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Experiment: Molecular responses to external pH changes in roots of Arabidopsis thaliana
Experiment Description
NASCArrays Experiment Reference Number: NASCARRAYS-470
Plants live in soils that vary considerably, both spatially and over time, in terms of nutrient composition and pH. Consistently, plants have to recognize and adapt to these changes by altering their structure and metabolism. The goal of this array analysis is to characterize the global transcriptional response to external pH changes in roots, which to date is almost unexplored. Arabidopsis thaliana (Columbia-0) were grown in hydroponic cultures in basic nutrient solution. Two days before treatment the media was shifted to nutrient solution containing 5mM MES, pH 6. At the time of the treatment start (4 hours after light on) the plants were shifted to nutrient solutions of pH 4.5 and 6.0 (control). Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes.
About the ExperimenterName: | Dr Ida Lager |
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Head of Lab Name: | Prof Allan Rasmusson |
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Lab:
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Address: | Department of Cell and Organism Biology Lund University Soelvegatan 35 Lund
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Postcode:
| 22326 |
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Country:
| Sweden |
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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:
| growth_condition_design |
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Number of Slides: | 12 |
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| Experimental Parameters:
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parameter | change_pH |
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Quality Control Measures Taken:
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no-plants-pooled | |
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References:
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| Other Information:
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Slides in this Experiment
Hybridisation Set: Lager: Molecular responses to external pH changes in roots of Arabidopsis thaliana_genome
Slide: Lager_1-1_1hr-pH4.5_Rep1_ATH1 | | |
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Tissue:
| roots |
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in vivo Treatment:
| Two days before treatment the growth media was shifted to new media (Somerville media, same as described in growth) including 5mM MES, pH was set to 6.0.
Treatment was started 4 hours after light on. The growth media was shifted to new Somerville media with 5mM MES at pH4.5 or pH6.0 (control).
Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes. |
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Additional Organism Information:
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Sample Description | Hydroponically grown Arabidopsis thaliana (Col-0). Plants were used before bolting occured. |
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Other Information:
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Timecourse start procedure | switch of media |
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Protocols for BioSource 1 |
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Slide: Lager_1-2_1hr-pH4.5_Rep2_ATH1 | | |
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Tissue:
| roots |
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in vivo Treatment:
| Two days before treatment the growth media was shifted to new media (Somerville media, same as described in growth) including 5mM MES, pH was set to 6.0.
Treatment was started 4 hours after light on. The growth media was shifted to new Somerville media with 5mM MES at pH4.5 or pH6.0 (control).
Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes. |
---|
Additional Organism Information:
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Sample Description | Hydroponically grown Arabidopsis thaliana (Col-0). Plants were used before bolting occured. |
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Other Information:
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Timecourse start procedure | switch of media |
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Protocols for BioSource 1 |
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Slide: Lager_1-3_1hr-pH4.5_Rep3_ATH1 | | |
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Tissue:
| roots |
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in vivo Treatment:
| Two days before treatment the growth media was shifted to new media (Somerville media, same as described in growth) including 5mM MES, pH was set to 6.0.
Treatment was started 4 hours after light on. The growth media was shifted to new Somerville media with 5mM MES at pH4.5 or pH6.0 (control).
Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes. |
---|
Additional Organism Information:
| |
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Sample Description | Hydroponically grown Arabidopsis thaliana (Col-0). Plants were used before bolting occured. |
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Other Information:
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Timecourse start procedure | switch of media |
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Protocols for BioSource 1 |
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Slide: Lager_1-4_1hr-pH6_Rep1_ATH1 | | |
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Tissue:
| roots |
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in vivo Treatment:
| Two days before treatment the growth media was shifted to new media (Somerville media, same as described in growth) including 5mM MES, pH was set to 6.0.
Treatment was started 4 hours after light on. The growth media was shifted to new Somerville media with 5mM MES at pH4.5 or pH6.0 (control).
Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes. |
---|
Additional Organism Information:
| |
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Sample Description | Hydroponically grown Arabidopsis thaliana (Col-0). Plants were used before bolting occured. |
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Other Information:
| |
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Timecourse start procedure | switch of media |
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Protocols for BioSource 1 |
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Slide: Lager_1-5_1hr-pH6_Rep2_ATH1 | | |
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Tissue:
| roots |
---|
in vivo Treatment:
| Two days before treatment the growth media was shifted to new media (Somerville media, same as described in growth) including 5mM MES, pH was set to 6.0.
Treatment was started 4 hours after light on. The growth media was shifted to new Somerville media with 5mM MES at pH4.5 or pH6.0 (control).
Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes. |
---|
Additional Organism Information:
| |
---|
Sample Description | Hydroponically grown Arabidopsis thaliana (Col-0). Plants were used before bolting occured. |
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Other Information:
| |
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Timecourse start procedure | switch of media |
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|
Protocols for BioSource 1 |
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Slide: Lager_1-6_1hr-pH6_Rep3_ATH1 | | |
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|
Tissue:
| roots |
---|
in vivo Treatment:
| Two days before treatment the growth media was shifted to new media (Somerville media, same as described in growth) including 5mM MES, pH was set to 6.0.
