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Physical descriptions of the bacterial nucleoid at large scales, and their biological implications.

Accepted version
Peer-reviewed

Type

Article

Change log

Authors

Benza, Vincenzo G 
Bassetti, Bruno 
Dorfman, Kevin D 
Scolari, Vittore F 
Bromek, Krystyna 

Abstract

Recent experimental and theoretical approaches have attempted to quantify the physical organization (compaction and geometry) of the bacterial chromosome with its complement of proteins (the nucleoid). The genomic DNA exists in a complex and dynamic protein-rich state, which is highly organized at various length scales. This has implications for modulating (when not directly enabling) the core biological processes of replication, transcription and segregation. We overview the progress in this area, driven in the last few years by new scientific ideas and new interdisciplinary experimental techniques, ranging from high space- and time-resolution microscopy to high-throughput genomics employing sequencing to map different aspects of the nucleoid-related interactome. The aim of this review is to present the wide spectrum of experimental and theoretical findings coherently, from a physics viewpoint. In particular, we highlight the role that statistical and soft condensed matter physics play in describing this system of fundamental biological importance, specifically reviewing classic and more modern tools from the theory of polymers. We also discuss some attempts toward unifying interpretations of the current results, pointing to possible directions for future investigation.

Description

Keywords

Bacterial Proteins, Chromosomes, Bacterial, Computer Simulation, Models, Chemical, Models, Molecular

Journal Title

Rep Prog Phys

Conference Name

Journal ISSN

0034-4885
1361-6633

Volume Title

75

Publisher

IOP Publishing