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Comparative transcriptomic analysis of developing cotton cotyledons and embryo axis.
- Source :
-
PloS one [PLoS One] 2013 Aug 20; Vol. 8 (8), pp. e71756. Date of Electronic Publication: 2013 Aug 20 (Print Publication: 2013). - Publication Year :
- 2013
-
Abstract
- Background: As a by product of higher value cotton fibre, cotton seed has been increasingly recognised to have excellent potential as a source of additional food, feed, biofuel stock and even a renewable platform for the production of many diverse biological molecules for agriculture and industrial enterprises. The large size difference between cotyledon and embryo axis that make up a cotton seed results in the under-representation of embryo axis gene transcript levels in whole seed embryo samples. Therefore, the determination of gene transcript levels in the cotyledons and embryo axes separately should lead to a better understanding of metabolism in these two developmentally diverse tissues.<br />Results: A comparative study of transcriptome changes between cotton developing cotyledon and embryo axis has been carried out. 17,384 unigenes (20.74% of all the unigenes) were differentially expressed in the two adjacent embryo tissues, and among them, 7,727 unigenes (44.45%) were down-regulated and 9,657 unigenes (55.55%) were up-regulated in cotyledon.<br />Conclusions: Our study has provided a comprehensive dataset that documents the dynamics of the transcriptome at the mid-maturity of cotton seed development and in discrete seed tissues, including embryo axis and cotyledon tissues. The results showed that cotton seed is subject to many transcriptome variations in these two tissue types and the differential gene expression between cotton embryo axis and cotyledon uncovered in our study should provide an important starting point for understanding how gene activity is coordinated during seed development to make a seed. Further, the identification of genes involved in rapid metabolite accumulation stage of seed development will extend our understanding of the complex molecular and cellular events in these developmental processes and provide a foundation for future studies on the metabolism, embryo differentiation of cotton and other dicot oilseed crops.
- Subjects :
- Base Sequence
Carbohydrate Metabolism genetics
Cell Membrane metabolism
Chromatography, Gas
Cotyledon enzymology
Esters analysis
Fatty Acids biosynthesis
Gene Expression Regulation, Developmental
Genes, Plant genetics
Gossypol metabolism
Molecular Sequence Annotation
Plant Proteins genetics
Plant Proteins metabolism
Real-Time Polymerase Chain Reaction
Reproducibility of Results
Sequence Analysis, DNA
Transcription Factors metabolism
Cotyledon genetics
Cotyledon growth & development
Gene Expression Profiling
Gene Expression Regulation, Plant
Gossypium genetics
Gossypium growth & development
Transcriptome genetics
Subjects
Details
- Language :
- English
- ISSN :
- 1932-6203
- Volume :
- 8
- Issue :
- 8
- Database :
- MEDLINE
- Journal :
- PloS one
- Publication Type :
- Academic Journal
- Accession number :
- 23977137
- Full Text :
- https://doi.org/10.1371/journal.pone.0071756