|
| Status |
Public on Aug 15, 2006 |
| Title |
Environmental Genomics of Calcicole-calcifuge physiology |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by array
|
| Summary |
The purpose of this set of arrays is to provide a third replicate to use in data analysis addition to the 2 previous replicates for all samples already generated on this project. Our hypothesis is that adaptation to a calcareous environment will be reflected in altered gene expression including genes encoding transporters, ion channels, transcription factors, etc.
To test this hypothesis we grew a laboratory non-calcicole (Col-4) and a laboratory calcicole (Cal-0) ecotypes of A. thaliana at low (1 mM) and high (12.5 mM) rhizospheric Ca2+ and compare the patterns of gene expression by microarray analysis. We then collected from the wild, a putative calcicole ecotype (Elland)and a putative non-calcicole (Penicuik) and grew both at low (1 mM) and high (12.5 mM) rhizospheric Ca2+ and compared expression profiles to the laboratory ecotypes.
Experimenter name = Bev Abram
Experimenter phone = 01524 592931
Experimenter address = Dept Biological Sciences
Experimenter address = Lancaster University
Experimenter address = Bailrigg
Experimenter address = Lancaster
Experimenter zip/postal_code = LA1 4YQ
Experimenter country = UK
Keywords: growth_condition_design; strain_or_line_design
|
| |
|
| Overall design |
8 samples were used in this experiment
|
| |
|
| Contributor(s) |
Abram B, Shirras A, Townsend H, Emmerson Z, Schildknecht B |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Aug 15, 2006 |
| Last update date |
Aug 28, 2018 |
| 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 |
| |
|
| Platforms (1) |
| GPL198 |
[ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array |
|
| Samples (8)
|
| GSM128704 |
Shirras_3-1_LabCalcicole-1mM-CaCl2_Rep1_ATH1 |
| GSM128705 |
Shirras_3-2_LabCalcifuge-1mM-CaCl2_Rep1_ATH1 |
| GSM128706 |
Shirras_3-3_LabCalcicole-12.5mM-CaCl2_Rep1_ATH1 |
| GSM128707 |
Shirras_3-4_LabCalcifuge-12.5mM-CaCl2_Rep1_ATH1 |
| GSM128708 |
Shirras_3-5_WildEcotype-low-soil-pH-1mM-CaCl2_Rep1_ATH1 |
| GSM128709 |
Shirras_3-6_WildEcotype-high-soil-pH-1mM-CaCl2_Rep1_ATH1 |
| GSM128710 |
Shirras_3-7_WildEcotype-low-soil-pH-12.5mM-CaCl2_Rep1_ATH1 |
| GSM128711 |
Shirras_3-8_WildEcotype-high-soil-pH-12.5mM-CaCl2_Rep1_ATH1 |
|
| Relations |
| BioProject |
PRJNA96179 |
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