The bacterial nucleoid: A highly organized and dynamic structure

@article{Thanbichler2005TheBN,
  title={The bacterial nucleoid: A highly organized and dynamic structure},
  author={Martin Thanbichler and Sherry C. Wang and Lucy Shapiro},
  journal={Journal of Cellular Biochemistry},
  year={2005},
  volume={96}
}
Recent advances in bacterial cell biology have revealed unanticipated structural and functional complexity, reminiscent of eukaryotic cells. Particular progress has been made in understanding the structure, replication, and segregation of the bacterial chromosome. It emerged that multiple mechanisms cooperate to establish a dynamic assembly of supercoiled domains, which are stacked in consecutive order to adopt a defined higher‐level organization. The position of genetic loci on the chromosome… 
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References

SHOWING 1-10 OF 173 REFERENCES
The role of nucleoid‐associated proteins in the organization and compaction of bacterial chromatin
  • R. T. Dame
  • Biology, Physics
    Molecular microbiology
  • 2005
TLDR
The bacterial chromosomal DNA is folded into a compact structure called nucleoid, which is determined by a number of factors, which major players are DNA supercoiling, macromolecular crowding and architectural proteins, associated with the nucleoid.
Spatial and temporal organization of replicating Escherichia coli chromosomes
TLDR
It is demonstrated that the replication terminus region is frequently located asymmetrically, on the new pole side of mid‐cell, which could provide a mechanism by which the chromosome segregation protein FtsK, located at the division septum, can act directionally to ensure that the septal region is free of DNA before the completion of cell division.
A moving DNA replication factory in Caulobacter crescentus
TLDR
The in vivo intracellular location of components of the Caulobacter replication apparatus was visualized during the cell cycle, consistent with a model in which unreplicated DNA is pulled into the replication factory and newly replicated DNA is bidirectionally extruded from the complex, perhaps contributing to chromosome segregation.
The role of co‐transcriptional translation and protein translocation (transertion) in bacterial chromosome segregation
TLDR
It is proposed that the random diffusion of DNA supercoil segments is transiently constrained by the process of co‐ transcriptional translation and translocation (transertion) of membrane proteins.
Macrodomain organization of the Escherichia coli chromosome
TLDR
It is observed that DNA interactions were restricted to within subregions of the chromosome, and an organization into a ring composed of four macrodomains and two less‐structured regions was indicated.
The ABCs of SMC proteins: two-armed ATPases for chromosome condensation, cohesion, and repair.
TLDR
The goal of this review article is to discuss the current understanding of higher-order chromosome dynamics with an emphasis on the role of SMC proteins, which are found in most, if not all, bacterial and archaeal species and are believed to have started even before the acquisition of histones during evolution.
MicroReview: Divided genomes: negotiating the cell cycle in prokaryotes with multiple chromosomes
TLDR
The existence of multipartite prokaryotic genomes raises several questions regarding how multiple chromosomes are replicated and segregated during the cell cycle, with particular emphasis on the cholera pathogen Vibrio cholerae.
Dynamic, mitotic-like behavior of a bacterial protein required for accurate chromosome partitioning.
TLDR
It is shown that the Spo0J protein forms discrete stable foci usually located close to the cell poles, which presumably serves to direct the daughter chromosomes toward opposite poles of the cell, ready for division.
...
...