Literature DB >> 22905954

Nuclear organization and genome function.

Kevin Van Bortle1, Victor G Corces.   

Abstract

Long-range interactions between transcription regulatory elements play an important role in gene activation, epigenetic silencing, and chromatin organization. Transcriptional activation or repression of developmentally regulated genes is often accomplished through tissue-specific chromatin architecture and dynamic localization between active transcription factories and repressive Polycomb bodies. However, the mechanisms underlying the structural organization of chromatin and the coordination of physical interactions are not fully understood. Insulators and Polycomb group proteins form highly conserved multiprotein complexes that mediate functional long-range interactions and have proposed roles in nuclear organization. In this review, we explore recent findings that have broadened our understanding of the function of these proteins and provide an integrative model for the roles of insulators in nuclear organization.

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Year:  2012        PMID: 22905954      PMCID: PMC3717390          DOI: 10.1146/annurev-cellbio-101011-155824

Source DB:  PubMed          Journal:  Annu Rev Cell Dev Biol        ISSN: 1081-0706            Impact factor:   13.827


  156 in total

1.  The fractal globule as a model of chromatin architecture in the cell.

Authors:  Leonid A Mirny
Journal:  Chromosome Res       Date:  2011-01       Impact factor: 5.239

2.  The CTCF insulator protein is posttranslationally modified by SUMO.

Authors:  Melissa J MacPherson; Linda G Beatty; Wenjing Zhou; Minjie Du; Paul D Sadowski
Journal:  Mol Cell Biol       Date:  2008-11-24       Impact factor: 4.272

3.  Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome.

Authors:  Nathaniel D Heintzman; Rhona K Stuart; Gary Hon; Yutao Fu; Christina W Ching; R David Hawkins; Leah O Barrera; Sara Van Calcar; Chunxu Qu; Keith A Ching; Wei Wang; Zhiping Weng; Roland D Green; Gregory E Crawford; Bing Ren
Journal:  Nat Genet       Date:  2007-02-04       Impact factor: 38.330

4.  Polycomb eviction as a new distant enhancer function.

Authors:  Douglas Vernimmen; Magnus D Lynch; Marco De Gobbi; David Garrick; Jacqueline A Sharpe; Jacqueline A Sloane-Stanley; Andrew J H Smith; Douglas R Higgs
Journal:  Genes Dev       Date:  2011-08-01       Impact factor: 11.361

5.  Elements of the Drosophila bithorax complex that mediate repression by Polycomb group products.

Authors:  J Simon; A Chiang; W Bender; M J Shimell; M O'Connor
Journal:  Dev Biol       Date:  1993-07       Impact factor: 3.582

6.  RNAi components are required for nuclear clustering of Polycomb group response elements.

Authors:  Charlotte Grimaud; Frédéric Bantignies; Manika Pal-Bhadra; Pallavi Ghana; Utpal Bhadra; Giacomo Cavalli
Journal:  Cell       Date:  2006-03-10       Impact factor: 41.582

Review 7.  Imprinting a determined state into the chromatin of Drosophila.

Authors:  R Paro
Journal:  Trends Genet       Date:  1990-12       Impact factor: 11.639

8.  Chromatin decondensation and nuclear reorganization of the HoxB locus upon induction of transcription.

Authors:  Séverine Chambeyron; Wendy A Bickmore
Journal:  Genes Dev       Date:  2004-05-15       Impact factor: 11.361

9.  Drosophila CTCF tandemly aligns with other insulator proteins at the borders of H3K27me3 domains.

Authors:  Kevin Van Bortle; Edward Ramos; Naomi Takenaka; Jingping Yang; Jessica E Wahi; Victor G Corces
Journal:  Genome Res       Date:  2012-06-21       Impact factor: 9.043

10.  Genomic binding profiles of functionally distinct RNA polymerase III transcription complexes in human cells.

Authors:  Zarmik Moqtaderi; Jie Wang; Debasish Raha; Robert J White; Michael Snyder; Zhiping Weng; Kevin Struhl
Journal:  Nat Struct Mol Biol       Date:  2010-04-25       Impact factor: 15.369

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  53 in total

1.  ICP8 Filament Formation Is Essential for Replication Compartment Formation during Herpes Simplex Virus Infection.

Authors:  Anthar S Darwish; Lorry M Grady; Ping Bai; Sandra K Weller
Journal:  J Virol       Date:  2015-12-16       Impact factor: 5.103

2.  Messenger RNA is a functional component of a chromatin insulator complex.

Authors:  Leah H Matzat; Ryan K Dale; Elissa P Lei
Journal:  EMBO Rep       Date:  2013-08-06       Impact factor: 8.807

Review 3.  Beyond apoptosis: the mechanism and function of phosphatidylserine asymmetry in the membrane of activating mast cells.

Authors:  Noel M Rysavy; Lori M N Shimoda; Alyssa M Dixon; Mark Speck; Alexander J Stokes; Helen Turner; Eric Y Umemoto
Journal:  Bioarchitecture       Date:  2014

4.  Form and function of topologically associating genomic domains in budding yeast.

Authors:  Umut Eser; Devon Chandler-Brown; Ferhat Ay; Aaron F Straight; Zhijun Duan; William Stafford Noble; Jan M Skotheim
Journal:  Proc Natl Acad Sci U S A       Date:  2017-03-27       Impact factor: 11.205

Review 5.  Epigenetic regulation of epidermal differentiation.

Authors:  Carolina N Perdigoto; Victor J Valdes; Evan S Bardot; Elena Ezhkova
Journal:  Cold Spring Harb Perspect Med       Date:  2014-02-01       Impact factor: 6.915

6.  Spatial Organization of Epigenomes.

Authors:  Jonathan Christopher Dubé; Xue Qing David Wang; Josée Dostie
Journal:  Curr Mol Biol Rep       Date:  2016-02-04

Review 7.  Organization of nuclear architecture during adipocyte differentiation.

Authors:  Nancy L Charó; María I Rodríguez Ceschan; Natalia M Galigniana; Judith Toneatto; Graciela Piwien-Pilipuk
Journal:  Nucleus       Date:  2016-05-03       Impact factor: 4.197

8.  Noncanonical Roles of tRNAs: tRNA Fragments and Beyond.

Authors:  Zhangli Su; Briana Wilson; Pankaj Kumar; Anindya Dutta
Journal:  Annu Rev Genet       Date:  2020-08-25       Impact factor: 16.830

Review 9.  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

Review 10.  Untangling the web: the diverse functions of the PIWI/piRNA pathway.

Authors:  Sneha Ramesh Mani; Celina E Juliano
Journal:  Mol Reprod Dev       Date:  2013-06-27       Impact factor: 2.609

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