Access the full text.
Sign up today, get DeepDyve free for 14 days.
Loading next page...
/lp/wiley/hda6-a-putative-histone-deacetylase-needed-to-enhance-dna-methylation-rMireN8FSP
References (64)
-
M. Mette, T. Kanno, W. Aufsatz, Johannes Jakowitsch, J. Winden, M. Matzke, A. Matzke (2002)
Endogenous viral sequences and their potential contribution to heritable virus resistance in plantsThe EMBO Journal, 21
-
J. Murfett, Xiao-jun Wang, G. Hagen, T. Guilfoyle (2001)
Identification of Arabidopsis Histone Deacetylase HDA6 Mutants That Affect Transgene ExpressionPlant Cell, 13
-
B. Ramsahoye, D. Biniszkiewicz, F. Lyko, V. Clark, A. Bird, R. Jaenisch (2000)
Non-CpG methylation is prevalent in embryonic stem cells and may be mediated by DNA methyltransferase 3a.Proceedings of the National Academy of Sciences of the United States of America, 97 10
-
A. Hamilton, O. Voinnet, Louise Chappell, D. Baulcombe (2002)
Two classes of short interfering RNA in RNA silencingThe EMBO Journal, 21
-
E. Finnegan, K. Kovac (2000)
Plant DNA methyltransferasesPlant Molecular Biology, 43
-
N. Kishimoto, H. Sakai, J. Jackson, S. Jacobsen, E. Meyerowitz, E. Dennis, E. Finnegan (2001)
Site specificity of the Arabidopsis METI DNA methyltransferase demonstrated through hypermethylation of the superman locusPlant Molecular Biology, 46
-
Thomas Volpe, C. Kidner, Ira Hall, G. Teng, S. Grewal, R. Martienssen (2002)
Regulation of Heterochromatic Silencing and Histone H3 Lysine-9 Methylation by RNAiScience, 297
-
S. Eddy (2002)
Computational Genomics of Noncoding RNA GenesCell, 109
-
M. Mette, W. Aufsatz, J. Winden, M. Matzke, A. Matzke (2000)
Transcriptional silencing and promoter methylation triggered by double‐stranded RNAThe EMBO Journal, 19
-
S. Clough, A. Bent (1998)
Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana.The Plant journal : for cell and molecular biology, 16 6
-
Z. Chen, M. Schuler, R. Beachy (1986)
Functional analysis of regulatory elements in a plant embryo-specific gene.Proceedings of the National Academy of Sciences of the United States of America, 83 22
-
Xiaofeng Cao, S. Jacobsen (2002)
Role of the Arabidopsis DRM Methyltransferases in De Novo DNA Methylation and Gene SilencingCurrent Biology, 12
-
P. Nacry, C. Camilleri, B. Courtial, M. Caboche, D. Bouchez (1998)
Major chromosomal rearrangements induced by T-DNA transformation in Arabidopsis.Genetics, 149 2
-
L. Tian, Zengjian Chen (2001)
Blocking histone deacetylation in Arabidopsis induces pleiotropic effects on plant gene regulation and development.Proceedings of the National Academy of Sciences of the United States of America, 98 1
-
P. Zamore (2002)
Ancient Pathways Programmed by Small RNAsScience, 296
-
O. Mathieu, J. Bender (2004)
RNA-directed DNA methylationJournal of Cell Science, 117
-
L. Jones, F. Ratcliff, D. Baulcombe (2001)
RNA-directed transcriptional gene silencing in plants can be inherited independently of the RNA trigger and requires Met1 for maintenanceCurrent Biology, 11
-
P. Amedeo, Y. Habu, K. Afsar, O. Scheid, J. Paszkowski (2000)
Disruption of the plant gene MOM releases transcriptional silencing of methylated genesNature, 405
-
Vicki Vance, H. Vaucheret (2001)
RNA Silencing in Plants--Defense and CounterdefenseScience, 292
-
Chen Zj, C. Pikaard (1997)
Epigenetic silencing of RNA polymerase I transcription: a role for DNA methylation and histone modification in nucleolar dominance.Genes & development, 11 16
-
C Llave, K Kasschau, M Rector, J Carrington (2002a)
Endogenous and silencing‐associated small RNAs in plantsPlant Cell, 14
-
M Wassenegger (2000)
RNA‐directed DNA methylationPlant Mol Biol, 43
-
Aurawan Vongs, T. Kakutani, R. Martienssen, E. Richards (1993)
Arabidopsis thaliana DNA methylation mutants.Science, 260 5116
-
W Park, J Li, R Song, J Messing, X Chen (2002)
CARPEL FACTORY, a Dicer homolog and HEN1, a novel protein, act in microRNA metabolismCurr Biol, 12
-
M. Rhoades, B. Reinhart, Lee Lim, C. Burge, B. Bartel, D. Bartel (2002)
Prediction of Plant MicroRNA TargetsCell, 110
-
