Literature DB >> 21327072

Extra views on RNA-dependent DNA methylation and MBD6-dependent heterochromatin formation in nucleolar dominance.

Pedro Costa-Nunes1, Olga Pontes, Sasha B Preuss, Craig S Pikaard.   

Abstract

Nucleolar dominance is a widespread epigenetic phenomenon, describing the preferential silencing of ribosomal RNA (rRNA) genes inherited from one progenitor of an interspecific hybrid, independent of maternal or paternal effects. In the allotetraploid hybrid plant species Arabidopsis suecica, A. thaliana-derived rRNA genes are silenced whereas the A. arenosa-derived rRNA genes are transcribed. We reported previously on an RNAi-based screen of DNA methyltransferases, methylcytosine binding proteins and RNA-dependent DNA methylation pathway proteins that identified specific activities required for the establishment or enforcement of nucleolar dominance. Here we present additional molecular and cell biological evidence that siRNA-directed cytosine methylation and the methylcytosine binding protein MBD6 bring about large-scale chromosomal effects on rRNA gene loci subjected to nucleolar dominance in A. suecica.

Entities:  

Keywords:  Arabidopsis suecica; DNA methylation; heterochromatin; methylcytosine-binding proteins; nucleolar dominance; rRNA; ribosomal RNA; siRNAs

Mesh：

Substances：

Year:  2010        PMID： 21327072      PMCID： PMC3027031          DOI： 10.4161/nucl.1.3.11741

Source DB:  PubMed          Journal:  Nucleus        ISSN： 1949-1034            Impact factor:   4.197


  35 in total

1.  Methyl-CpG-binding protein, MeCP2, is a target molecule for maintenance DNA methyltransferase, Dnmt1.

Authors:  Hiromichi Kimura; Kunio Shiota
Journal:  J Biol Chem       Date:  2002-12-06       Impact factor: 5.157

2.  The structure of NoRC-associated RNA is crucial for targeting the chromatin remodelling complex NoRC to the nucleolus.

Authors:  Christine Mayer; Melanie Neubert; Ingrid Grummt
Journal:  EMBO Rep       Date:  2008-07-04       Impact factor: 8.807

Review 3.  X chromosome dosage compensation: how mammals keep the balance.

Authors:  Bernhard Payer; Jeannie T Lee
Journal:  Annu Rev Genet       Date:  2008       Impact factor: 16.830

Review 4.  Epigenetics of imprinted long noncoding RNAs.

Authors:  Faizaan Mohammad; Tanmoy Mondal; Chandrasekhar Kanduri
Journal:  Epigenetics       Date:  2009-07-10       Impact factor: 4.528

5.  HDA6, a putative histone deacetylase needed to enhance DNA methylation induced by double-stranded RNA.

Authors:  Werner Aufsatz; M Florian Mette; Johannes van der Winden; Marjori Matzke; Antonius J M Matzke
Journal:  EMBO J       Date:  2002-12-16       Impact factor: 11.598

6.  Interphase chromosomes in Arabidopsis are organized as well defined chromocenters from which euchromatin loops emanate.

Authors:  Paul Fransz; J Hans De Jong; Martin Lysak; Monica Ruffini Castiglione; Ingo Schubert
Journal:  Proc Natl Acad Sci U S A       Date:  2002-10-16       Impact factor: 11.205

7.  NoRC--a novel member of mammalian ISWI-containing chromatin remodeling machines.

Authors:  R Strohner; A Nemeth; P Jansa; U Hofmann-Rohrer; R Santoro; G Längst; I Grummt
Journal:  EMBO J       Date:  2001-09-03       Impact factor: 11.598

8.  Role of the arabidopsis DRM methyltransferases in de novo DNA methylation and gene silencing.

Authors:  Xiaofeng Cao; Steven E Jacobsen
Journal:  Curr Biol       Date:  2002-07-09       Impact factor: 10.834

9.  RNA polymerase V functions in Arabidopsis interphase heterochromatin organization independently of the 24-nt siRNA-directed DNA methylation pathway.

