|
| Status |
Public on Nov 18, 2009 |
| Title |
Expression analysis in HDA6 mutants |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by array
|
| Summary |
In addition to the canonical RNAi pathways that targets mRNAs in the cytoplasm, several RNA-dependent pathways operate in the nucleus to induce sequence-specific epigenetic modifications. One specialized type of RNAi-mediated pathway is RNA-directed DNA methylation (RdDM). During RdDM, nuclear DNA with sequence identity to the trigger dsRNA is de novo methylated at almost all cytosine residues, providing a mark for the formation of transcriptionally silent heterochromatin. Genetic forward screens identified the RPD3-like histone deacetylase HDA6 as the enzyme responsible for the histone deacetylation step of RdDM and suggest that HDA6 might have acquired specific functions for RNA-directed transcriptional silencing processes [Aufsatz et al., 2002a; Aufsatz et al., 2002b]. Complete loss-of-function mutants for AtHDA6 (rts1-1; RNA-mediated transcriptional gene silencing) exhibit reactivation of RdDM-silenced promoters, despite the continuous presence of the silencing-inducing RNA signal. One of the found mutant alleles, rts1-5, has an amino acid substitution located at a conserved position within the HDAC domain (Naumann et al., manuscript in preparation). This mutant is characterized by strong reactivation of an RdDM-silenced target promoter, despite maintaining wild-type levels of cytosine methylation. An evaluation of the transcription pattern among the mutants with opposite methylation phenotype and wild-type plants should show which genes are differentially regulated between the mutants in comparison to wild-type plants.
Keywords: Expression profiling by array
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| Overall design |
9 samples were used in this experiment
|
| |
|
| Contributor(s) |
Schuller F |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Nov 12, 2009 |
| Last update date |
Jun 12, 2017 |
| Contact name |
Nottingham Arabidopsis Stock Centre (NASC) |
| E-mail(s) |
[email protected]
|
| Phone |
+44 (0)115 951 3237
|
| Fax |
+44 (0)115 951 3297
|
| URL |
http://arabidopsis.info/
|
| Organization name |
Nottingham Arabidopsis Stock Centre (NASC)
|
| Department |
School of Biosciences, University of Nottingham
|
| Street address |
Sutton Bonington Campus
|
| City |
Loughborough |
| ZIP/Postal code |
LE12 5RD |
| Country |
United Kingdom |
| |
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| Platforms (1) |
| GPL198 |
[ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array |
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| Samples (9)
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| GSM469854 |
Schuller_1-1_double-transformant_Rep1_ATH1_rpt |
| GSM469855 |
Schuller_1-3_double-transformant_Rep3_ATH1 |
| GSM469856 |
Schuller_1-2_double-transformant_Rep2_ATH1 |
| GSM469857 |
Schuller_1-4_null-mutant_Rep1_ATH1_rpt |
| GSM469858 |
Schuller_1-5_null-mutant_Rep2_ATH1 |
| GSM469859 |
Schuller_1-6_null-mutant_Rep3_ATH1 |
| GSM469860 |
Schuller_1-7_amino-acid-substitution_Rep1_ATH1 |
| GSM469861 |
Schuller_1-8_amino-acid-substitution_Rep2_ATH1 |
| GSM469862 |
Schuller_1-9_amino-acid-substitution_Rep3_ATH1_rpt |
|
| Relations |
| BioProject |
PRJNA120655 |
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