Complex diffusion in bacteria

CH Bohrer, J Xiao - Physical Microbiology, 2020 - Springer
Diffusion within bacteria is often thought of as a “simple” random process by which
molecules collide and interact with each other. New research however shows that this is far …

Cell fate potentials and switching kinetics uncovered in a classic bistable genetic switch

X Fang, Q Liu, C Bohrer, Z Hensel, W Han… - Nature …, 2018 - nature.com
Bistable switches are common gene regulatory motifs directing two mutually exclusive cell
fates. Theoretical studies suggest that bistable switches are sufficient to encode more than …

A pairwise distance distribution correction (DDC) algorithm to eliminate blinking-caused artifacts in SMLM

CH Bohrer, X Yang, S Thakur, X Weng, B Tenner… - Nature …, 2021 - nature.com
Single-molecule localization microscopy (SMLM) relies on the blinking behavior of a
fluorophore, which is the stochastic switching between fluorescent and dark states. Blinking …

Single‐molecule tracking reveals that the nucleoid‐associated protein HU plays a dual role in maintaining proper nucleoid volume through differential interactions …

K Bettridge, S Verma, X Weng, S Adhya… - Molecular …, 2021 - Wiley Online Library
HU (Histone‐like protein from Escherichia coli strain U93) is the most conserved nucleoid‐
associated protein in eubacteria, but how it impacts global chromosome organization is …

Quantifying Dynamic Phenotypic Heterogeneity in Resistant Escherichia coli under Translation‐Inhibiting Antibiotics

H Zhu, Y Xiong, Z Jiang, Q Liu, J Wang - Advanced Science, 2024 - Wiley Online Library
Understanding the phenotypic heterogeneity of antibiotic‐resistant bacteria following
treatment and the transitions between different phenotypes is crucial for developing effective …

Diffusion of DNA-binding species in the nucleus: A transient anomalous subdiffusion model

MJ Saxton - Biophysical journal, 2020 - cell.com
Single-particle tracking experiments have measured escape times of DNA-binding species
diffusing in living cells: CRISPR-Cas9, TetR, and LacI. The observed distribution is a …

[PDF][PDF] A pairwise distance distribution correction (DDC) algorithm for blinking-free super-resolution microscopy

CH Bohrer, X Yang, X Weng, B Tenner, B Ross… - bioRxiv, 2019 - researchgate.net
In single-molecule localization based super-resolution microscopy (SMLM), a fluorophore
stochastically switches between fluorescent-and dark-states, leading to intermittent emission …

Part I: Super-resolution Microscopy Method Development Part II: Investigations of Transcription Regulation by Chromosomal Organization in Bacteria

CH Bohrer - 2020 - jscholarship.library.jhu.edu
Part I: SMLM provides not only high-resolution images of molecular assemblies beyond the
diffraction limit but also enables quantitative analysis of the dynamics and compositions …

Probing The Dynamics of RNA Polymerase and Hu in Live E. coli Cells

KE Bettridge - 2019 - search.proquest.com
Diffusion is at the heart of every biochemical process. Millions of proteins must navigate the
heterogeneous, crowded cellular milieu to perform their various tasks. This molecular …

[PDF][PDF] A Pairwise Distance Distribution Correction (DDC) algorithm

CH Bohrer, X Yang, X Weng, B Tenner, B Ross… - scholar.archive.org
In recent years the development of superresolution fluorescence microscopy has enabled
the probing of 29 macromolecular assemblies in cells with nanometer resolutions. Amongst …