C. Papa, Nathan Springer, M. Muszynski, R. Meeley, S. Kaeppler (2001)
Maize Chromomethylase Zea methyltransferase2 Is Required for CpNpG MethylationThe Plant Cell Online, 13
-
Wonkeun Park, Junjie Li, R. Song, J. Messing, Xuemei Chen (2002)
CARPEL FACTORY, a Dicer Homolog, and HEN1, a Novel Protein, Act in microRNA Metabolism in Arabidopsis thalianaCurrent Biology, 12
-
MF Mette, J van der Winden, M Matzke, AJM Matzke (2002b)
Short RNAs can identify new candidate transposable element families in plantsPlant Physiol, 130
-
Frans Tax, Daniel Vernon (2001)
T-DNA-associated duplication/translocations in Arabidopsis. Implications for mutant analysis and functional genomics.Plant physiology, 126 4
-
C. Cogoni (2001)
Homology-dependent gene silencing mechanisms in fungi.Annual review of microbiology, 55
-
T. Sijen, I. Vijn, A. Rebocho, R. Blokland, D. Roelofs, J. Mol, J. Kooter (2001)
Transcriptional and posttranscriptional gene silencing are mechanistically relatedCurrent Biology, 11
-
David Kadosh, Kevin Struhl (1998)
Histone deacetylase activity of Rpd3 is important for transcriptional repression in vivo.Genes & development, 12 6
-
M. Mette, J. Winden, M. Matzke, A. Matzke (2002)
Short RNAs Can Identify New Candidate Transposable Element Families in ArabidopsisPlant Physiology, 130
-
L. Jones, A. Hamilton, O. Voinnet, Carole Thomas, A. Maule, D. Baulcombe (1999)
RNA–DNA Interactions and DNA Methylation in Post-Transcriptional Gene SilencingPlant Cell, 11
-
C. Hassig, J. Tong, T. Fleischer, T. Owa, P. Grable, D. Ayer, S. Schreiber (1998)
A role for histone deacetylase activity in HDAC1-mediated transcriptional repression.Proceedings of the National Academy of Sciences of the United States of America, 95 7
-
D. Weigel, J. Ahn, M. Blázquez, J. Borevitz, Sioux Christensen, C. Fankhauser, C. Ferrándiz, I. Kardailsky, I. Kardailsky, Elizabeth Malancharuvil, M. Neff, M. Neff, Jasmine Nguyen, Shusei Sato, Zhi-Yong Wang, Yiji Xia, R. Dixon, M. Harrison, C. Lamb, C. Lamb, M. Yanofsky, J. Chory, J. Chory (2000)
Activation tagging in Arabidopsis.Plant physiology, 122 4
-
M. Wassenegger, S. Heimes, Leonhard Riedel, H. Sänger (1994)
RNA-directed de novo methylation of genomic sequences in plantsCell, 76
-
J. Wheeler, Christine VanderZwan, Xiaoti Xu, Deborah Swantek, W. Tracey, J. Gergen (2002)
Distinct in vivo requirements for establishment versus maintenance of transcriptional repressionNature Genetics, 32
-
Guofu Li, T. Hall, R. Holmes-Davis (2002)
Plant chromatin: development and gene control.BioEssays : news and reviews in molecular, cellular and developmental biology, 24 3
-
C. Llave, K. Kasschau, M. Rector, J. Carrington (2002)
Endogenous and Silencing-Associated Small RNAs in Plants Online version contains Web-only data. Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.003210.The Plant Cell Online, 14
-
Michael McManus, P. Sharp (2002)
Gene silencing in mammals by small interfering RNAsNature Reviews Genetics, 3
-
W. Aufsatz, M. Mette, J. Winden, A. Matzke, M. Matzke (2002)
RNA-directed DNA methylation in ArabidopsisProceedings of the National Academy of Sciences of the United States of America, 99
-
Ming-Bo Wang, P. Waterhouse (2002)
Application of gene silencing in plants.Current opinion in plant biology, 5 2
-
D. Robyr, Yuko Suka, I. Xenarios, S. Kurdistani, Amy Wang, N. Suka, M. Grunstein (2002)
Microarray Deacetylation Maps Determine Genome-Wide Functions for Yeast Histone DeacetylasesCell, 109
-
C. Llave, Zhixin Xie, K. Kasschau, J. Carrington (2002)
Cleavage of Scarecrow-like mRNA Targets Directed by a Class of Arabidopsis miRNAScience, 297
-
M. Matzke, M. Primig, J. Trnovsky, A. Matzke (1989)
Reversible methylation and inactivation of marker genes in sequentially transformed tobacco plantsThe EMBO Journal, 8
-
G Storz (2002)
An expanding universe of noncoding RNAsScience, 296
-
Johannes Jakowitsch, M. Mette, J. Winden, M. Matzke, A. Matzke (1999)
Integrated pararetroviral sequences define a unique class of dispersed repetitive DNA in plants.Proceedings of the National Academy of Sciences of the United States of America, 96 23
