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Experiment: The early post-germinative embryo and endosperm transcriptomes in Arabidopsis
Experiment Description
NASCArrays Experiment Reference Number: NASCARRAYS-386
Arabidopsis seed germination is coordinated with the strong induction of metabolic pathways required for the mobilisation and utilization of seed storage reserves. These are essential to support the seedling before the establishment of photoauxotrophic growth. The activity of genes encoding enzymes required for lipid mobilisation is regulated largely at the level of transcription, but our knowledge of how this regulation occurs is extremely limited. After germination the rate of lipid reserve mobilisation is determined by the carbohydrate status of the seedling and by the osmotic potential of the growth substrate. The plant response to both of these requires the action of the hormone abscisic acid (ABA).
We have shown that this regulation is tissue specific (Penfield et al., 2004 Plant Cell 16, 2705-2718), and that although lipid breakdown in the embryo is inhibited by ABA, lipid breakdown in the endosperm tissues is not. Furthermore, in many species the action of the endosperm is central to the processes controlling seed germination, yet very little is known about gene expression in this tissue, or of the function of the endosperm in mature Arabidopsis seeds. Mature Arabidopsis seeds can be dissected into embryo and endosperm/seed coat fractions, with the latter fraction containing RNA only from the endosperm as the seed coat cells undergo programmed cell death during the latter stages of seed development. In this experiment we divide seeds into embryo and endosperm tissues and transcript profile both shortly after germination, or when germination and lipid reserve mobilisation are inhibited by ABA or by the gibberellin biosynthesis inhibitor paclobutrazol. In this way we can discover the endosperm transcriptome and uncover candidate regulators of lipid mobilisation by searching for genes showing differential expression between embryo and endosperm before and after ABA treatment.
About the ExperimenterName: | Dr Steven Penfield |
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Head of Lab Name: | Prof Ian Graham |
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Lab:
| Graham Lab |
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Institute:
| Centre for Novel Agricultural Products |
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Address: | Centre for Novel Agricultural Products Department of Biology University of York PO BOX 373 York
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Postcode:
| YO10 5YW |
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Country:
| UK |
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| Telephone Number:
| 01904 328759 |
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Fax Number:
| 01904 328762 |
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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 |
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Number of Slides: | 18 |
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| Experimental Parameters:
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parameter | organism_part |
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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: Penfield: The early post-germinative embryo and endosperm transcriptomes in Arabidopsis_genome
Slide: Penfield_1-1_endosperm-control_Rep1_ATH1 | | |
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Tissue:
| endosperm |
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Diseased:
| Normal |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-2_endosperm-control_Rep2_ATH1 | | |
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Tissue:
| endosperm |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-3_endosperm-control_Rep3_ATH1 | | |
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Tissue:
| endosperm |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-4_endosperm-ABA_Rep1_ATH1 | | |
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Tissue:
| endosperm |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-5_endosperm-ABA_Rep2_ATH1 | | |
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Tissue:
| endosperm |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-6_endosperm-ABA_Rep3_ATH1 | | |
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Tissue:
| endosperm |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-7_endosperm-PAC_Rep1_ATH1 | | |
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Tissue:
| endosperm |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-8_endosperm-PAC_Rep2_ATH1 | | |
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Tissue:
| endosperm |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-9_endosperm-PAC_Rep3_ATH1 | | |
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Tissue:
| endosperm |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-10_embryo-control_Rep1_ATH1 | | |
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Tissue:
| embryo |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-11_embryo-control_Rep2_ATH1 | | |
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Tissue:
| embryo |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-12_embryo-control_Rep3_ATH1 | | |
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Tissue:
| embryo |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-13_embryo-ABA_Rep1_ATH1 | | |
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Tissue:
| embryo |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-14_embryo-ABA_Rep2_ATH1 | | |
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Tissue:
| embryo |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-15_embryo-ABA_Rep3_ATH1 | | |
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Tissue:
| embryo |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-16_embryo-PAC_Rep1_ATH1 | | |
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Tissue:
| embryo |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-17_embryo-PAC_Rep2_ATH1 | | |
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Tissue:
| embryo |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Penfield_1-18_embryo-PAC_Rep3_ATH1 | | |
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Tissue:
| embryo |
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Additional Organism Information:
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Sample description | RNA was extracted from manually dissected endosperm samples just after radicle emergence |
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Separation Technique:
| manual dissection |
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Other Information:
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Protocols for BioSource 1 |
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Problems? Comments? Suggestions? Contact the Affymetrix Team