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Experiment: Differential gene expression patterns in potassium-starved and Caesium-treated plants
Experiment Description
NASCArrays Experiment Reference Number: NASCARRAYS-105
At high concentrations ceasium (Cs) is toxic to plant growth. This toxic effect may occur when Cs blocks potassium (K) uptake mechanisms in plants. Consequently, plants starved of K and plants exposed to toxic concentrations of Cs should have similar gene expression patterns. To test this hypothesis, Arabidopsis will initially be grown on agar containing 1/10 MS salts before being transferred to either 1/10 MS nutrient solution (control plants), 1/10 MS nutrient solution containing 2 mM Cs, or 1/10 MS nutrient solution with no K. Roots and shoot will then be harvested seven days after transfer and used to challenge ATH1 GeneChips.
About the ExperimenterName: | Mr John Hammond |
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Head of Lab Name: | Mr Philip White |
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Lab:
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Institute:
| Warwick University |
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Address: | Horticulture Research International Wellesbourne Warwick
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Postcode:
| CV35 9EF |
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Country:
| UK |
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| Telephone Number:
| 01789 470382 |
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Fax Number:
| 01789 470552 |
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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.
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| About this ExperimentExperiment Type:
| organism_part_comparison_design; growth_condition_design; compound_treatment_design |
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Number of Slides: | 18 |
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| Experimental Parameters:
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Parameter | compound_based_treatment |
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parameter | starvation |
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parameter | organism_part |
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Quality Control Measures Taken:
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no-plants-pooled | 40-50 |
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References:
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| Other Information:
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GEO Accession | GSE6160 |
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Slides in this Experiment
Hybridisation Set: Hammond_genome_Exp3_RepSet1
Slide: Hammond_3-1_Control-shoot_Rep1_ATH1 | | |
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Tissue:
| shoots |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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Other Information:
| |
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experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution. Plants were harvested after a further seven days at growth stage 3.90. Shoot material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
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Protocols for BioSource 1 |
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Slide: Hammond_3-2_Potassium-starved-shoot_Rep1_ATH1 | | |
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Tissue:
| shoots |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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Treatment Type:
| stimulus_or_stress_design |
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in vitro Treatment:
| |
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treatment | 1/10 MS nutrient solution without any potassium |
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Other Information:
| |
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experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution without any potassium, to generate potassium starved plants. Plants were harvested after a further seven days at growth stage 3.90. Shoot material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
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Protocols for BioSource 1 |
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Slide: Hammond_3-3_Caesium-treated-shoot_Rep1_ATH1 | | |
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Tissue:
| shoots |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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Treatment Type:
| stimulus_or_stress_design |
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in vitro Treatment:
| |
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treatment | 1/10 MS nutrient solution containing 2 mM Caesium |
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Other Information:
| |
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experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution containing 2 mM Cs, to generate Cs intoxicated plants. Plants were harvested after a further seven days at growth stage 3.90. Shoot material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
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Protocols for BioSource 1 |
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Slide: Hammond_3-4_Control-root_Rep1_ATH1 | | |
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Tissue:
| all root material |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
---|
Other Information:
| |
---|
experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution. Plants were harvested after a further seven days at growth stage 3.90. Root material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
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Protocols for BioSource 1 |
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Slide: Hammond_3-5_Potassium-starved-root_Rep1_ATH1 | | |
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Tissue:
| all root material |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
---|
Treatment Type:
| stimulus_or_stress_design |
---|
in vitro Treatment:
| |
---|
treatment | 1/10 MS nutrient solution without any potassium |
---|
Other Information:
| |
---|
experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution without any potassium, to generate potassium starved plants. Plants were harvested after a further seven days at growth stage 3.90. Root material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
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|
Protocols for BioSource 1 |
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Slide: Hammond_3-6_Caesium-treated-root_Rep1_ATH1 | | |
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Tissue:
| all root material |
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Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Treatment Type:
| stimulus_or_stress_design |
---|
in vitro Treatment:
| |
---|
