Literature DB >> 30926914

Genome organization in immune cells: unique challenges.

Timothy M Johanson1,2, Wing Fuk Chan3,4, Christine R Keenan3,4, Rhys S Allan5,6.   

Abstract

Each type of cell in the immune system performs critical functions to protect the body and maintain health. In order to fulfil these roles some immune cells rely on unique processes, including antigen receptor loci recombination, clonal expansion or the contortion of their nuclei. In turn, each of these processes relies on, or poses unique challenges to, a genome organized in three dimensions. Here, we explore the current understanding of the importance of 3D genome organization in the function and development of a healthy immune system.

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Year:  2019        PMID: 30926914     DOI: 10.1038/s41577-019-0155-2

Source DB:  PubMed          Journal:  Nat Rev Immunol        ISSN: 1474-1733            Impact factor:   53.106


  134 in total

Review 1.  Looping versus linking: toward a model for long-distance gene activation.

Authors:  M Bulger; M Groudine
Journal:  Genes Dev       Date:  1999-10-01       Impact factor: 11.361

2.  Looping and interaction between hypersensitive sites in the active beta-globin locus.

Authors:  Bas Tolhuis; Robert Jan Palstra; Erik Splinter; Frank Grosveld; Wouter de Laat
Journal:  Mol Cell       Date:  2002-12       Impact factor: 17.970

3.  Proximity among distant regulatory elements at the beta-globin locus requires GATA-1 and FOG-1.

Authors:  Christopher R Vakoc; Danielle L Letting; Nele Gheldof; Tomoyuki Sawado; M A Bender; Mark Groudine; Mitchell J Weiss; Job Dekker; Gerd A Blobel
Journal:  Mol Cell       Date:  2005-02-04       Impact factor: 17.970

4.  The active spatial organization of the beta-globin locus requires the transcription factor EKLF.

Authors:  Roy Drissen; Robert-Jan Palstra; Nynke Gillemans; Erik Splinter; Frank Grosveld; Sjaak Philipsen; Wouter de Laat
Journal:  Genes Dev       Date:  2004-10-15       Impact factor: 11.361

5.  Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C).

Authors:  Marieke Simonis; Petra Klous; Erik Splinter; Yuri Moshkin; Rob Willemsen; Elzo de Wit; Bas van Steensel; Wouter de Laat
Journal:  Nat Genet       Date:  2006-10-08       Impact factor: 38.330

6.  Capturing chromosome conformation.

Authors:  Job Dekker; Karsten Rippe; Martijn Dekker; Nancy Kleckner
Journal:  Science       Date:  2002-02-15       Impact factor: 47.728

7.  Cohesin mediates chromatin interactions that regulate mammalian β-globin expression.

Authors:  Richard Chien; Weihua Zeng; Shimako Kawauchi; M A Bender; Rosaysela Santos; Heather C Gregson; John A Schmiesing; Daniel A Newkirk; Xiangduo Kong; Alexander R Ball; Anne L Calof; Arthur D Lander; Mark T Groudine; Kyoko Yokomori
Journal:  J Biol Chem       Date:  2011-03-29       Impact factor: 5.157

8.  CTCF mediates long-range chromatin looping and local histone modification in the beta-globin locus.

Authors:  Erik Splinter; Helen Heath; Jurgen Kooren; Robert-Jan Palstra; Petra Klous; Frank Grosveld; Niels Galjart; Wouter de Laat
Journal:  Genes Dev       Date:  2006-09-01       Impact factor: 11.361

9.  The beta-globin nuclear compartment in development and erythroid differentiation.

Authors:  Robert-Jan Palstra; Bas Tolhuis; Erik Splinter; Rian Nijmeijer; Frank Grosveld; Wouter de Laat
Journal:  Nat Genet       Date:  2003-09-21       Impact factor: 38.330

