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| Status |
Public on Jun 18, 2012 |
| Title |
The response and recovery of Arabidopsis thaliana transcriptome to phosphate starvation [At35b_MR] |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by genome tiling array
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| Summary |
Background: Over application of phosphate fertilizers in modern agriculture contaminates waterways and disrupts natural ecosystems. Nevertheless, this is a common practice among farmers, especially in developing countries as abundant fertilizers are believed to boost crop yields. The study of plant phosphate metabolism and its underlying genetic pathways is key to discovering methods of efficient fertilizer usage. The work presented here describes the first genome-wide resource on the molecular dynamics underpinning the response and recovery in roots and shoots of Arabidopsis thaliana to phosphate-starvation. Results: Genome-wide profiling revealed minimal overlap between root and shoot transcriptomes suggesting two independent phosphate-starvation regulons. Novel gene expression patterns were detected for over 1000 candidates and were classified as either initial, persistent, or latent responders. Comparative analysis to AtGenExpress identified novel cohorts of genes co-regulated across multiple stimuli. The hormone ABA displayed a dominant role in regulating many phosphate-responsive candidates. Analysis of co-regulation enabled the determination of primary versus redundant members of closely related gene families with respect to phosphate-starvation. Thus, among others, we show that PHO1 acts in shoot, whereas PHO1;H1 is likely the primary regulator in root. Conclusion: Our results uncover a much larger, staged responses to phosphate-starvation than previously described. To our knowledge, this work describes the highest resolution of genome-wide data on plant nutrient stress to date.
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| Overall design |
2 tissues X 3 treatments X 3 biological replicates
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| Contributor(s) |
Chua N, Woo J, MacPherson CR, Liu J, Wang H, Kiba1 T, Hannah M, Wang X, Bajic VB |
| Citation(s) |
22553952 |
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| Submission date |
Nov 29, 2011 |
| Last update date |
May 09, 2017 |
| Contact name |
Jun Liu |
| E-mail(s) |
[email protected]
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| Organization name |
Institute of Crop Science
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| Department |
Chinese Academy of Agricultural Sciences
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| Lab |
Jun Liu lab
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| Street address |
1230 York Avenue
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| City |
No.12 Zhongguancun South Street, Haidian |
| State/province |
Beijing |
| ZIP/Postal code |
100081 |
| Country |
China |
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| Platforms (1) |
| GPL10977 |
[At35b_MR] Affymetrix Arabidopsis Tiling 1.0R Array |
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| Samples (18)
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| GSM840160 |
Shoot Mock, biological rep1 [At35b_MR] |
| GSM840161 |
Shoot Mock, biological rep2 [At35b_MR] |
| GSM840162 |
Shoot Mock, biological rep3 [At35b_MR] |
| GSM840163 |
Shoot Phosphate starvation, biological rep1 [At35b_MR] |
| GSM840164 |
Shoot Phosphate starvation, biological rep2 [At35b_MR] |
| GSM840165 |
Shoot Phosphate starvation, biological rep3 [At35b_MR] |
| GSM840166 |
Shoot Phosphate recovery, biological rep1 [At35b_MR] |
| GSM840167 |
Shoot Phosphate recovery, biological rep2 [At35b_MR] |
| GSM840168 |
Shoot Phosphate recovery, biological rep3 [At35b_MR] |
| GSM840169 |
Root Mock, biological rep1 [At35b_MR] |
| GSM840170 |
Root Mock, biological rep2 [At35b_MR] |
| GSM840171 |
Root Mock, biological rep3 [At35b_MR] |
| GSM840172 |
Root Phosphate starvation, biological rep1 [At35b_MR] |
| GSM840173 |
Root Phosphate starvation, biological rep2 [At35b_MR] |
| GSM840174 |
Root Phosphate starvation, biological rep3 [At35b_MR] |
| GSM840175 |
Root Phosphate recovery, biological rep1 [At35b_MR] |
| GSM840176 |
Root Phosphate recovery, biological rep2 [At35b_MR] |
| GSM840177 |
Root Phosphate recovery, biological rep3 [At35b_MR] |
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| This SubSeries is part of SuperSeries: |
| GSE34004 |
The response and recovery of Arabidopsis thaliana transcriptome to phosphate starvation |
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| Relations |
| BioProject |
PRJNA156451 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE33996.txt.gz |
312.6 Mb |
(ftp)(http) |
TXT |
| GSE33996_RAW.tar |
484.0 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data are available on Series record |
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