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| Status |
Public on Apr 24, 2008 |
| Title |
Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by array
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| Summary |
We performed a time course analysis (TC data set) of the response of whole seedling roots to -Fe at 6 time points after transfer (3, 6, 12, 24, 48, and 72 hours).
Little is known about how developmental cues affect the way cells interpret their environment. Here we characterize the transcriptional response of different cell layers and developmental stages of the Arabidopsis root to high salinity and find that transcriptional responses are highly constrained by developmental parameters. These transcriptional changes lead to the differential regulation of specific biological functions in subsets of cell-layers, several of which correspond to observable physiological changes. We show that known stress pathways primarily control semi-ubiquitous responses and use mutants that disrupt epidermal patterning to reveal cell-layer specific and inter-cell-layer effects. By performing a similar analysis using iron-deprivation we identify common cell-type specific stress responses and environment-independent biological functions that define each cell type.
Keywords: time course analysis
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| Overall design |
Seedlings were grown for 5 days before transfer to iron deficient (-Fe) conditions (0.3mM Ferrozine in MS media containing no iron sulfate). Whole roots were harvested at 6 time points after the transfer.
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| Contributor(s) |
Long TA, Wang JY, Benfey PN |
| Citation(s) |
18436742 |
| Submission date |
Feb 12, 2008 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Terri Anita Long |
| E-mail(s) |
tlong@duke.edu
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| Phone |
919-613-8202
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| Fax |
919-613-8177
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| Organization name |
Duke University
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| Department |
Biology
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| Lab |
Philip Benfey
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| Street address |
Box 90338
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| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27707 |
| Country |
USA |
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| Platforms (1) |
| GPL198 |
[ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array |
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| Samples (14)
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| GSM265461 |
Arabidopsis, whole roots, standard conditions, rep 1 |
| GSM265462 |
Arabidopsis, whole roots, standard conditions, rep 2 |
| GSM265463 |
Arabidopsis, whole roots, -Fe, 3 hour, rep 1 |
| GSM265464 |
Arabidopsis, whole roots, -Fe, 3 hour, rep 2 |
| GSM265465 |
Arabidopsis, whole roots, -Fe, 6 hour, rep 1 |
| GSM265466 |
Arabidopsis, whole roots, -Fe, 6 hour, rep 2 |
| GSM265467 |
Arabidopsis, whole roots, -Fe, 12 hour, rep 1 |
| GSM265468 |
Arabidopsis, whole roots, -Fe, 12 hour, rep 2 |
| GSM265469 |
Arabidopsis, whole roots, -Fe, 24 hour, rep 1 |
| GSM265470 |
Arabidopsis, whole roots, -Fe, 24 hour, rep 2 |
| GSM265471 |
Arabidopsis, whole roots, -Fe, 48 hour, rep 1 |
| GSM265472 |
Arabidopsis, whole roots, -Fe, 48 hour, rep 2 |
| GSM265473 |
Arabidopsis, whole roots, -Fe, 72 hour, rep 1 |
| GSM265474 |
Arabidopsis, whole roots, -Fe, 72 hour, rep 2 |
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| This SubSeries is part of SuperSeries: |
| GSE10576 |
Iron deficiency (-Fe) effect: Arabidopsis roots |
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| Relations |
| Affiliated with |
GSE69995 |
| BioProject |
PRJNA108935 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE10502_RAW.tar |
45.9 Mb |
(http)(custom) |
TAR (of CEL, CHP) |
| Processed data included within Sample table |
| Processed data provided as supplementary file |
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