Identification of Nucleolus-Associated Chromatin Domains Reveals a Role for the Nucleolus in 3D Organization of the A. thaliana Genome
The nucleolus is the site of rRNA gene transcription, rRNA processing, and ribosome biogenesis. However, the nucleolus also plays additional roles in the cell. We isolated nucleoli using fluorescence-activated cell sorting (FACS) and identified nucleolus-associated chromatin domains (NADs) by deep s...
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doaj-a3b4c32aaf034e87ac41c535bfba579d2020-11-25T00:19:05ZengElsevierCell Reports2211-12472016-08-011661574158710.1016/j.celrep.2016.07.016Identification of Nucleolus-Associated Chromatin Domains Reveals a Role for the Nucleolus in 3D Organization of the A. thaliana GenomeFrédéric Pontvianne0Marie-Christine Carpentier1Nathalie Durut2Veronika Pavlištová3Karin Jaške4Šárka Schořová5Hugues Parrinello6Marine Rohmer7Craig S. Pikaard8Miloslava Fojtová9Jiří Fajkus10Julio Sáez-Vásquez11CNRS, Laboratoire Génome et Développement des Plantes, UMR5096, 66860 Perpignan, FranceCNRS, Laboratoire Génome et Développement des Plantes, UMR5096, 66860 Perpignan, FranceCNRS, Laboratoire Génome et Développement des Plantes, UMR5096, 66860 Perpignan, FranceCentral European Institute of Technology and Faculty of Science, Masaryk University, 62500 Brno, Czech RepublicCentral European Institute of Technology and Faculty of Science, Masaryk University, 62500 Brno, Czech RepublicCentral European Institute of Technology and Faculty of Science, Masaryk University, 62500 Brno, Czech RepublicMontpellier GenomiX, Montpellier Cedex 5, FranceMontpellier GenomiX, Montpellier Cedex 5, FranceDepartment of Biology and Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, IN 47405, USACentral European Institute of Technology and Faculty of Science, Masaryk University, 62500 Brno, Czech RepublicCentral European Institute of Technology and Faculty of Science, Masaryk University, 62500 Brno, Czech RepublicCNRS, Laboratoire Génome et Développement des Plantes, UMR5096, 66860 Perpignan, FranceThe nucleolus is the site of rRNA gene transcription, rRNA processing, and ribosome biogenesis. However, the nucleolus also plays additional roles in the cell. We isolated nucleoli using fluorescence-activated cell sorting (FACS) and identified nucleolus-associated chromatin domains (NADs) by deep sequencing, comparing wild-type plants and null mutants for the nucleolar protein NUCLEOLIN 1 (NUC1). NADs are primarily genomic regions with heterochromatic signatures and include transposable elements (TEs), sub-telomeric regions, and mostly inactive protein-coding genes. However, NADs also include active rRNA genes and the entire short arm of chromosome 4 adjacent to them. In nuc1 null mutants, which alter rRNA gene expression and overall nucleolar structure, NADs are altered, telomere association with the nucleolus is decreased, and telomeres become shorter. Collectively, our studies reveal roles for NUC1 and the nucleolus in the spatial organization of chromosomes as well as telomere maintenance.http://www.sciencedirect.com/science/article/pii/S2211124716309020nucleolusnuclear architecturetelomerenucleolus-associated chromatin domainsheterochromatin |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Frédéric Pontvianne Marie-Christine Carpentier Nathalie Durut Veronika Pavlištová Karin Jaške Šárka Schořová Hugues Parrinello Marine Rohmer Craig S. Pikaard Miloslava Fojtová Jiří Fajkus Julio Sáez-Vásquez |
spellingShingle |
Frédéric Pontvianne Marie-Christine Carpentier Nathalie Durut Veronika Pavlištová Karin Jaške Šárka Schořová Hugues Parrinello Marine Rohmer Craig S. Pikaard Miloslava Fojtová Jiří Fajkus Julio Sáez-Vásquez Identification of Nucleolus-Associated Chromatin Domains Reveals a Role for the Nucleolus in 3D Organization of the A. thaliana Genome Cell Reports nucleolus nuclear architecture telomere nucleolus-associated chromatin domains heterochromatin |
author_facet |
Frédéric Pontvianne Marie-Christine Carpentier Nathalie Durut Veronika Pavlištová Karin Jaške Šárka Schořová Hugues Parrinello Marine Rohmer Craig S. Pikaard Miloslava Fojtová Jiří Fajkus Julio Sáez-Vásquez |
author_sort |
Frédéric Pontvianne |
title |
Identification of Nucleolus-Associated Chromatin Domains Reveals a Role for the Nucleolus in 3D Organization of the A. thaliana Genome |
title_short |
Identification of Nucleolus-Associated Chromatin Domains Reveals a Role for the Nucleolus in 3D Organization of the A. thaliana Genome |
title_full |
Identification of Nucleolus-Associated Chromatin Domains Reveals a Role for the Nucleolus in 3D Organization of the A. thaliana Genome |
title_fullStr |
Identification of Nucleolus-Associated Chromatin Domains Reveals a Role for the Nucleolus in 3D Organization of the A. thaliana Genome |
title_full_unstemmed |
Identification of Nucleolus-Associated Chromatin Domains Reveals a Role for the Nucleolus in 3D Organization of the A. thaliana Genome |
title_sort |
identification of nucleolus-associated chromatin domains reveals a role for the nucleolus in 3d organization of the a. thaliana genome |
publisher |
Elsevier |
series |
Cell Reports |
issn |
2211-1247 |
publishDate |
2016-08-01 |
description |
The nucleolus is the site of rRNA gene transcription, rRNA processing, and ribosome biogenesis. However, the nucleolus also plays additional roles in the cell. We isolated nucleoli using fluorescence-activated cell sorting (FACS) and identified nucleolus-associated chromatin domains (NADs) by deep sequencing, comparing wild-type plants and null mutants for the nucleolar protein NUCLEOLIN 1 (NUC1). NADs are primarily genomic regions with heterochromatic signatures and include transposable elements (TEs), sub-telomeric regions, and mostly inactive protein-coding genes. However, NADs also include active rRNA genes and the entire short arm of chromosome 4 adjacent to them. In nuc1 null mutants, which alter rRNA gene expression and overall nucleolar structure, NADs are altered, telomere association with the nucleolus is decreased, and telomeres become shorter. Collectively, our studies reveal roles for NUC1 and the nucleolus in the spatial organization of chromosomes as well as telomere maintenance. |
topic |
nucleolus nuclear architecture telomere nucleolus-associated chromatin domains heterochromatin |
url |
http://www.sciencedirect.com/science/article/pii/S2211124716309020 |
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