 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Apr 21, 2009 |
| Title |
Target genes of the MADS transcription factor SEPALLATA3, ChIP-chip |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Genome binding/occupancy profiling by array
|
| Summary |
The molecular mechanisms by which floral homeotic genes act as major developmental switches to specify the identity of floral organs, are still largely unknown. Floral homeotic genes encode transcription factors of the MADS-box family, which are supposed to assemble in a combinatorial fashion into organ-specific multimeric protein complexes. Major mediators of protein interactions are MADS-domain proteins of the SEPALLATA subfamily, which play a crucial role in the development of all types of floral organs. In order to characterize the roles of the SEPALLATA3 transcription factor complexes at the molecular level, we analyzed genome-wide the direct targets of SEPALLATA3. We used chromatin immunoprecipitation followed by ultrahigh-throughput sequencing or hybridization to whole-genome tiling arrays to obtain genome-wide DNA-binding patterns of SEPALLATA3. The results demonstrate that SEPALLATA3 binds to thousands of sites in the genome. Most potential target sites that were strongly bound in wild-type inflorescences, are also bound in the floral homeotic agamous mutant, which displays only the perianth organs, sepals and petals. Characterization of the target genes shows that SEPALLATA3 integrates and modulates different growth-related and hormonal pathways in a combinatorial fashion with other MADS-box proteins and possibly with non-MADS transcription factors. In particular, the results suggest multiple links between SEPALLATA3 and auxin signaling pathways. Our gene expression analyses link the genomic binding site data with the phenotype of plants expressing a dominant repressor version of SEPALLATA3, suggesting that it modulates auxin response to facilitate floral organ outgrowth and morphogenesis. Furthermore, the binding of the SEPALLATA3 protein to cis-regulatory elements of other MADS-box genes and expression analyses reveal that this protein is a key component in the regulatory transcriptional network underlying the formation of floral organs.
Keywords: ChIP-chip
|
| |
|
| Overall design |
ChIP experiments were performed on Arabidopsis wildtype inflorescences using an antibody raised against a C-terminal peptide of SEP3. For the control experiment, we used unamplified, sheared chromatin from the same biological sample like the ChIP-DNA (“input DNA”).
|
| |
|
| Contributor(s) |
Kaufmann K, Muino JM, Jauregui R, Airoldi C, Smaczniak C, Krajewski P, Angenent G |
| Citation(s) |
19385720 |
| Submission date |
Jan 29, 2009 |
| Last update date |
Sep 04, 2019 |
| Contact name |
Gerco Angenent |
| E-mail(s) |
gerco.angenent@wur.nl
|
| Organization name |
Plant Research International
|
| Street address |
Bornsesteeg 65
|
| City |
Wageningen |
| ZIP/Postal code |
6708 PD |
| Country |
Netherlands |
| |
|
| Platforms (1) |
| GPL10977 |
[At35b_MR] Affymetrix Arabidopsis Tiling 1.0R Array |
|
| Samples (4)
|
|
| This SubSeries is part of SuperSeries: |
| GSE14636 |
Target genes of the MADS transcription factor SEPALLATA3 |
|
| Relations |
| BioProject |
PRJNA114431 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE14635_RAW.tar |
159.0 Mb |
(http)(custom) |
TAR (of BAR, CEL) |
| Processed data provided as supplementary file |
|
|
|
|
 |
Less...
More...