Literature DB >> 29872028

Genome 3D-architecture: Its plasticity in relation to function.

Kundan Sengupta1.   

Abstract

The genome of higher eukaryotes is non-randomly organized in the interphase nucleus. However, notwithstanding the absence of membrane bound sub-compartments, the nucleus coordinates a number of functions largely by organizing chromatin in a non-random but dynamic manner. The plasticity of chromatin structure and function relies on epigenetic modifications as well as its association with nuclear landmarks such as the nuclear envelope, nuclear lamina, nuclear pore complex and nuclear bodies such as the nucleolus among others. In the absence of membrane-bound compartments, cells and the nucleus, in particular, employ phase-separation, which unmixes phases that constrain biochemical reactions in complex non-membranous sub-compartments such as the nucleolus or even the heterochromatin. This review attempts to provide a glimpse into the microcosm of phase-separated nuclear sub-compartments, that regulate nuclear structure- function relationships.

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Year:  2018        PMID: 29872028      PMCID: PMC6076436     

Source DB:  PubMed          Journal:  J Biosci        ISSN: 0250-5991            Impact factor:   1.826


  10 in total

1.  Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions.

Authors:  Lars Guelen; Ludo Pagie; Emilie Brasset; Wouter Meuleman; Marius B Faza; Wendy Talhout; Bert H Eussen; Annelies de Klein; Lodewyk Wessels; Wouter de Laat; Bas van Steensel
Journal:  Nature       Date:  2008-05-07       Impact factor: 49.962

Review 2.  Liquid-liquid phase separation in biology.

Authors:  Anthony A Hyman; Christoph A Weber; Frank Jülicher
Journal:  Annu Rev Cell Dev Biol       Date:  2014       Impact factor: 13.827

Review 3.  Nuclear compartmentalization of DNA repair.

Authors:  Alkmini Kalousi; Evi Soutoglou
Journal:  Curr Opin Genet Dev       Date:  2016-06-05       Impact factor: 5.578

Review 4.  CTCF: an architectural protein bridging genome topology and function.

Authors:  Chin-Tong Ong; Victor G Corces
Journal:  Nat Rev Genet       Date:  2014-03-11       Impact factor: 53.242

5.  Evolutionarily Conserved Principles Predict 3D Chromatin Organization.

Authors:  M Jordan Rowley; Michael H Nichols; Xiaowen Lyu; Masami Ando-Kuri; I Sarahi M Rivera; Karen Hermetz; Ping Wang; Yijun Ruan; Victor G Corces
Journal:  Mol Cell       Date:  2017-08-17       Impact factor: 17.970

6.  Non-coding Transcription Instructs Chromatin Folding and Compartmentalization to Dictate Enhancer-Promoter Communication and T Cell Fate.

Authors:  Takeshi Isoda; Amanda J Moore; Zhaoren He; Vivek Chandra; Masatoshi Aida; Matthew Denholtz; Jan Piet van Hamburg; Kathleen M Fisch; Aaron N Chang; Shawn P Fahl; David L Wiest; Cornelis Murre
Journal:  Cell       Date:  2017-09-21       Impact factor: 41.582

7.  Hi-C 2.0: An optimized Hi-C procedure for high-resolution genome-wide mapping of chromosome conformation.

Authors:  Houda Belaghzal; Job Dekker; Johan H Gibcus
Journal:  Methods       Date:  2017-04-18       Impact factor: 3.608

8.  Enrichment of dynamic chromosomal crosslinks drive phase separation of the nucleolus.

Authors:  Caitlin Hult; David Adalsteinsson; Paula A Vasquez; Josh Lawrimore; Maggie Bennett; Alyssa York; Diana Cook; Elaine Yeh; Mark Gregory Forest; Kerry Bloom
Journal:  Nucleic Acids Res       Date:  2017-11-02       Impact factor: 16.971

9.  Liquid droplet formation by HP1α suggests a role for phase separation in heterochromatin.

Authors:  Adam G Larson; Daniel Elnatan; Madeline M Keenen; Michael J Trnka; Jonathan B Johnston; Alma L Burlingame; David A Agard; Sy Redding; Geeta J Narlikar
Journal:  Nature       Date:  2017-06-21       Impact factor: 49.962

10.  Lamin B2 Modulates Nucleolar Morphology, Dynamics, and Function.

Authors:  Ayantika Sen Gupta; Kundan Sengupta
Journal:  Mol Cell Biol       Date:  2017-11-28       Impact factor: 4.272

  10 in total

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