Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

11 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of Arabidopsis seed compartments at the pre-globular and linear-cotyledon stages

ABSTRACT: This SuperSeries is composed of the following subset Series:; GSE12402: Expression data from Arabidopsis seed compartments at the pre-globular stage. GSE12403: Expression data from Arabidopsis seed compartments at the linear-cotyledon stage. Experiment Overall Design: Refer to individual Series

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Ryan Christopher Kirkbride

PROVIDER: E-GEOD-12404 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

The seed composition of Arabidopsis mutants for the group 3 sulfate transporters indicates a role in sulfate translocation within developing seeds.

Zuber Hélène H Davidian Jean-Claude JC Aubert Grégoire G Aimé Delphine D Belghazi Maya M Lugan Raphaël R Heintz Dimitri D Wirtz Markus M Hell Rüdiger R Thompson Richard R Gallardo Karine K

Plant physiology 20100811 2

Sulfate is required for the synthesis of sulfur-containing amino acids and numerous other compounds essential for the plant life cycle. The delivery of sulfate to seeds and its translocation between seed tissues is likely to require specific transporters. In Arabidopsis (Arabidopsis thaliana), the group 3 plasmalemma-predicted sulfate transporters (SULTR3) comprise five genes, all expressed in developing seeds, especially in the tissues surrounding the embryo. Here, we show that sulfur supply to ...[more]

PMID: 20702726

Similar Datasets

Transcription profiling of Arabidopsis seed compartments at the mature green stage.

Project description:We collected mature green 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 mature green-stage embryos. For the purposes of this study we captured 6 compartments: embryo proper, micropylar endosperm, cellularized peripherial endosperm, chalazal endosperm, chalazal seed coat and seed coat, as well sets of serial sections encompassing the entire mature green stage seed. Experiment Overall Design: Mature green 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).

2009-03-21 | E-GEOD-15165 | biostudies-arrayexpress

Transcription profiling of Arabidopsis seed compartments at the heart stage.

Project description:We collected heart stage 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 heart stage embryos. For the purposes of this study we captured 6 compartments: embryo proper, micropylar endosperm, peripheral endosperm, chalazal endosperm, chalazal seed coat and seed coat, as well sets of serial sections encompassing the entire heart stage seed. Experiment Overall Design: Heart stage seed compartments were isolated using the LMD6000 system. Total RNA was amplified and hybridized with Affymetrix ATH1 Arabidopsis array for 16 samples (embryo proper, micropylar endosperm, peripheral endosperm, seed coat and whole seeds, 2 biological replicates each; chalazal endosperm, chalazal seed coat, 3 biological replicates each).

2009-03-21 | E-GEOD-15160 | biostudies-arrayexpress

Transcription profiling of Arabidopsis seed compartments at the pre-globular stage

Project description:We collected pre-globular stage seed compartments from 7-micron paraffin sections using the Leica LMD6000 system in order to identify the mRNAs present in different compartments of seeds containing pre-globular-stage embryos was identified as those seeds containing embryo propers made up of between 2 and 8 cells. For the purposes of this study we captured 6 compartments: embyro proper, micropylar endosperm, peripheral endosperm, chalazal endosperm, chalazal seed coat and general seed coat. Serial sections of entire seeds were also captured for comparison. Experiment Overall Design: Pre-globular stage seed compartments or whole seeds were isolated using the LMD6000 system. Total RNA was amplified and hybridized with Affymetrix ATH1 Arabidopsis array for 14 samples (embryo proper, micropylar endosperm, peripheral endosperm, chalazal endosperm, general seed coat, chalazal seed coat, whole seeds, 2 biological replicates each).

2008-10-21 | E-GEOD-12402 | biostudies-arrayexpress

Transcription profiling of Arabidopsis thaliana seed compartments at the globular embryo stage.