Authors:  Olga Pontes; Pedro Costa-Nunes; Paul Vithayathil; Craig S Pikaard
Journal:  Mol Plant       Date:  2009-03-24       Impact factor: 13.164

10.  Multimegabase silencing in nucleolar dominance involves siRNA-directed DNA methylation and specific methylcytosine-binding proteins.

Authors:  Sasha B Preuss; Pedro Costa-Nunes; Sarah Tucker; Olga Pontes; Richard J Lawrence; Rebecca Mosher; Kristin D Kasschau; James C Carrington; David C Baulcombe; Wanda Viegas; Craig S Pikaard
Journal:  Mol Cell       Date:  2008-12-05       Impact factor: 17.970
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  14 in total

Review 1.  The nucleolus.

Authors:  Thoru Pederson
Journal:  Cold Spring Harb Perspect Biol       Date:  2011-03-01       Impact factor: 10.005

Review 2.  Ribosome Biogenesis in Plants: From Functional 45S Ribosomal DNA Organization to Ribosome Assembly Factors.

Authors:  Julio Sáez-Vásquez; Michel Delseny
Journal:  Plant Cell       Date:  2019-06-25       Impact factor: 11.277

3.  AtMBD4: A methylated DNA binding protein negatively regulates a subset of phosphate starvation genes.

Authors:  Adwaita Prasad Parida; Amrapali Sharma; Arun Kumar Sharma
Journal:  J Biosci       Date:  2019-03       Impact factor: 1.826

4.  Arabidopsis MAS2, an Essential Gene That Encodes a Homolog of Animal NF-κ B Activating Protein, Is Involved in 45S Ribosomal DNA Silencing.

Authors:  Ana Belén Sánchez-García; Verónica Aguilera; Rosa Micol-Ponce; Sara Jover-Gil; María Rosa Ponce
Journal:  Plant Cell       Date:  2015-07-02       Impact factor: 11.277

5.  Silenced rRNA genes are activated and substitute for partially eliminated active homeologs in the recently formed allotetraploid, Tragopogon mirus (Asteraceae).

Authors:  E Dobešová; H Malinská; R Matyášek; A R Leitch; D E Soltis; P S Soltis; A Kovařík
Journal:  Heredity (Edinb)       Date:  2014-12-24       Impact factor: 3.821

6.  AtMBD6, a methyl CpG binding domain protein, maintains gene silencing in Arabidopsis by interacting with RNA binding proteins.

Authors:  Adwaita Prasad Parida; Amrapali Sharma; Arun Kumar Sharma
Journal:  J Biosci       Date:  2017-03       Impact factor: 1.826

7.  Epigenetics of the preferential silencing of Brachypodium stacei-originated 35S rDNA loci in the allotetraploid grass Brachypodium hybridum.

Authors:  Natalia Borowska-Zuchowska; Robert Hasterok
Journal:  Sci Rep       Date:  2017-07-13       Impact factor: 4.379

8.  The fate of 35S rRNA genes in the allotetraploid grass Brachypodium hybridum.

Authors:  Natalia Borowska-Zuchowska; Ales Kovarik; Ewa Robaszkiewicz; Metin Tuna; Gulsemin Savas Tuna; Sean Gordon; John P Vogel; Robert Hasterok
Journal:  Plant J       Date:  2020-07-03       Impact factor: 6.417

9.  Genome Sequencing Reveals the Origin of the Allotetraploid Arabidopsis suecica.

Authors:  Polina Yu Novikova; Takashi Tsuchimatsu; Samson Simon; Viktoria Nizhynska; Viktor Voronin; Robin Burns; Olga M Fedorenko; Svante Holm; Torbjörn Säll; Elisa Prat; William Marande; Vincent Castric; Magnus Nordborg
Journal:  Mol Biol Evol       Date:  2017-04-01       Impact factor: 8.800

10.  Ribosomal DNA loci derived from Brachypodium stacei are switched off for major parts of the life cycle of Brachypodium hybridum.

Authors:  Natalia Borowska-Zuchowska; Ewa Robaszkiewicz; Elzbieta Wolny; Alexander Betekhtin; Robert Hasterok
Journal:  J Exp Bot       Date:  2019-02-05       Impact factor: 6.992
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