10.  A positive role for NLI/Ldb1 in long-range beta-globin locus control region function.

Authors:  Sang-Hyun Song; Chunhui Hou; Ann Dean
Journal:  Mol Cell       Date:  2007-12-14       Impact factor: 17.970

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  13 in total

1.  Polycomb repressive complex 2 is a critical mediator of allergic inflammation.

Authors:  Christine R Keenan; Nadia Iannarella; Alexandra L Garnham; Alexandra C Brown; Richard Y Kim; Jay C Horvat; Philip M Hansbro; Stephen L Nutt; Rhys S Allan
Journal:  JCI Insight       Date:  2019-05-16

2.  Detection of Allele-Specific 3D Chromatin Interactions Using High-Resolution In-Nucleus 4C-seq.

Authors:  Mélanie Miranda; Daan Noordermeer; Benoit Moindrot
Journal:  Methods Mol Biol       Date:  2022

Review 3.  Epigenetic and transcriptional mechanisms for the regulation of IL-10.

Authors:  Huiyuan Zhang; Vijay Kuchroo
Journal:  Semin Immunol       Date:  2019-10-30       Impact factor: 11.130

4.  Chromosomes distribute randomly to, but not within, human neutrophil nuclear lobes.

Authors:  Christine R Keenan; Michael J Mlodzianoski; Hannah D Coughlan; Naiara G Bediaga; Gaetano Naselli; Erin C Lucas; Qike Wang; Carolyn A de Graaf; Douglas J Hilton; Leonard C Harrison; Gordon K Smyth; Kelly L Rogers; Thomas Boudier; Rhys S Allan; Timothy M Johanson
Journal:  iScience       Date:  2021-02-07

5.  A unified atlas of CD8 T cell dysfunctional states in cancer and infection.

Authors:  Yuri Pritykin; Joris van der Veeken; Allison R Pine; Yi Zhong; Merve Sahin; Linas Mazutis; Dana Pe'er; Alexander Y Rudensky; Christina S Leslie
Journal:  Mol Cell       Date:  2021-04-22       Impact factor: 19.328

6.  3D genome organization during lymphocyte development and activation.

Authors:  Anne van Schoonhoven; Danny Huylebroeck; Rudi W Hendriks; Ralph Stadhouders
Journal:  Brief Funct Genomics       Date:  2020-03-23       Impact factor: 4.241

Review 7.  SATB1-mediated chromatin landscape in T cells.

Authors:  Tomas Zelenka; Charalampos Spilianakis
Journal:  Nucleus       Date:  2020-12       Impact factor: 4.197

8.  Dynamics of genome architecture and chromatin function during human B cell differentiation and neoplastic transformation.

Authors:  Roser Vilarrasa-Blasi; Paula Soler-Vila; Núria Verdaguer-Dot; Núria Russiñol; Marco Di Stefano; Vicente Chapaprieta; Guillem Clot; Irene Farabella; Pol Cuscó; Marta Kulis; Xabier Agirre; Felipe Prosper; Renée Beekman; Silvia Beà; Dolors Colomer; Hendrik G Stunnenberg; Ivo Gut; Elias Campo; Marc A Marti-Renom; José Ignacio Martin-Subero
Journal:  Nat Commun       Date:  2021-01-28       Impact factor: 14.919

9.  Pre-mitotic genome re-organisation bookends the B cell differentiation process.

Authors:  Wing Fuk Chan; Hannah D Coughlan; Gordon K Smyth; Timothy M Johanson; Rhys S Allan; Jie H S Zhou; Christine R Keenan; Naiara G Bediaga; Philip D Hodgkin
Journal:  Nat Commun       Date:  2021-02-26       Impact factor: 14.919

Review 10.  Deciphering the Complexity of 3D Chromatin Organization Driving Lymphopoiesis and Lymphoid Malignancies.

Authors:  Laurianne Scourzic; Eralda Salataj; Effie Apostolou
Journal:  Front Immunol       Date:  2021-05-14       Impact factor: 7.561

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