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| Status |
Public on Dec 13, 2017 |
| Title |
Integrative analysis of the late maturation programme and desiccation tolerance mechanisms in intermediate coffee seeds |
| Organism |
Coffea arabica |
| Experiment type |
Expression profiling by array
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| Summary |
The intermediate seed category was defined in the early 1990s using coffee (Coffea arabica) as a model. In contrast to orthodox seeds, intermediate seeds cannot survive complete drying, which is a major constraint for seed storage, for both biodiversity conservation and agricultural purposes. However, intermediate seeds are considerably more tolerant to drying than recalcitrant seeds, which are highly sensitive to desiccation. To gain insight into the mechanisms governing such differences, changes in desiccation tolerance (DT), hormone content and the transcriptome were analysed in developing coffee seeds. Acquisition of DT coincided with a dramatic transcriptional switch characterised by the repression of primary metabolism, photosynthesis and respiration, and the upregulation of genes coding for late embryogenesis abundant (LEA) proteins, heat shock proteins (HSP) and antioxidant enzymes. Analysis of heat-stable proteome in the mature coffee seed confirmed the accumulation of LEA proteins identified at the transcript level. Transcriptome analysis also suggests a major role for ABA and for the transcription factors CaHSFA9, CaDREB2G, CaANAC029, CaPLATZ and CaDOG-like in DT acquisition. The ability of CaHSFA9 and CaDREB2G to trigger HSP gene transcription was validated by Agrobacterium-mediated transformation of coffee somatic embryos.
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| Overall design |
Three biological replicates were made for each seed developing stage analyzed. Each stage was compared to a unique reference (an equimolar pool of each stage). The following comparisons were made: ST1-reference, ST2-reference, ST3-reference, ST4-reference, ST5-reference, ST6-reference, ST7-reference. In all, we performed microarray analyses on 42 slides [3 (replicates) x 2 (dyes) x 7 (stages)].
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| Contributor(s) |
Dussert S, Joët T |
| Citation(s) |
29361125 |
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| Submission date |
Dec 11, 2017 |
| Last update date |
Mar 14, 2018 |
| Contact name |
Thierry JOET |
| E-mail(s) |
thierry.joet@ird.fr
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| Organization name |
IRD (Institut de Recherche pour le Développement)
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| Department |
DIADE
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| Street address |
911 Avenue Agropolis
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| City |
Montpellier |
| ZIP/Postal code |
34394 |
| Country |
France |
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| Platforms (1) |
| GPL24372 |
MGX_Coffee_microarray_15K [PROBE NAME] |
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| Samples (42)
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| Relations |
| BioProject |
PRJNA422131 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE107949_RAW.tar |
25.1 Mb |
(http)(custom) |
TAR (of TXT) |
| Processed data included within Sample table |
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