Treatment was started 4 hours after light on. The growth media was shifted to new Somerville media with 5mM MES at pH4.5 or pH6.0 (control).
Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes. |
---|
Additional Organism Information:
| |
---|
Sample Description | Hydroponically grown Arabidopsis thaliana (Col-0). Plants were used before bolting occured. |
---|
Other Information:
| |
---|
Timecourse start procedure | switch of media |
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|
Protocols for BioSource 1 |
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Slide: Lager_1-7_8hr-pH4.5_Rep1_ATH1 | | |
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Tissue:
| roots |
---|
in vivo Treatment:
| Two days before treatment the growth media was shifted to new media (Somerville media, same as described in growth) including 5mM MES, pH was set to 6.0.
Treatment was started 4 hours after light on. The growth media was shifted to new Somerville media with 5mM MES at pH4.5 or pH6.0 (control).
Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes. |
---|
Additional Organism Information:
| |
---|
Sample Description | Hydroponically grown Arabidopsis thaliana (Col-0). Plants were used before bolting occured. |
---|
Other Information:
| |
---|
Timecourse start procedure | switch of media |
---|
|
Protocols for BioSource 1 |
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Slide: Lager_1-8_8hr-pH4.5_Rep2_ATH1 | | |
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|
Tissue:
| roots |
---|
in vivo Treatment:
| Two days before treatment the growth media was shifted to new media (Somerville media, same as described in growth) including 5mM MES, pH was set to 6.0.
Treatment was started 4 hours after light on. The growth media was shifted to new Somerville media with 5mM MES at pH4.5 or pH6.0 (control).
Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes. |
---|
Additional Organism Information:
| |
---|
Sample Description | Hydroponically grown Arabidopsis thaliana (Col-0). Plants were used before bolting occured. |
---|
Other Information:
| |
---|
Timecourse start procedure | switch of media |
---|
|
Protocols for BioSource 1 |
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Slide: Lager_1-9_8hr-pH4.5_Rep3_ATH1 | | |
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|
Tissue:
| roots |
---|
in vivo Treatment:
| Two days before treatment the growth media was shifted to new media (Somerville media, same as described in growth) including 5mM MES, pH was set to 6.0.
Treatment was started 4 hours after light on. The growth media was shifted to new Somerville media with 5mM MES at pH4.5 or pH6.0 (control).
Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes. |
---|
Additional Organism Information:
| |
---|
Sample Description | Hydroponically grown Arabidopsis thaliana (Col-0). Plants were used before bolting occured. |
---|
Other Information:
| |
---|
Timecourse start procedure | switch of media |
---|
|
Protocols for BioSource 1 |
|
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|
Slide: Lager_1-10_8hr-pH6_Rep1_ATH1 | | |
|
|
|
Tissue:
| roots |
---|
in vivo Treatment:
| Two days before treatment the growth media was shifted to new media (Somerville media, same as described in growth) including 5mM MES, pH was set to 6.0.
Treatment was started 4 hours after light on. The growth media was shifted to new Somerville media with 5mM MES at pH4.5 or pH6.0 (control).
Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes. |
---|
Additional Organism Information:
| |
---|
Sample Description | Hydroponically grown Arabidopsis thaliana (Col-0). Plants were used before bolting occured. |
---|
Other Information:
| |
---|
Timecourse start procedure | switch of media |
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|
Protocols for BioSource 1 |
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Slide: Lager_1-11_8hr-pH6_Rep2_ATH1 | | |
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Tissue:
| roots |
---|
in vivo Treatment:
| Two days before treatment the growth media was shifted to new media (Somerville media, same as described in growth) including 5mM MES, pH was set to 6.0.
Treatment was started 4 hours after light on. The growth media was shifted to new Somerville media with 5mM MES at pH4.5 or pH6.0 (control).
Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes. |
---|
Additional Organism Information:
| |
---|
Sample Description | Hydroponically grown Arabidopsis thaliana (Col-0). Plants were used before bolting occured. |
---|
Other Information:
| |
---|
Timecourse start procedure | switch of media |
---|
|
Protocols for BioSource 1 |
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Slide: Lager_1-12_8hr-pH6_Rep3_ATH1 | | |
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|
Tissue:
| roots |
---|
in vivo Treatment:
| Two days before treatment the growth media was shifted to new media (Somerville media, same as described in growth) including 5mM MES, pH was set to 6.0.
Treatment was started 4 hours after light on. The growth media was shifted to new Somerville media with 5mM MES at pH4.5 or pH6.0 (control).
Root RNA samples from time point 1 and 8 hour after treatment start is used for array analyzes. |
---|
Additional Organism Information:
| |
---|
Sample Description | Hydroponically grown Arabidopsis thaliana (Col-0). Plants were used before bolting occured. |
---|
Other Information:
| |
---|
Timecourse start procedure | switch of media |
---|
|
Protocols for BioSource 1 |
|
|
|
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