LLPS) states are key to compartmentalizing components in
the absence of membranes; however, it is unclear whether LLPS condensates are actively …

Single-molecule imaging of LexA degradation in Escherichia coli elucidates regulatory mechanisms and heterogeneity of the SOS response

EC Jones, S Uphoff - Nature microbiology, 2021 - nature.com
The bacterial SOS response represents a paradigm of gene networks controlled by a master
transcriptional regulator. Self-cleavage of the SOS repressor LexA induces a wide range of …

Single-molecule kinetics in living cells

J Elf, I Barkefors - Annual review of biochemistry, 2019 - annualreviews.org
In the past decades, advances in microscopy have made it possible to study the dynamics of
individual biomolecules in vitro and resolve intramolecular kinetics that would otherwise be …

Transient non-specific DNA binding dominates the target search of bacterial DNA-binding proteins

M Stracy, J Schweizer, DJ Sherratt, AN Kapanidis… - Molecular cell, 2021 - cell.com
Despite their diverse biochemical characteristics and functions, all DNA-binding proteins
share the ability to accurately locate their target sites among the vast excess of non-target …

Response mechanisms to acid stress of acid-resistant bacteria and biotechnological applications in the food industry

J Xu, L Guo, N Zhao, X Meng, J Zhang… - Critical Reviews in …, 2023 - Taylor & Francis
Acid-resistant bacteria are more and more widely used in industrial production due to their
unique acid-resistant properties. In order to survive in various acidic environments, acid …

Adaptation delay causes a burst of mutations in bacteria responding to oxidative stress

V Lagage, V Chen, S Uphoff - EMBO reports, 2023 - embopress.org
Understanding the interplay between phenotypic and genetic adaptation is a focus of
evolutionary biology. In bacteria, the oxidative stress response prevents mutagenesis by …

[HTML][HTML] Understanding protein mobility in bacteria by tracking single molecules

AN Kapanidis, S Uphoff, M Stracy - Journal of molecular biology, 2018 - Elsevier
Protein diffusion is crucial for understanding the formation of protein complexes in vivo and
has been the subject of many fluorescence microscopy studies in cells; however, such …

Mechanistic insights into transcription coupled DNA repair

B Pani, E Nudler - Dna Repair, 2017 - Elsevier
Transcription-coupled DNA repair (TCR) acts on lesions in the transcribed strand of active
genes. Helix distorting adducts and other forms of DNA damage often interfere with the …