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Expression data from Arabidopsis seed compartments at the bending coyledon stage
Ryan Christopher Kirkbride, University of California, Department of Plant Biology, Davis, California (rkirkbride@ucdavis.edu,bobg@ucla.edu)
Experiment design (12 hybridizations)
organism part name
•embryo proper •peripherial endosperm •chalazal endosperm •chalazal seed coat •general seed coat •whole seeds

This experiment has been imported by PLEXdb from NCBI GEO (GSE20039) Series_summary: We collected bending cotyledon seed compartments from 7 m...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Expression data from Arabidopsis seed compartments at the bending coyledon stage
Accession No: AT106
Microarray: ATH1-121501
Visibility: public
Experiment Type:
Experiment Factor(s):
organism part name
•embryo proper   •peripherial endosperm   •chalazal endosperm   •chalazal seed coat   •general seed coat   •whole seeds
Quality Control: biological replicates
Treatment summary:
 organism part name  # replicates
 embryo proper  2
 peripherial endosperm  2
 chalazal endosperm  2
 chalazal seed coat  2
 general seed coat  2
 whole seeds  2
Total hybridizations: 12
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE20039)

Series_summary:
We collected bending cotyledon seed compartments from 7 micron paraffin sections using the Leica LMD6000 system in order to identify the mRNAs present in different compartments from seeds containing linear cotyledon stage embryos. For the purposes of this study we captured 5 compartments: embyro proper, cellularized peripherial endosperm, chalazal endosperm, chalazal seed coat and seed coat, in addition to serial sections encompasing the entire linear cotyledon stage seed.

Series_overall_design:
Bending cotyledon stage seed compartments were isolated using the LMD6000 system. Total RNA was amplified and hybridized with Affymetrix ATH1 Arabidopsis array for 14 samples (embryo proper, micropylar endosperm, peripherial endosperm, chalazal endosperm, chalazal seed coat, seed coat and whole seeds, 2 biological replicates each).

PLEXdb Curator's Note:
This sub-series is part of the super-series GSE12404 (Expression Data from Arabidopsis Seed Compartments at 5 Discrete Stages of Development); the sister series are GSE11262 (globular stage), GSE12402 (pre-globular stage), GSE12403 (linear-cotyledon stage), GSE15160 (Heart Stage), and GSE15165 (mature green stage).
Publication: 'The seed composition of Arabidopsis mutants for the group 3 sulfate transporters indicates a role in sulfate translocation within developing seeds.', Zuber H, Davidian JC, Aubert G, Aimé D, Belghazi M, Lugan R, Heintz D, Wirtz M, Hell R, Thompson R, Gallardo K.
Plant Physiol 2010 Oct;154(2):913-26.
pubmed: 20702726
Created: 2011-02-17 12:05:28
Last Update: 2011-02-17 12:21:13
Released: 2011-02-24
GEO Accession GSE20039
Submitter: PLEXdb Curator
Name: Ryan Christopher Kirkbride
Institution: University of California, Department of Plant Biology, Davis, California
Head of Laboratory: Robert B. Goldberg
email(s):
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