 | NASCArrays | ,
,
,
,
,
,
,
,
,
,
|
Experiment: Systems approach identifies an organic nitrogen-responsive gene network that is regulated by the master clock control gene CCA1.
Experiment Description
NASCArrays Experiment Reference Number: NASCARRAYS-485
To identify genome-wide responses to such organic N signals, Arabidopsis seedlings were transiently treated with ammonium nitrate in the presence or absence of MSX, an inhibitor of glutamine synthetase, resulting in a block of Glu/Gln synthesis. Genes that responded to organic N were identified as those whose response to ammonium nitrate treatment was blocked in the presence of MSX. We showed that some genes previously identified to be regulated by nitrate are under the control of an organic N-metabolite. Using an integrated network model of molecular interactions, we uncovered a subnetwork regulated by organic N that included CCA1 and target genes involved in N-assimilation. We validated some of the predicted interactions and showed that regulation of the master clock control gene CCA1 by Glu or a Glu-derived metabolite in turn regulates the expression of key N-assimilatory genes. This data is part of Gutierrez et al. PNAS. 2008 March; 105(12): 4939-4944.
About the ExperimenterName: | Dr. Rodrigo Gutierrez |
---|
Head of Lab Name: | Dr. Gloria Coruzzi |
---|
Lab:
| |
---|
Address: | New York University - Department of Biology Center for Genomics and Systems Biology 100 Washington Square East 8th Floor Brown Building
|
---|
Postcode:
| NY 10003 |
---|
Country:
| USA |
---|
|
All of the data available in this website/database is free, and you
are free to do whatever you please with it. If you intend to publish
work based on any of this data, please acknowledge us, contact the
experimenter above, and either acknowledge them or use them as
co-authors in the work.
|
| About this ExperimentExperiment Type:
| compound_treatment_design; growth_condition_design; |
---|
Number of Slides: | 8 |
---|
| Experimental Parameters:
| |
---|
parameter | compound_based_treatment |
---|
parameter | Nutrients |
---|
parameter | Media |
---|
Quality Control Measures Taken:
| |
---|
References:
| |
---|
Reference | Rodrigo A. Gutiérrez, Trevor L. Stokes, Karen Thum, Xiaodong Xu, Mariana Obertello, Manpreet S. Katari, Milos Tanurdzic, Alexis Dean, Damion C. Nero, C. Robertson McClung, and Gloria M. Coruzzi. "Systems approach identifies an organic nitrogen-responsive gene network that is regulated by the master clock control gene CCA1". PNAS 2008 105:4939-4944; published online before print March 14, 2008, doi:10.1073/pnas.0800211105. |
---|
| Other Information:
| |
---|
|
Slides in this Experiment
Hybridisation Set: Gutierrez: Systems approach identifies an organic nitrogen-responsive gene network that is regulated by the master clock control gene CCA1._genome
Slide: Gutierrez_1-8_R03.7.8_Rep2_ATH1 | | |
|
|
|
Tissue:
| Seedlings |
---|
in vivo Treatment:
| |
---|
Treatment | 20 mM KNO3, 20 mM NH4NO3, 1 mM MSX, 10 mM Glu |
---|
Other Information:
| |
---|
RNAQC | No |
---|
RNAReceived | No |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Gutierrez_1-7_R03.7.7_Rep1_ATH1 | | |
|
|
|
Tissue:
| Seedlings |
---|
in vivo Treatment:
| |
---|
Treatment | 20 mM KNO3, 20 mM NH4NO3, 1 mM MSX, 10 mM Glu |
---|
Other Information:
| |
---|
RNAQC | No |
---|
RNAReceived | No |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Gutierrez_1-6_R03.7.6_Rep2_ATH1 | | |
|
|
|
Tissue:
| Seedlings |
---|
in vivo Treatment:
| |
---|
Treatment | 20 mM KNO3, 20 mM NH4NO3, 1 mM MSX |
---|
Other Information:
| |
---|
RNAQC | No |
---|
RNAReceived | No |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Gutierrez_1-5_R03.7.5_Rep1_ATH1 | | |
|
|
|
Tissue:
| Seedlings |
---|
in vivo Treatment:
| |
---|
Treatment | 20 mM KNO3, 20 mM NH4NO3, 1 mM MSX |
---|
Other Information:
| |
---|
RNAQC | No |
---|
RNAReceived | No |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Gutierrez_1-4_R03.7.4_Rep2_ATH1 | | |
|
|
|
Tissue:
| Seedlings |
---|
in vivo Treatment:
| |
---|
Treatment | 20 mM KNO3, 20 mM NH4NO3 |
---|
Other Information:
| |
---|
RNAQC | No |
---|
RNAReceived | No |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Gutierrez_1-3_R03.7.3_Rep1_ATH1 | | |
|
|
|
Tissue:
| Seedlings |
---|
in vivo Treatment:
| |
---|
Treatment | 20 mM KNO3, 20 mM NH4NO3 |
---|
Other Information:
| |
---|
RNAQC | No |
---|
RNAReceived | No |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Gutierrez_1-2_R03.7.2_Rep2_ATH1 | | |
|
|
|
Tissue:
| Seedlings |
---|
in vivo Treatment:
| |
---|
Treatment | 20 mM KCl |
---|
Other Information:
| |
---|
RNAQC | No |
---|
RNAReceived | No |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Gutierrez_1-1_R03.7.1_Rep1_ATH1 | | |
|
|
|
Tissue:
| Seedlings |
---|
in vivo Treatment:
| |
---|
Treatment | 20 mM KCl |
---|
Other Information:
| |
---|
RNAQC | No |
---|
RNAReceived | No |
---|
|
Protocols for BioSource 1 |
|
|
|
Problems? Comments? Suggestions? Contact the Affymetrix Team