Literature DB >> 21169003

Transcription and recombination factories: common features?

Joseph S Lucas1, Claudia Bossen, Cornelis Murre.   

Abstract

There is now substantial evidence that the eukaryotic nucleus consists of highly organized structures. Among such structures are transcription factories that consist of an ensemble of genes recruited by the RNA polymerase machinery. Here we suggest that antigen receptor variable regions are similarly organized. Specifically, we propose that the immunoglobulin heavy chain locus variable gene segments are anchored to the base of rosettes, wrapping around a cavity that contains the recombination machinery. We suggest that the folding of the chromatin fiber into rosettes underpins a crucial mechanism by which antigen receptor diversity is generated.
Copyright © 2010 Elsevier Ltd. All rights reserved.

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Year:  2010        PMID: 21169003      PMCID: PMC3070187          DOI: 10.1016/j.ceb.2010.11.007

Source DB:  PubMed          Journal:  Curr Opin Cell Biol        ISSN: 0955-0674            Impact factor:   8.382


  41 in total

Review 1.  Organization of transcription.

Authors:  Lyubomira Chakalova; Peter Fraser
Journal:  Cold Spring Harb Perspect Biol       Date:  2010-07-28       Impact factor: 10.005

2.  Epigenetic regulation of V(D)J recombination.

Authors:  Ann Feeney
Journal:  Semin Immunol       Date:  2010-10-16       Impact factor: 11.130

3.  A direct approach to the structure of eukaryotic chromosomes.

Authors:  J Sedat; L Manuelidis
Journal:  Cold Spring Harb Symp Quant Biol       Date:  1978

4.  Evidence for the organization of chromatin in megabase pair-sized loops arranged along a random walk path in the human G0/G1 interphase nucleus.

Authors:  H Yokota; G van den Engh; J E Hearst; R K Sachs; B J Trask
Journal:  J Cell Biol       Date:  1995-09       Impact factor: 10.539

5.  A random-walk/giant-loop model for interphase chromosomes.

Authors:  R K Sachs; G van den Engh; B Trask; H Yokota; J E Hearst
Journal:  Proc Natl Acad Sci U S A       Date:  1995-03-28       Impact factor: 11.205

Review 6.  Epigenetic control of recombination in the immune system.

Authors:  Yehudit Bergman; Howard Cedar
Journal:  Semin Immunol       Date:  2010-09-15       Impact factor: 11.130

7.  A global network of transcription factors, involving E2A, EBF1 and Foxo1, that orchestrates B cell fate.

Authors:  Yin C Lin; Suchit Jhunjhunwala; Christopher Benner; Sven Heinz; Eva Welinder; Robert Mansson; Mikael Sigvardsson; James Hagman; Celso A Espinoza; Janusz Dutkowski; Trey Ideker; Christopher K Glass; Cornelis Murre
Journal:  Nat Immunol       Date:  2010-06-13       Impact factor: 25.606

8.  Random loop model for long polymers.

Authors:  Manfred Bohn; Dieter W Heermann; Roel van Driel
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2007-11-27

9.  Light optical precision measurements of the active and inactive Prader-Willi syndrome imprinted regions in human cell nuclei.

Authors:  Joachim Rauch; Tobias A Knoch; Irina Solovei; Kathrin Teller; Stefan Stein; Karin Buiting; Bernhard Horsthemke; Jörg Langowski; Thomas Cremer; Michael Hausmann; Christoph Cremer
Journal:  Differentiation       Date:  2007-11-26       Impact factor: 3.880

10.  Chromatin conformation signatures of cellular differentiation.

Authors:  James Fraser; Mathieu Rousseau; Solomon Shenker; Maria A Ferraiuolo; Yoshihide Hayashizaki; Mathieu Blanchette; Josée Dostie
Journal:  Genome Biol       Date:  2009-04-19       Impact factor: 13.583

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  17 in total

1.  Skewed primary Igκ repertoire and V-J joining in C57BL/6 mice: implications for recombination accessibility and receptor editing.

Authors:  Miyo Aoki-Ota; Ali Torkamani; Takayuki Ota; Nicholas Schork; David Nemazee
Journal:  J Immunol       Date:  2012-01-27       Impact factor: 5.422

2.  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

Review 3.  The role of CTCF in regulating V(D)J recombination.

Authors:  Julie Chaumeil; Jane A Skok
Journal:  Curr Opin Immunol       Date:  2012-03-15       Impact factor: 7.486

Review 4.  Epigenetic aspects of lymphocyte antigen receptor gene rearrangement or 'when stochasticity completes randomness'.

Authors:  Sébastien Jaeger; Bastien Fernandez; Pierre Ferrier
Journal:  Immunology       Date:  2013-06       Impact factor: 7.397

5.  YY1 controls Igκ repertoire and B-cell development, and localizes with condensin on the Igκ locus.

Authors:  Xuan Pan; Madhusudhan Papasani; Yi Hao; Marco Calamito; Fang Wei; William J Quinn Iii; Arindam Basu; Junwen Wang; Suchita Hodawadekar; Kristina Zaprazna; Huifei Liu; Yang Shi; David Allman; Michael Cancro; Michael L Atchison
Journal:  EMBO J       Date:  2013-03-26       Impact factor: 11.598

Review 6.  The establishment of B versus T cell identity.

Authors:  Kazuko Miyazaki; Masaki Miyazaki; Cornelis Murre
Journal:  Trends Immunol       Date:  2014-03-26       Impact factor: 16.687

7.  Regulated large-scale nucleosome density patterns and precise nucleosome positioning correlate with V(D)J recombination.

Authors:  Sandhya R Pulivarthy; Mattia Lion; Guray Kuzu; Adam G W Matthews; Mark L Borowsky; John Morris; Robert E Kingston; Jonathan H Dennis; Michael Y Tolstorukov; Marjorie A Oettinger
Journal:  Proc Natl Acad Sci U S A       Date:  2016-10-03       Impact factor: 11.205

8.  3D trajectories adopted by coding and regulatory DNA elements: first-passage times for genomic interactions.

Authors:  Joseph S Lucas; Yaojun Zhang; Olga K Dudko; Cornelis Murre
Journal:  Cell       Date:  2014-07-03       Impact factor: 41.582

9.  Deep sequencing of the murine IgH repertoire reveals complex regulation of nonrandom V gene rearrangement frequencies.

Authors:  Nancy M Choi; Salvatore Loguercio; Jiyoti Verma-Gaur; Stephanie C Degner; Ali Torkamani; Andrew I Su; Eugene M Oltz; Maxim Artyomov; Ann J Feeney
Journal:  J Immunol       Date:  2013-07-29       Impact factor: 5.422

Review 10.  Chromatin architecture, CCCTC-binding factor, and V(D)J recombination: managing long-distance relationships at antigen receptor loci.

Authors:  Han-Yu Shih; Michael S Krangel
Journal:  J Immunol       Date:  2013-05-15       Impact factor: 5.422

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