The organization of the bacterial genome

EPC Rocha - Annual review of genetics, 2008 - annualreviews.org
Many bacterial cellular processes interact intimately with the chromosome. Such interplay is
the major driving force of genome structure or organization. Interactions take place at …

Entropy as the driver of chromosome segregation

S Jun, A Wright - Nature Reviews Microbiology, 2010 - nature.com
We present a new physical biology approach to understanding the relationship between the
organization and segregation of bacterial chromosomes. We posit that replicated …

Physical manipulation of the Escherichia coli chromosome reveals its soft nature

J Pelletier, K Halvorsen, BY Ha… - Proceedings of the …, 2012 - National Acad Sciences
Replicating bacterial chromosomes continuously demix from each other and segregate
within a compact volume inside the cell called the nucleoid. Although many proteins …

Diffusion within the cytoplasm: a mesoscale model of interacting macromolecules

F Trovato, V Tozzini - Biophysical journal, 2014 - cell.com
Recent experiments carried out in the dense cytoplasm of living cells have highlighted the
importance of proteome composition and nonspecific intermolecular interactions in …

Atomic force microscopy methodology and AFMech Suite software for nanomechanics on heterogeneous soft materials

M Galluzzi, G Tang, CS Biswas, J Zhao, S Chen… - Nature …, 2018 - nature.com
Atomic force microscopy has proven to be a valuable technique to characterize the
mechanical and morphological properties of heterogeneous soft materials such as …

Entropy-based mechanism of ribosome-nucleoid segregation in E. coli cells

J Mondal, BP Bratton, Y Li, A Yethiraj, JC Weisshaar - Biophysical journal, 2011 - cell.com
In Escherichia coli, ribosomes concentrate near the cylindrical wall and at the endcaps,
whereas the chromosomal DNA segregates in the more centrally located nucleoid. A simple …

Polymers under confinement: single polymers, how they interact, and as model chromosomes

BY Ha, Y Jung - Soft Matter, 2015 - pubs.rsc.org
How confinement or a physical constraint modifies polymer chains is not only a classical
problem in polymer physics but also relevant in a variety of contexts such as single-molecule …

Ring polymers as model bacterial chromosomes: confinement, chain topology, single chain statistics, and how they interact

Y Jung, C Jeon, J Kim, H Jeong, S Jun, BY Ha - Soft Matter, 2012 - pubs.rsc.org
Chromosomes in living cells are strongly confined but show a high level of spatial
organization. Similarly, confined polymers display intriguing organizational and …

Escherichia coli and its chromosome

R Reyes-Lamothe, X Wang, D Sherratt - Trends in microbiology, 2008 - cell.com
The Escherichia coli chromosome is a circular DNA molecule that is∼ 1000 times
compacted in the living cell, where it occupies∼ 15% of the cellular volume. The genome is …

A model for Escherichia coli chromosome packaging supports transcription factor-induced DNA domain formation

M Fritsche, S Li, DW Heermann… - Nucleic acids …, 2012 - academic.oup.com
What physical mechanism leads to organization of a highly condensed and confined circular
chromosome? Computational modeling shows that confinement-induced organization is …