Organization and function of the 3D genome

Nature Reviews Genetics, Journal Year: 2016, Volume and Issue: 17(11), P. 661 - 678

Published: Oct. 14, 2016

Language: Английский

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Super-resolution chromatin tracing reveals domains and cooperative interactions in single cells

Science, Journal Year: 2018, Volume and Issue: 362(6413)

Published: Oct. 26, 2018

The spatial organization of chromatin is pivotal for regulating genome functions. We report an imaging method tracing with kilobase- and nanometer-scale resolution, unveiling conformation across topologically associating domains (TADs) in thousands individual cells. Our data revealed TAD-like structures globular sharp domain boundaries single varied from cell to cell, occurring nonzero probabilities at all genomic positions but preferentially CCCTC-binding factor (CTCF)- cohesin-binding sites. Notably, cohesin depletion, which abolished TADs the population-average level, did not diminish cells eliminated preferential boundary positions. Moreover, we observed widespread, cooperative, multiway interactions, remained after depletion. These results provide critical insight into mechanisms underlying hub formation.

Language: Английский

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3D structures of individual mammalian genomes studied by single-cell Hi-C

Nature, Journal Year: 2017, Volume and Issue: 544(7648), P. 59 - 64

Published: March 13, 2017

Language: Английский

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Chromatin organization by an interplay of loop extrusion and compartmental segregation

Proceedings of the National Academy of Sciences, Journal Year: 2018, Volume and Issue: 115(29)

Published: July 2, 2018

Significance Human DNA is 2 m long and folded into a 10-μm-sized cellular nucleus. Experiments have revealed two major features of genome organization: Segregation alternating active inactive regions compartments, formation compacted local domains. These were hypothesized to be formed by different mechanisms: Compartments can microphase separation domains active, motor-driven, loop extrusion. Here, we integrate these mechanisms polymer model show that their interplay coherently explains diverse experimental data for wild-type mutant cells. Our results provide framework the interpretation chromosome organization in phenotypes highlight chromatin complex, matter shaped an phase segregation

Language: Английский

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CTCF and cohesin regulate chromatin loop stability with distinct dynamics

eLife, Journal Year: 2017, Volume and Issue: 6

Published: May 3, 2017

Folding of mammalian genomes into spatial domains is critical for gene regulation. The insulator protein CTCF and cohesin control domain location by folding loop structures, which are widely thought to be stable. Combining genomic biochemical approaches we show that co-occupy the same sites physically interact as a biochemically stable complex. However, using single-molecule imaging find binds chromatin much more dynamically than (~1–2 min vs. ~22 residence time). Moreover, after unbinding, quickly rebinds another cognate site unlike search process long (~1 ~33 min). Thus, form rapidly exchanging 'dynamic complex' rather typical Since required formation, our results suggest loops dynamic frequently break reform throughout cell cycle.

Language: Английский

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The role of 3D genome organization in development and cell differentiation

Nature Reviews Molecular Cell Biology, Journal Year: 2019, Volume and Issue: 20(9), P. 535 - 550

Published: June 13, 2019

Language: Английский

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The Self-Organizing Genome: Principles of Genome Architecture and Function

Cell, Journal Year: 2020, Volume and Issue: 183(1), P. 28 - 45

Published: Sept. 24, 2020

Language: Английский

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Principles of genome folding into topologically associating domains

Science Advances, Journal Year: 2019, Volume and Issue: 5(4)

Published: April 5, 2019

This review discusses the features of TADs across species, and their role in chromosome organization, genome function, evolution.

Language: Английский

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Genome-Scale Imaging of the 3D Organization and Transcriptional Activity of Chromatin

Cell, Journal Year: 2020, Volume and Issue: 182(6), P. 1641 - 1659.e26

Published: Aug. 20, 2020

Language: Английский

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Transcription factors and 3D genome conformation in cell-fate decisions

Nature, Journal Year: 2019, Volume and Issue: 569(7756), P. 345 - 354

Published: May 15, 2019

Language: Английский

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