-
Gregory Hannon (2002)
RNA interferenceNature, 418
-
Lisa Bartee, F. Malagnac, J. Bender (2001)
Arabidopsis cmt3 chromomethylase mutations block non-CG methylation and silencing of an endogenous gene.Genes & development, 15 14
-
O. Voinnet (2001)
RNA silencing as a plant immune system against viruses.Trends in genetics : TIG, 17 8
-
M. Pal‐Bhadra, U. Bhadra, J. Birchler (2002)
RNAi related mechanisms affect both transcriptional and posttranscriptional transgene silencing in Drosophila.Molecular cell, 9 2
-
Carole Thomas, Louise Jones, David Baulcombe, Andrew Maule (2001)
Size constraints for targeting post-transcriptional gene silencing and for RNA-directed methylation in Nicotiana benthamiana using a potato virus X vector.The Plant journal : for cell and molecular biology, 25 4
-
Anders Lindroth, Xiaofeng Cao, J. Jackson, Daniel Zilberman, C. McCallum, S. Henikoff, S. Jacobsen (2001)
Requirement of CHROMOMETHYLASE3 for Maintenance of CpXpG MethylationScience, 292
-
A. Metz, R. Timmer, K. Browning (1992)
Sequences for two cDNAs encoding Arabidopsis thaliana eukaryotic protein synthesis initiation factor 4A.Gene, 120 2
-
Thierry Pélissier, Sabine Thalmeir, Dirk Kempe, Heinz Sänger, Michael Wassenegger (1999)
Heavy de novo methylation at symmetrical and non-symmetrical sites is a hallmark of RNA-directed DNA methylation.Nucleic acids research, 27 7
-
M. Goll, T. Bestor (2002)
Histone modification and replacement in chromatin activation.Genes & development, 16 14
-
W. Burgers, F. Fuks, T. Kouzarides (2002)
DNA methyltransferases get connected to chromatin.Trends in genetics : TIG, 18 6
-
B. Reinhart, E. Weinstein, M. Rhoades, B. Bartel, D. Bartel (2002)
MicroRNAs in plants.Genes & development, 16 13
-
A. Konieczny, F. Ausubel (1993)
A procedure for mapping Arabidopsis mutations using co-dominant ecotype-specific PCR-based markers.The Plant journal : for cell and molecular biology, 4 2
-
Nathaniel Dudley, J. Labbé, B. Goldstein (2002)
Using RNA interference to identify genes required for RNA interferenceProceedings of the National Academy of Sciences of the United States of America, 99
-
M. Matzke, A. Matzke, J. Kooter (2001)
RNA: Guiding Gene SilencingScience, 293
-
T. Pélissier, M. Wassenegger (2000)
A DNA target of 30 bp is sufficient for RNA-directed DNA methylation.RNA, 6 1
-
Ira Hall, G. Shankaranarayana, K. Noma, N. Ayoub, A. Cohen, S. Grewal (2002)
Establishment and Maintenance of a Heterochromatin DomainScience, 297
- Publisher
- Wiley
- Copyright
- Copyright © 2013 Wiley Periodicals, Inc
- ISSN
- 0261-4189
- eISSN
- 1460-2075
- DOI
- 10.1093/emboj/cdf663
- Publisher site
- See Article on Publisher Site
Abstract
To analyze relationships between RNA signals, DNA methylation and chromatin modifications, we performed a genetic screen to recover Arabidopsis mutants defective in RNA‐directed transcriptional silencing and methylation of a nopaline synthase promoter–neomycinphosphotransferase II (NOSpro–NPTII) target gene. Mutants were identified by screening for recovery of kanamycin resistance in the presence of an unlinked silencing complex encoding NOSpro double‐stranded RNA. One mutant, rts1 (RNA‐mediated transcriptional silencing), displayed moderate recovery of NPTII gene expression and partial loss of methylation in the target NOSpro, predominantly at symmetrical C(N)Gs. The RTS1 gene was isolated by positional cloning and found to encode a putative histone deacetylase, HDA6. The more substantial decrease in methylation of symmetrical compared with asymmetrical cytosines in rts1 mutants suggests that HDA6 is dispensable for RNA‐directed de novo methylation, which results in intermediate methylation of cytosines in all sequence contexts, but is necessary for reinforcing primarily C(N)G methylation induced by RNA. Because CG methylation in centromeric and rDNA repeats was not reduced in rts1 mutants, HDA6 might be specialized for the RNA‐ directed pathway of genome modification.
Journal
The EMBO Journal – Wiley
Published: Apr 16, 2003
Keywords: ; ; ; ;