Project description:We collected globular stage seed compartments from 5 or 7-micron paraffin sections using the Leica LMD6000 system in order to identify the mRNAs present in different compartments of an Arabidopsis seed containing a globular stage embryo. For the purposes of this study we broke down the seed into 7 capturable compartments: embyro proper, suspensor, micropylar endosperm, peripheral endosperm, chalazal endosperm, chalazal seed coat and general seed coat. Experiment Overall Design: Globular stage seed compartments were isolated using the LMD6000 system. Total RNA was amplified and hybridized with Affymetrix ATH1 Arabidopsis array for 15 samples (Embryo Proper, Micropylar Endosperm, Peripheral Endosperm, General Seed Coat and Chalazal Seed Coat, 2 biological replicates each and Chalazal Endosperm with 3 biological replicates).

2008-06-11 | E-GEOD-11262 | biostudies-arrayexpress

Transcription profiling of Arabidopsis seed compartments at the linear-cotyledon stage

Project description:We collected linear-cotyledon stage seed compartments from 5 to 7 micron paraffin sections using the Leica LMD6000 system in order to identify the mRNAs present in different compartments from seeds containing linear-coyledon-stage embryos. For the purposes of this study we captured 5 compartments: embyro proper, cellularized endosperm, chalazal endosperm, chalazal seed coat and general seed coat. Experiment Overall Design: linear-cotyledon stage seed compartments were isolated using the LMD6000 system. Total RNA was amplified and hybridized with Affymetrix ATH1 Arabidopsis array for 10 samples (embryo proper, micropylar endosperm, cellularized endosperm, general seed coat and chalazal seed coat, 2 biological replicates each ).

2008-10-21 | E-GEOD-12403 | biostudies-arrayexpress

Expression data from Arabidopsis seed compartments at the bending coyledon stage

Project description: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. 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).

2010-02-21 | E-GEOD-20039 | biostudies-arrayexpress

Transcription profiling of soybean seeds containing early maturation stage embryos

Project description:We microdissected each compartment from 8-micron paraffin sections using the Leica LMD6000 system to identify all genes active in different compartments of a soybean seed containing a early maturation-stage embryo. Experiment Overall Design: early maturation-stage seed compartments were isolated using the Leica LMD6000 system. Total RNA was amplified and hybridized with Affymetrix Soybean Genome Arrays.

2008-06-17 | E-GEOD-8112 | biostudies-arrayexpress

Methylation Changes in Soybean Early Maturation Seed Compartments Using LCM

Project description:What methylation changes are occurring in different compartments of early maturation stage seed largely remains unknown. To uncover the possible role of DNA methylation in different compartments of early maturation stage seed, we characterized the methylome of two major compartments in embryonic cotyledon: cotyledon abaxial parenchyma (EM-COT-ABPY) and cotyledon adaxial parenchyma (EM-COT-ADPY) using Illumina sequencing. Illumina sequencing of bisulfite-converted genomic DNA from cotyledon abaxial parenchyma (EM-COT-ABPY) and cotyledon adaxial parenchyma (EM-COT-ADPY) compartments.

2012-05-11 | E-GEOD-37893 | biostudies-arrayexpress

Transcription profiling of soybean seed compartments containing heart stage embryos

Project description:We microdissected each compartment from 8-micron paraffin sections using the Leica AS LMD system to identify all genes active in different compartments of a soybean seed containing a heart-stage embryo. Experiment Overall Design: heart-stage seed compartments were isolated using the Leica AS LMD system. Total RNA was amplified and hybridized with Affymetrix Soybean Genome Arrays.

2008-06-15 | E-GEOD-7511 | biostudies-arrayexpress

Transcription profiling of soybean seed compartments with embryos at the cotyledon stage

Project description:We microdissected each compartment from 8-micron paraffin sections using the Leica LMD6000 system to identify all genes active in different compartments of a soybean seed containing a cotyledon-stage embryo. Experiment Overall Design: cotyledon-stage seed compartments were isolated using the Leica LMD6000 system. Total RNA was amplified and hybridized with Affymetrix Soybean Genome Arrays.

2008-06-15 | E-GEOD-7881 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data