Literature DB >> 26096785

Chromosome domain architecture and dynamic organization of the fission yeast genome.

Takeshi Mizuguchi1, Jemima Barrowman2, Shiv I S Grewal2.   

Abstract

Advanced techniques including the chromosome conformation capture (3C) methodology and its derivatives are complementing microscopy approaches to study genome organization, and are revealing new details of three-dimensional (3D) genome architecture at increasing resolution. The fission yeast Schizosaccharomyces pombe (S. pombe) comprises a small genome featuring organizational elements of more complex eukaryotic systems, including conserved heterochromatin assembly machinery. Here we review key insights into genome organization revealed in this model system through a variety of techniques. We discuss the predominant role of Rabl-like configuration for interphase chromosome organization and the dynamic changes that occur during mitosis and meiosis. High resolution Hi-C studies have also revealed the presence of locally crumpled chromatin regions called "globules" along chromosome arms, and implicated a critical role for pericentromeric heterochromatin in imposing fundamental constraints on the genome to maintain chromosome territoriality and stability. These findings have shed new light on the connections between genome organization and function. It is likely that insights gained from the S. pombe system will also broadly apply to higher eukaryotes. Published by Elsevier B.V.

Entities:  

Keywords:  Cohesin; Fission yeast; Genome organization; Heterochromatin; Hi-C; Rabl

Mesh:

Substances:

Year:  2015        PMID: 26096785      PMCID: PMC4598268          DOI: 10.1016/j.febslet.2015.06.008

Source DB:  PubMed          Journal:  FEBS Lett        ISSN: 0014-5793            Impact factor:   4.124


  185 in total

1.  Telomere-led bouquet formation facilitates homologous chromosome pairing and restricts ectopic interaction in fission yeast meiosis.

Authors:  O Niwa; M Shimanuki; F Miki
Journal:  EMBO J       Date:  2000-07-17       Impact factor: 11.598

2.  Chromosome Conformation Capture Carbon Copy (5C): a massively parallel solution for mapping interactions between genomic elements.

Authors:  Josée Dostie; Todd A Richmond; Ramy A Arnaout; Rebecca R Selzer; William L Lee; Tracey A Honan; Eric D Rubio; Anton Krumm; Justin Lamb; Chad Nusbaum; Roland D Green; Job Dekker
Journal:  Genome Res       Date:  2006-09-05       Impact factor: 9.043

3.  CCCTC-binding factor (CTCF) and cohesin influence the genomic architecture of the Igh locus and antisense transcription in pro-B cells.

Authors:  Stephanie C Degner; Jiyoti Verma-Gaur; Timothy P Wong; Claudia Bossen; G Michael Iverson; Ali Torkamani; Christian Vettermann; Yin C Lin; Zhongliang Ju; Danae Schulz; Caroline S Murre; Barbara K Birshtein; Nicholas J Schork; Mark S Schlissel; Roy Riblet; Cornelis Murre; Ann J Feeney
Journal:  Proc Natl Acad Sci U S A       Date:  2011-05-23       Impact factor: 11.205

4.  Combinatorial, site-specific requirement for heterochromatic silencing factors in the elimination of nucleosome-free regions.

Authors:  Jennifer F Garcia; Phillip A Dumesic; Paul D Hartley; Hana El-Samad; Hiten D Madhani
Journal:  Genes Dev       Date:  2010-07-30       Impact factor: 11.361

5.  A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping.

Authors:  Suhas S P Rao; Miriam H Huntley; Neva C Durand; Elena K Stamenova; Ivan D Bochkov; James T Robinson; Adrian L Sanborn; Ido Machol; Arina D Omer; Eric S Lander; Erez Lieberman Aiden
Journal:  Cell       Date:  2014-12-11       Impact factor: 41.582

6.  Convergent domestication of pogo-like transposases into centromere-binding proteins in fission yeast and mammals.

Authors:  Claudio Casola; Donald Hucks; Cédric Feschotte
Journal:  Mol Biol Evol       Date:  2007-10-16       Impact factor: 16.240

