Cohesin acetylation and Wapl‐Pds5 oppositely regulate translocation of cohesin along <scp>DNA</scp>

Kanke, Mai; Tahara, Eri; Veld, Pim J Huis in 't; Nishiyama, Tomoko

doi:10.15252/embj.201695756

Cited by 122 publications

(156 citation statements)

References 75 publications

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“…14 Biologically, many experiments have revealed similar cohesin movement along DNA that play crucial roles in gene expression. 4,11 Nevertheless, evidences for the molecular-based correlation, either recruitment or movement along DNA, are waiting for further studies.…”

Section: Discussionmentioning

confidence: 99%

Collaborations between CpG sites in DNA methylation

Song

Ren

Lei

2017

Int. J. Mod. Phys. B

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DNA methylation patterns have profound impacts on genome stability, gene expression and development. The molecular base of DNA methylation patterns has long been focused at single CpG sites level. Here, we construct a kinetic model of DNA methylation with collaborations between CpG sites, from which a correlation function was established based on experimental data. The function consists of three parts that suggest three possible sources of the correlation: movement of enzymes along DNA, collaboration between DNA methylation and nucleosome modification, and global enzyme concentrations within a cell. Moreover, the collaboration strength between DNA methylation and nucleosome modification is universal for mouse early embryo cells. The obtained correlation function provides insightful understanding for the mechanisms of inheritance of DNA methylation patterns.

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Section: Discussionmentioning

confidence: 99%

Collaborations between CpG sites in DNA methylation

Song

Ren

Lei

2017

Int. J. Mod. Phys. B

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“…Protein crosslinking experiments at the interfaces of SMC and Scc1 subunits have also suggested that a single cohesin complex tethers replicated sister chromosomes in budding yeast cells [16,17]. In addition, single molecule observations have revealed that purified cohesin binds and diffuses along DNA as a single complex [19,20,50]. Another mechanistic explanation involves protein-protein interactions.…”

Section: Dna-dna Interactions: How To Tethermentioning

confidence: 99%

“…In budding yeast, the loader becomes dispensable for cell viability when inactivated just after, but not before, G1 phase, suggesting that the cohesin loaded onto G1 chromatin is capable of cohesion establishment. Interestingly, recent single molecule observations have suggested that the replication fork can proceed over chromatin-bound cohesin in Xenopus egg extracts [19]. …”

Section: Implications For Sister Chromatid Cohesionmentioning

confidence: 99%

“…This suggests that cohesin’s ATPase has other roles in addition to facilitating DNA loading [83]. However, in contrast to budding yeast condensin, ATP-dependent, unidirectional translocations have not been seen for both the fission yeast and human cohesins [19,20,50]. It should also be noted that the purified budding yeast condensin can tether two intermolecular DNA strands [82].…”

Section: Intrachromosomal Interactions: Another Open Questionmentioning

confidence: 99%

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DNA entry, exit and second DNA capture by cohesin: insights from biochemical experiments

Murayama

2018

Nucleus

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Cohesin is a ring-shaped, multi-subunit ATPase assembly that is fundamental to the spatiotemporal organization of chromosomes. The ring establishes a variety of chromosomal structures including sister chromatid cohesion and chromatin loops. At the core of the ring is a pair of highly conserved SMC (Structural Maintenance of Chromosomes) proteins, which are closed by the flexible kleisin subunit. In common with other essential SMC complexes including condensin and the SMC5-6 complex, cohesin encircles DNA inside its cavity, with the aid of HEAT (Huntingtin, elongation factor 3, protein phosphatase 2A and TOR) repeat auxiliary proteins. Through this topological embrace, cohesin is thought to establish a series of intra- and interchromosomal interactions by tethering more than one DNA molecule. Recent progress in biochemical reconstitution of cohesin provides molecular insights into how this ring complex topologically binds and mediates DNA-DNA interactions. Here, I review these studies and discuss how cohesin mediates such chromosome interactions.

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“…In vivo, another possible important factors affecting diffusivity of epigenetic boundaries may be the presence of insulators and architectural proteins such as CTCF and cohesins [1,44,45]. It would be interesting to adapt our model to account for these features in the future.…”

Section: Long-lived Epigenetic Domains and Boundary Diffusionmentioning

confidence: 99%

Epigenetic Transitions and Knotted Solitons in Stretched Chromatin

Michieletto

Orlandini

Marenduzzo

2017

Preprint

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The spreading and regulation of epigenetic marks on chromosomes is crucial to establish and maintain cellular identity. Nonetheless, the dynamical mechanism leading to the establishment and maintenance of a given, cell-line specific, epigenetic pattern is still poorly understood. In this work we propose, and investigate in silico, a possible experimental strategy to illuminate the interplay between 3D chromatin structure and epigenetic dynamics. We consider a set-up where a reconstituted chromatin fibre is stretched at its two ends (e.g., by laser tweezers), while epigenetic enzymes (writers) and chromatin-binding proteins (readers) are flooded into the system. We show that, by tuning the stretching force and the binding affinity of the readers for chromatin, the fibre undergoes a sharp transition between a stretched, epigenetically disordered, state and a crumpled, epigenetically coherent, one. We further investigate the case in which a knot is tied along the chromatin fibre, and find that the knotted segment enhances local epigenetic order, giving rise to "epigenetic solitons" which travel and diffuse along chromatin. Our results point to an intriguing coupling between 3D chromatin topology and epigenetic dynamics, which may be investigated via single molecule experiments.

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Cohesin acetylation and Wapl‐Pds5 oppositely regulate translocation of cohesin along DNA

Cited by 122 publications

References 75 publications

Collaborations between CpG sites in DNA methylation

Collaborations between CpG sites in DNA methylation

DNA entry, exit and second DNA capture by cohesin: insights from biochemical experiments

Epigenetic Transitions and Knotted Solitons in Stretched Chromatin

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