title: Identification of Nucleolus-Associated Chromatin Domains Reveals a Role for the Nucleolus in 3D Organization of the A. thaliana Genome.
abstract: 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.
authors.affiliation: CNRS, Laboratoire Génome et Développement des Plantes, UMR5096, 66860 Perpignan, France; Université de Perpignan Via Domitia, Laboratoire Génome et Développement des Plantes, UMR5096, 66860 Perpignan, France; Department of Biology and Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, IN 47405, USA. Electronic address: fpontvia@univ-perp.fr.
authors.forename: Frédéric
authors.initials: F
authors.lastname: Pontvianne
authors.affiliation: CNRS, Laboratoire Génome et Développement des Plantes, UMR5096, 66860 Perpignan, France; Université de Perpignan Via Domitia, Laboratoire Génome et Développement des Plantes, UMR5096, 66860 Perpignan, France.
authors.forename: Marie-Christine
authors.initials: MC
authors.lastname: Carpentier
authors.affiliation: CNRS, Laboratoire Génome et Développement des Plantes, UMR5096, 66860 Perpignan, France; Université de Perpignan Via Domitia, Laboratoire Génome et Développement des Plantes, UMR5096, 66860 Perpignan, France.
authors.forename: Nathalie
authors.initials: N
authors.lastname: Durut
authors.affiliation: Central European Institute of Technology and Faculty of Science, Masaryk University, 62500 Brno, Czech Republic.
authors.forename: Veronika
authors.initials: V
authors.lastname: Pavlištová
authors.affiliation: Central European Institute of Technology and Faculty of Science, Masaryk University, 62500 Brno, Czech Republic.
authors.forename: Karin
authors.initials: K
authors.lastname: Jaške
authors.affiliation: Central European Institute of Technology and Faculty of Science, Masaryk University, 62500 Brno, Czech Republic.
authors.forename: Šárka
authors.initials: Š
authors.lastname: Schořová
authors.affiliation: Montpellier GenomiX, Montpellier Cedex 5, France.
authors.forename: Hugues
authors.initials: H
authors.lastname: Parrinello
authors.affiliation: Montpellier GenomiX, Montpellier Cedex 5, France.
authors.forename: Marine
authors.initials: M
authors.lastname: Rohmer
authors.affiliation: Department of Biology and Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, IN 47405, USA; Howard Hughes Medical Institute, Indiana University, Bloomington, IN 47405, USA.
authors.forename: Craig S
authors.initials: CS
authors.lastname: Pikaard
authors.affiliation: Central European Institute of Technology and Faculty of Science, Masaryk University, 62500 Brno, Czech Republic.
authors.forename: Miloslava
authors.initials: M
authors.lastname: Fojtová
authors.affiliation: Central European Institute of Technology and Faculty of Science, Masaryk University, 62500 Brno, Czech Republic.
authors.forename: Jiří
authors.initials: J
authors.lastname: Fajkus
authors.affiliation: CNRS, Laboratoire Génome et Développement des Plantes, UMR5096, 66860 Perpignan, France; Université de Perpignan Via Domitia, Laboratoire Génome et Développement des Plantes, UMR5096, 66860 Perpignan, France.
authors.forename: Julio
authors.initials: J
authors.lastname: Sáez-Vásquez
mesh_terms: D017360:Arabidopsis; D002466:Cell Nucleolus / Q000378:metabolism; D004275:DNA, Ribosomal / Q000235:genetics; D015870:Gene Expression; D018745:Genome, Plant; D006570:Heterochromatin / Q000235:genetics / Q000378:metabolism*; D010750:Phosphoproteins / Q000378:metabolism; D012335:RNA, Ribosomal / Q000378:metabolism*; D016601:RNA-Binding Proteins / Q000378:metabolism; D016615:Telomere / Q000378:metabolism*; D014158:Transcription, Genetic / Q000235:genetics; D000097796:Nucleolin
chemical_list: D004275:DNA, Ribosomal; D006570:Heterochromatin; D010750:Phosphoproteins; D012335:RNA, Ribosomal; D016601:RNA-Binding Proteins; D000097796:Nucleolin
keywords: heterochromatin; nuclear architecture; nucleolus; nucleolus-associated chromatin domains; telomere