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| Status |
Public on Aug 11, 2015 |
| Title |
Transcriptome analysis during seed development provides insights into altered gene expression in Glycine max |
| Organism |
Glycine max |
| Experiment type |
Expression profiling by array
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| Summary |
The temporal expression profile of Glycine max seeds was carried out to identify genes that are differentially expressed (DE) during seed development. Using the Affymetrix chip, we have for the first time provided a holistic view of the transcriptional landscape during seed development in four different developmental stages in Glycine max. cv. Pusa 16. The analysis of the differential expression patterns and functional category enrichment of DE genes highlighted specific and common significant coordination and enrichment of various biological processes during seed development which have led to the identification of few candidate genes related to inositol metabolism and especially in phytate biosynthesis.
In conclusion, we have shown here a logical approach to identify possible candidate genes for fine tuning the metabolic flux for phytate generation, which may be altered by metabolic engineering in developing a low phytate phenotype.
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| Overall design |
Seeds of Glycine max grown at 28/26°C, 16h/8h light/dark were collected at different developmental stages( 0-4mm, 4-8mm, 8-12mm and 12-16mm ) and analyzed. Samples in triplicates from each developmental stage were used for data generation on Affymetrix Chip, each time the earlier developmental stage was considered as control Vs the treatment, corresponding to the later developmental stage. For each biological replicates, RNA was extracted from 20 seeds collected from 5 different plants, grown in the same conditions using the Trizol method. RNA integrity was analyzed using bio analyzer (with RIN value more than 8).
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| Contributor(s) |
Sachdev A, Punjabi M, Krishnan V, Jolly M, Hada A, Basak N, Pandey V, Marathe A, Kansal R, Dahuja A, Viswanathan C, Rai RD |
| Citation missing |
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| Submission date |
Jun 12, 2015 |
| Last update date |
Nov 22, 2016 |
| Contact name |
Archana Sachdev |
| E-mail(s) |
arcs_bio@yahoo.com
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| Organization name |
Indian Agricultural Research Institute
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| Department |
Biochemistry
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| Street address |
Pusa campus
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| City |
New Delhi |
| State/province |
NCR Delhi |
| ZIP/Postal code |
110012 |
| Country |
India |
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| Platforms (2) |
| GPL4592 |
[Soybean] Affymetrix Soybean Genome Array |
| GPL13674 |
[SoyGene-1_0-st] Affymetrix Soybean Gene 1.0 ST Array [transcript (gene) version] |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA292501 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE69821_RAW.tar |
46.6 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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