7.  The Clr4 methyltransferase determines the subnuclear localization of the mating-type region in fission yeast.

Authors:  Jenny Alfredsson-Timmins; Frida Henningson; Pernilla Bjerling
Journal:  J Cell Sci       Date:  2007-05-15       Impact factor: 5.285

8.  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

9.  Multifaceted genome control by Set1 Dependent and Independent of H3K4 methylation and the Set1C/COMPASS complex.

Authors:  Irina V Mikheyeva; Patrick J R Grady; Fiona B Tamburini; David R Lorenz; Hugh P Cam
Journal:  PLoS Genet       Date:  2014-10-30       Impact factor: 5.917

10.  Cohesin relocation from sites of chromosomal loading to places of convergent transcription.

Authors:  Armelle Lengronne; Yuki Katou; Saori Mori; Shihori Yokobayashi; Gavin P Kelly; Takehiko Itoh; Yoshinori Watanabe; Katsuhiko Shirahige; Frank Uhlmann
Journal:  Nature       Date:  2004-06-30       Impact factor: 49.962

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  20 in total

Review 1.  Epigenetics and the dynamics of chromatin during adenovirus infections.

Authors:  Kelsey L Lynch; Linda R Gooding; Charlie Garnett-Benson; David A Ornelles; Daphne C Avgousti
Journal:  FEBS Lett       Date:  2019-12-15       Impact factor: 4.124

2.  GrapHi-C: graph-based visualization of Hi-C datasets.

Authors:  Kimberly MacKay; Anthony Kusalik; Christopher H Eskiw
Journal:  BMC Res Notes       Date:  2018-06-29

3.  Vigilin protein Vgl1 is required for heterochromatin-mediated gene silencing in Schizosaccharomyces pombe.

Authors:  Zeenat Farooq; Ehsaan Abdullah; Shahid Banday; Shabir Ahmad Ganai; Romana Rashid; Arjamand Mushtaq; Samia Rashid; Mohammad Altaf
Journal:  J Biol Chem       Date:  2019-09-25       Impact factor: 5.157

4.  Shelterin components mediate genome reorganization in response to replication stress.

Authors:  Takeshi Mizuguchi; Nitika Taneja; Emiko Matsuda; Jon-Matthew Belton; Peter FitzGerald; Job Dekker; Shiv I S Grewal
Journal:  Proc Natl Acad Sci U S A       Date:  2017-05-10       Impact factor: 11.205

Review 5.  A Matter of Scale and Dimensions: Chromatin of Chromosome Landmarks in the Fungi.

Authors:  Allyson A Erlendson; Steven Friedman; Michael Freitag
Journal:  Microbiol Spectr       Date:  2017-07

Review 6.  The Three-Dimensional Organization of Mammalian Genomes.

Authors:  Miao Yu; Bing Ren
Journal:  Annu Rev Cell Dev Biol       Date:  2017-08-07       Impact factor: 13.827

Review 7.  Boundaries of loop domains (insulators): Determinants of chromosome form and function in multicellular eukaryotes.

Authors:  Darya Chetverina; Miki Fujioka; Maksim Erokhin; Pavel Georgiev; James B Jaynes; Paul Schedl
Journal:  Bioessays       Date:  2017-01-30       Impact factor: 4.345

8.  S. pombe placed on the prion map.

Authors:  Jacqueline Hayles
Journal:  Microb Cell       Date:  2017-02-03

9.  Role of Inner Nuclear Membrane Protein Complex Lem2-Nur1 in Heterochromatic Gene Silencing.

Authors:  Shahid Banday; Zeenat Farooq; Romana Rashid; Ehsaan Abdullah; Mohammad Altaf
Journal:  J Biol Chem       Date:  2016-07-22       Impact factor: 5.157

10.  Incorporation of 5-ethynyl-2'-deoxyuridine (EdU) as a novel strategy for identification of the skewed X inactivation pattern in balanced and unbalanced X-rearrangements.

Authors:  Luiza Sisdelli; Angela Cristina Vidi; Mariana Moysés-Oliveira; Adriana Di Battista; Adriana Bortolai; Danilo Moretti-Ferreira; Magnus R Dias da Silva; Maria Isabel Melaragno; Gianna Carvalheira
Journal:  Hum Genet       Date:  2015-12-15       Impact factor: 4.132

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