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Experiment: Transcript inhibition from limited starch degradation
Experiment Description
NASCArrays Experiment Reference Number: NASCARRAYS-411
In starchless mutants of Arabidopsis, pgm, and wild type, Col0, there are small differences in transcript levels at the end of the day, but large differences at the end of the night. Many of the transcripts of genes involved in biosynthesis and growth are repressed in the pgm mutant (Thimm et al., 2004). It is hypothesized that a transient depletion in sugars at the end of the night inhibits carbon utilization at the beginning of the day (Gibon et al., 2004). In order to test if the same inhibition of transcripts involved in biosynthesis and growth also occurs in starch excess mutants of Arabidopsis Affymetrix arrays will be generated for WT (Col0), and the following mutants: sex4-3 (Salk 102567), ptpkis2 (Salk 053285), and sex1-3 (Yu et al., 2001). WT, sex4-3, and ptpkis2 plants were grown for 30 days and sex1-3 plants were grown for 36 days. All plants were grown in a growth chamber with a 12 hour photoperiod, quantum flux 100 mol m-2s-1, relative humidity was at least 75%, and a constant temperature of 20oC. Three leaves from 8 different plants of each genotype were harvested using a green safe lamp 0.5 hours before the lights came on in the morning and immediately frozen in LN2. Leaf material was powered using a mortar and pestle and RNA was extracted using a Purescript RNA isolation kit (Gentra Systems, MN, USA). Samples were then treated with DNaseI (Invitrogen, CA, USA).
About the ExperimenterName: | Sean Weise |
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Head of Lab Name: | Alison Smith |
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Lab:
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Institute:
| John Innes Centre |
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Address: | John Innes Centre Norwich Research Park, Colney
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Postcode:
| NR4 7UH |
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Country:
| UK |
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| Telephone Number:
| 01603450480 |
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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:
| strain_or_line_design; |
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Number of Slides: | 12 |
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| Experimental Parameters:
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parameter | strain_or_line |
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Quality Control Measures Taken:
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References:
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| Other Information:
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Slides in this Experiment
Hybridisation Set: Weise: Transcript inhibition from limited starch degradation_genome
Slide: Weise_1-1_Col-WT_Rep1_ATH1 | | |
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Tissue:
| Leaves |
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Other Information:
| Seeds were placed in 0.1% Agarose and kept at 4 degrees Celsius for 2 days prior to sewing to ensure uniform germination |
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Protocols for BioSource 1 |
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Slide: Weise_1-2_Col-WT_Rep2_ATH1 | | |
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Tissue:
| Leaves |
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Other Information:
| Seeds were placed in 0.1% Agarose and kept at 4 degrees Celsius for 2 days prior to sewing to ensure uniform germination |
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Protocols for BioSource 1 |
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Slide: Weise_1-3_Col-WT_Rep3_ATH1 | | |
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Tissue:
| Leaves |
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Other Information:
| Seeds were placed in 0.1% Agarose and kept at 4 degrees Celsius for 2 days prior to sewing to ensure uniform germination |
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Protocols for BioSource 1 |
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Slide: Weise_1-4_ptpks_Rep1_ATH1 | | |
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Tissue:
| Leaves |
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Other Information:
| Seeds were placed in 0.1% Agarose and kept at 4 degrees Celsius for 2 days prior to sewing to ensure uniform germination |
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Protocols for BioSource 1 |
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Slide: Weise_1-5_ptpks_Rep2_ATH1 | | |
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Tissue:
| Leaves |
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Other Information:
| Seeds were placed in 0.1% Agarose and kept at 4 degrees Celsius for 2 days prior to sewing to ensure uniform germination |
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Protocols for BioSource 1 |
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Slide: Weise_1-6_ptpks_Rep3_ATH1 | | |
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Tissue:
| Leaves |
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Other Information:
| Seeds were placed in 0.1% Agarose and kept at 4 degrees Celsius for 2 days prior to sewing to ensure uniform germination |
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Protocols for BioSource 1 |
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Slide: Weise_1-7_Sex4-3_Rep1_ATH1 | | |
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Tissue:
| Leaves |
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Other Information:
| Seeds were placed in 0.1% Agarose and kept at 4 degrees Celsius for 2 days prior to sewing to ensure uniform germination |
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Protocols for BioSource 1 |
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Slide: Weise_1-8_Sex4-3_Rep2_ATH1 | | |
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Tissue:
| Leaves |
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Other Information:
| Seeds were placed in 0.1% Agarose and kept at 4 degrees Celsius for 2 days prior to sewing to ensure uniform germination |
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Protocols for BioSource 1 |
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Slide: Weise_1-9_Sex4-3_Rep3_ATH1 | | |
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Tissue:
| Leaves |
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Other Information:
| Seeds were placed in 0.1% Agarose and kept at 4 degrees Celsius for 2 days prior to sewing to ensure uniform germination |
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Protocols for BioSource 1 |
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Slide: Weise_1-10_Sex1-3_Rep1_ATH1 | | |
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Tissue:
| Leaves |
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Additional Organism Information:
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Allele | At1g10760 |
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Other Information:
| Seeds were placed in 0.1% Agarose and kept at 4 degrees Celsius for 2 days prior to sewing to ensure uniform germination |
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Protocols for BioSource 1 |
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Slide: Weise_1-11_Sex1-3_Rep2_ATH1 | | |
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Tissue:
| Leaves |
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Additional Organism Information:
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Allele | At1g10760 |
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Other Information:
| Seeds were placed in 0.1% Agarose and kept at 4 degrees Celsius for 2 days prior to sewing to ensure uniform germination |
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Protocols for BioSource 1 |
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Slide: Weise_1-12_Sex1-3_Rep3_ATH1 | | |
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Tissue:
| Leaves |
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Additional Organism Information:
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Allele | At1g10760 |
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Other Information:
| Seeds were placed in 0.1% Agarose and kept at 4 degrees Celsius for 2 days prior to sewing to ensure uniform germination |
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Protocols for BioSource 1 |
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Problems? Comments? Suggestions? Contact the Affymetrix Team