Literature DB >> 32240449

Three-dimensional nuclear organization in Arabidopsis thaliana.

Frédéric Pontvianne1,2, Stefan Grob3.   

Abstract

In recent years, the study of plant three-dimensional nuclear architecture received increasing attention. Enabled by technological advances, our knowledge on nuclear architecture has greatly increased and we can now access large data sets describing its manifold aspects. The principles of nuclear organization in plants do not significantly differ from those in animals. Plant nuclear organization comprises various scales, ranging from gene loops to topologically associating domains to nuclear compartmentalization. However, whether plant three-dimensional chromosomal features also exert similar functions as in animals is less clear. This review discusses recent advances in the fields of three-dimensional chromosome folding and nuclear compartmentalization and describes a novel silencing mechanism, which is closely linked to nuclear architecture.

Entities:  

Keywords:  Arabidopsis; Chromosome conformation capture; Hi-C; Nuclear compartments

Mesh:

Substances:

Year:  2020        PMID: 32240449     DOI: 10.1007/s10265-020-01185-0

Source DB:  PubMed          Journal:  J Plant Res        ISSN: 0918-9440            Impact factor:   2.629


  87 in total

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Authors:  Mario Arteaga-Vazquez; Lyudmila Sidorenko; Fernando A Rabanal; Roli Shrivistava; Kan Nobuta; Pamela J Green; Blake C Meyers; Vicki L Chandler
Journal:  Proc Natl Acad Sci U S A       Date:  2010-06-29       Impact factor: 11.205

Review 2.  FLC or not FLC: the other side of vernalization.

Authors:  Cristina Madeira Alexandre; Lars Hennig
Journal:  J Exp Bot       Date:  2008-04-04       Impact factor: 6.992

3.  Noncoding transcription by alternative RNA polymerases dynamically regulates an auxin-driven chromatin loop.

Authors:  Federico Ariel; Teddy Jegu; David Latrasse; Natali Romero-Barrios; Aurélie Christ; Moussa Benhamed; Martin Crespi
Journal:  Mol Cell       Date:  2014-07-10       Impact factor: 17.970

Review 4.  The impact of chromatin dynamics on plant light responses and circadian clock function.

Authors:  Fredy Barneche; Jordi Malapeira; Paloma Mas
Journal:  J Exp Bot       Date:  2014-02-11       Impact factor: 6.992

5.  A distal CCAAT/NUCLEAR FACTOR Y complex promotes chromatin looping at the FLOWERING LOCUS T promoter and regulates the timing of flowering in Arabidopsis.

Authors:  Shuanghe Cao; Roderick W Kumimoto; Nerina Gnesutta; Alessandra M Calogero; Roberto Mantovani; Ben F Holt
Journal:  Plant Cell       Date:  2014-03-07       Impact factor: 11.277

6.  Organization and function of the 3D genome.

Authors:  Boyan Bonev; Giacomo Cavalli
Journal:  Nat Rev Genet       Date:  2016-10-31       Impact factor: 53.242

7.  Nucleolus-associated telomere clustering and pairing precede meiotic chromosome synapsis in Arabidopsis thaliana.

Authors:  S J Armstrong; F C Franklin; G H Jones
Journal:  J Cell Sci       Date:  2001-12       Impact factor: 5.285

8.  Nonrandom domain organization of the Arabidopsis genome at the nuclear periphery.

Authors:  Xiuli Bi; Ying-Juan Cheng; Bo Hu; Xiaoli Ma; Rui Wu; Jia-Wei Wang; Chang Liu
Journal:  Genome Res       Date:  2017-04-06       Impact factor: 9.043

9.  Self-organization of domain structures by DNA-loop-extruding enzymes.

Authors:  Elnaz Alipour; John F Marko
Journal:  Nucleic Acids Res       Date:  2012-10-15       Impact factor: 16.971

10.  Chromosome-specific NOR inactivation explains selective rRNA gene silencing and dosage control in Arabidopsis.

Authors:  Chinmayi Chandrasekhara; Gireesha Mohannath; Todd Blevins; Frederic Pontvianne; Craig S Pikaard
Journal:  Genes Dev       Date:  2016-01-07       Impact factor: 11.361

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  6 in total

1.  Gene dosage compensation of rRNA transcript levels in Arabidopsis thaliana lines with reduced ribosomal gene copy number.

Authors:  Francesca B Lopez; Antoine Fort; Luca Tadini; Aline V Probst; Marcus McHale; James Friel; Peter Ryder; Fr D Ric Pontvianne; Paolo Pesaresi; Ronan Sulpice; Peter McKeown; Galina Brychkova; Charles Spillane
Journal:  Plant Cell       Date:  2021-05-31       Impact factor: 11.277

2.  Modeling the 3D genome of plants.

Authors:  Marco Di Stefano; Hans-Wilhelm Nützmann
Journal:  Nucleus       Date:  2021-12       Impact factor: 4.197

3.  Large tandem duplications affect gene expression, 3D organization, and plant-pathogen response.

Authors:  Ariadna Picart-Picolo; Stefan Grob; Nathalie Picault; Michal Franek; Christel Llauro; Thierry Halter; Tom R Maier; Edouard Jobet; Julie Descombin; Panpan Zhang; Vijayapalani Paramasivan; Thomas J Baum; Lionel Navarro; Martina Dvořáčková; Marie Mirouze; Frédéric Pontvianne
Journal:  Genome Res       Date:  2020-10-08       Impact factor: 9.043

Review 4.  Plant 3D Chromatin Organization: Important Insights from Chromosome Conformation Capture Analyses of the Last 10 Years.

Authors:  Xinxin Zhang; Tianzuo Wang
Journal:  Plant Cell Physiol       Date:  2021-12-10       Impact factor: 4.927

5.  ANCHOR: A Technical Approach to Monitor Single-Copy Locus Localization in Planta.

Authors:  Anis Meschichi; Mathieu Ingouff; Claire Picart; Marie Mirouze; Sophie Desset; Franck Gallardo; Kerstin Bystricky; Nathalie Picault; Stefanie Rosa; Frédéric Pontvianne
Journal:  Front Plant Sci       Date:  2021-07-06       Impact factor: 5.753

Review 6.  Understanding 3D Genome Organization and Its Effect on Transcriptional Gene Regulation Under Environmental Stress in Plant: A Chromatin Perspective.

Authors:  Suresh Kumar; Simardeep Kaur; Karishma Seem; Santosh Kumar; Trilochan Mohapatra
Journal:  Front Cell Dev Biol       Date:  2021-12-08
  6 in total

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