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Transcript Profiling of Common Bean Embryo Regions at Globular Stage Using Laser Capture Microdissection Coupled with RNA-Seq

ABSTRACT: We used laser capture microdissection (LCM) to capture globular stage common bean embryo proper and suspensor, and profiled the transcriptome of these two embryo regions using next-generation sequencing. Our long-term goal is to understand the region-specific differentiation processes that occur during early embryo development and how genes are activated specifically in the suspensor and embryo proper.

ORGANISM(S): Phaseolus vulgaris

PROVIDER: GSE57535 | GEO | 2014/05/10

SECONDARY ACCESSION(S): PRJNA246611

REPOSITORIES: GEO

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Transcript Profiling of Common Bean Embryo Regions at Globular Stage Using Laser Capture Microdissection Coupled with RNA-Seq

Project description:We used laser capture microdissection (LCM) to capture globular stage common bean embryo proper and suspensor, and profiled the transcriptome of these two embryo regions using next-generation sequencing. Our long-term goal is to understand the region-specific differentiation processes that occur during early embryo development and how genes are activated specifically in the suspensor and embryo proper. Illumina sequencing of transcripts from laser-captured embryo proper and suspensor regions of common bean globular stage embryo. Two biological replicates were collected for each embryo region.

2014-05-10 | E-GEOD-57535 | biostudies-arrayexpress

Transcript Profiling of Scarlet Runner Bean Embryo Regions at Globular Stage Using Laser Capture Microdissection Coupled with RNA-Seq

Project description:We used laser capture microdissection (LCM) to capture globular scarlet runner bean embryo propers and suspensors, and profiled the transcriptomes of these two embryo regions using next-generation sequencing. Our long-term goal is to understand the region-specific differentiation processes that occur during early embryo development and how genes are activated specifically in the suspensor and embryo proper. Illumina sequencing of transcripts from laser-captured embryo proper and suspensor regions of scarlet runner bean globular stage embryos. Two biological replicates were collected for each embryo region.

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Transcript Profiling of Scarlet Runner Bean Embryo Regions at Globular Stage Using Laser Capture Microdissection Coupled with RNA-Seq

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Transcript Profiling of Soybean Seed Compartments Using Laser Capture Microdissection Coupled With RNA-Seq

Project description:We used laser capture microdissection (LCM) to capture soybean seed compartments and profiled the transcriptomes of several compartments using next-generation sequencing. We profiled the transcriptomes of the embryo-proper and the suspensor region from globular stage embryos and the seed coat parenchyma layer of early maturation stage seeds using the Illumina GAIIx system. Illumina sequencing of transcripts from laser-captured embryo proper and suspensor of globular stage embryo and seed coat parenchyma layer of the early maturation stage seed.

2011-05-10 | E-GEOD-29162 | biostudies-arrayexpress

Transcript Profiling of Soybean Seed Compartments Using Laser Capture Microdissection Coupled With RNA-Seq

2011-05-10 | GSE29162 | GEO

Expression data from Arabidopsis globular stage embryo regions

Project description:We collected Arabidopsis globular stage embryo proper and suspensor from 5 or 7-micro paraffin sections using the Lecia LMD6000 system in order to identify the mRNAs present in different embryo regions.

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Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.

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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 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

Expression data from Arabidopsis seed compartments at the pre-globular stage

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