treatment | 1/10 MS nutrient solution containing 2 mM Caesium |
---|
Other Information:
| |
---|
experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution containing 2 mM Cs, to generate Cs intoxicated plants. Plants were harvested after a further seven days at growth stage 3.90. Root material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
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Protocols for BioSource 1 |
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Hybridisation Set: Hammond_genome_Exp3_RepSet2
Slide: Hammond_3-7_Control-shoot_Rep2_ATH1 | | |
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Tissue:
| shoots |
---|
Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Other Information:
| |
---|
experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution. Plants were harvested after a further seven days at growth stage 3.90. Shoot material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
---|
|
Protocols for BioSource 1 |
|
|
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Slide: Hammond_3-8_Potassium-starved-shoot_Rep2_ATH1 | | |
|
|
|
Tissue:
| shoots |
---|
Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Treatment Type:
| stimulus_or_stress_design |
---|
in vitro Treatment:
| |
---|
treatment | 1/10 MS nutrient solution without any potassium |
---|
Other Information:
| |
---|
experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution without any potassium, to generate potassium starved plants. Plants were harvested after a further seven days at growth stage 3.90. Shoot material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Hammond_3-9_Caesium-treated-shoot_Rep2_ATH1 | | |
|
|
|
Tissue:
| shoots |
---|
Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Treatment Type:
| stimulus_or_stress_design |
---|
in vitro Treatment:
| |
---|
treatment | 1/10 MS nutrient solution containing 2 mM Caesium |
---|
Other Information:
| |
---|
experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution containing 2 mM Cs, to generate Cs intoxicated plants. Plants were harvested after a further seven days at growth stage 3.90. Shoot material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Hammond_3-11_Potassium-starved-root_Rep2_ATH1 | | |
|
|
|
Tissue:
| all root material |
---|
Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Treatment Type:
| stimulus_or_stress_design |
---|
in vitro Treatment:
| |
---|
treatment | 1/10 MS nutrient solution without any potassium |
---|
Other Information:
| |
---|
Experimental background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution without any potassium, to generate potassium starved plants. Plants were harvested after a further seven days at growth stage 3.90. Root material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Hammond_3-12_Caesium-treated-root_Rep2_ATH1 | | |
|
|
|
Tissue:
| all root material |
---|
Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Treatment Type:
| stimulus_or_stress_design |
---|
in vitro Treatment:
| |
---|
treatment | 1/10 MS nutrient solution containing 2 mM Caesium |
---|
Other Information:
| |
---|
Experimental background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution containing 2 mM Cs, to generate Cs intoxicated plants. Plants were harvested after a further seven days at growth stage 3.90. Root material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Hammond_3-10_Control-root_Rep2_ATH1 | | |
|
|
|
Tissue:
| all root material |
---|
Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Other Information:
| |
---|
Experimental background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution. Plants were harvested after a further seven days at growth stage 3.90. Root material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
---|
|
Protocols for BioSource 1 |
|
|
|
Hybridisation Set: Hammond_genome_Exp3_RepSet3
Slide: Hammond_3-13_Control-shoot_Rep3_ATH1 | | |
|
|
|
Tissue:
| shoots |
---|
Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Other Information:
| |
---|
experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution. Plants were harvested after a further seven days at growth stage 3.90. Shoot material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Hammond_3-14_Potassium-starved-shoot_Rep3_ATH1 | | |
|
|
|
Tissue:
| shoots |
---|
Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Treatment Type:
| stimulus_or_stress_design |
---|
in vitro Treatment:
| |
---|
treatment | 1/10 MS nutrient solution without any potassium |
---|
Other Information:
| |
---|
experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution without any potassium, to generate potassium starved plants. Plants were harvested after a further seven days at growth stage 3.90. Shoot material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Hammond_3-15_Caesium-treated-shoot_Rep3_ATH1 | | |
|
|
|
Tissue:
| shoots |
---|
Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Treatment Type:
| stimulus_or_stress_design |
---|
in vitro Treatment:
| |
---|
treatment | 1/10 MS nutrient solution containing 2 mM Caesium |
---|
Other Information:
| |
---|
experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution containing 2 mM Cs, to generate Cs intoxicated plants. Plants were harvested after a further seven days at growth stage 3.90. Shoot material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Hammond_3-16_Control-root_Rep3_ATH1 | | |
|
|
|
Tissue:
| all root material |
---|
Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Other Information:
| |
---|
experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution. Plants were harvested after a further seven days at growth stage 3.90. Root material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Hammond_3-17_Potassium-starved-root_Rep3_ATH1 | | |
|
|
|
Tissue:
| all root material |
---|
Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Treatment Type:
| stimulus_or_stress_design |
---|
in vitro Treatment:
| |
---|
treatment | 1/10 MS nutrient solution without any potassium |
---|
Other Information:
| |
---|
experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution without any potassium, to generate potassium starved plants. Plants were harvested after a further seven days at growth stage 3.90. Root material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Hammond_3-18_Caesium-treated-root_Rep3_ATH1 | | |
|
|
|
Tissue:
| all root material |
---|
Plant Ontology terms for this tissue type: | |
---|
| | | Unknown PO Term! | Diseased:
| Normal |
---|
Treatment Type:
| stimulus_or_stress_design |
---|
in vitro Treatment:
| |
---|
treatment | 1/10 MS nutrient solution containing 2 mM Caesium |
---|
Other Information:
| |
---|
experimental_background | After 14 days on MS agar plants were transferred to a hydroponics system containing 1/10 MS nutrient solution containing 2 mM Cs, to generate Cs intoxicated plants. Plants were harvested after a further seven days at growth stage 3.90. Root material from 20-30 plants was snap frozen in liquid nitrogen and stored at -80 °C. |
---|
|
Protocols for BioSource 1 |
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