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| Status |
Public on Jul 15, 2024 |
| Title |
RNAseq of Brassica napus seed |
| Organism |
Brassica napus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
mRNA expression profiling of the embryo, endosperm (micropylar, peripheral, chalazal), and seed coat (outer, inner, chalazal, chalazal proliferating tissue) of the developing Brassica napus seed. Tissues were isolated using laser microdissection (LMD) from Brassica napus seeds at the globular, heart, and mature green stages of seed development.
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| Overall design |
To investigate the transcriptome of the B. napus seed throughout space and time, we sampled seeds across four developmental stages (ovule, globular, heart, and mature green)
We fixed seeds from each stage and embedded them in parrafin wax, then dissected out four fililal subregions (embryo proper, micropylar endosperm, peripheral endosperm, chalazal endosperm) and four maternal subregions (inner seed coat, outer seed coat, chalazal seed coat, and chalazal proliferating tissue) using laser microdissection (LMD)
We then performed RNA-seq on the samples from each seed stage and each available subregion.
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| Contributor(s) |
Ziegler DJ, Khan D, Kalichuk JL, Becker MG, Belmonte MF |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| BioProject |
PRJNA1065514 |
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| Submission date |
Jul 09, 2024 |
| Last update date |
Jul 15, 2024 |
| Contact name |
Mark Belmonte |
| Organization name |
University of Manitoba
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| Department |
Biological Sciences
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| Street address |
50 Sifton Rd.
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| City |
Winnipeg |
| State/province |
Manitoba |
| ZIP/Postal code |
R3T 2N2 |
| Country |
Canada |
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| Platforms (1) |
| GPL15579 |
Illumina HiSeq 2000 (Brassica napus) |
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| Samples (74)
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| Supplementary file |
Size |
Download |
File type/resource |
| GSE271809_TPM_allsamples.txt.gz |
38.3 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
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