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| Status |
Public on Sep 30, 2011 |
| Title |
Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening |
| Organism |
Vitis vinifera |
| Experiment type |
Expression profiling by array
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| Summary |
Background Grapes (Vitis vinifera L.) are economically the most important fruit crop worldwide. However, the complexity of molecular and biochemical events that lead to the onset of ripening of nonclimacteric fruits is not fully understood which is further complicated in grapes due to seasonal and cultivar specific variantion. The Portuguese wine variety Trincadeira gives rise to high quality wines but presents extremely irregular berry ripening among seasons probably due to high susceptibility to abiotic and biotic stresses. Results Ripening of Trincadeira grapes was studied taking into account the transcriptional and metabolic profilings complemented with biochemical data. The mRNA expression profiles of four time points spanning developmental stages from pea size green berries, through veraison and mature berries (EL 32, EL 34, EL 35 and EL 36) and in two seasons (2007 and 2008) were compared using the Affymetrix GrapeGen® genome array containing 23096 probesets corresponding to 18726 unique sequences. Over 50% of these probesets were significantly differentially expressed (1.5 fold) between at least two developmental stages. A common set of modulated transcripts corresponding to 5862 unigenes indicates the activation of common pathways in between years despite the irregular development of Trincadeira grapes. These unigenes were assigned in the functional categories of “metabolism, development”, “cellular process”, “diverse functions”, “regulation overview”, “response to stimulus, stress”, “signaling”, “transport overview”, “xenoprotein, transposable element” and “unknown”. Metabolic profiling using 1H NMR spectroscopy associated to two-dimensional techniques showed the importance of metabolites related to oxidative stress response, amino acid and sugar metabolism as well as secondary metabolism in grape ripening. This information was integrated with transcriptional profiling obtained using genome array and qRT-PCR for five developmental stages (EL 32, EL 34, EL 35, EL 36 and EL 38). Conclusions Altogether the results provide new information regarding the network of events leading to grape ripening as well as highlight features that may be cultivar specific namely in what concerns the role of carbohydrates and growth regulators´ metabolism as well as epigenetic factors and signaling pathways.
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| Overall design |
4 time points in 2007 season. 3 time points in 2008 season. 3 biological replicates.
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| Contributor(s) |
Fortes AM, Pais MS |
| Citation(s) |
22047180, 23565246 |
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| Submission date |
Apr 21, 2011 |
| Last update date |
Oct 28, 2019 |
| Contact name |
Ana Margarida Fortes |
| E-mail(s) |
[email protected]
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| Phone |
+351 21 7500382
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| Organization name |
BIOFIG_FCUL
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| Department |
Plant Biology
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| Lab |
Biotechnology and Plant Molecular Biology
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| Street address |
Campus da FCUL
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| City |
Lisboa |
| ZIP/Postal code |
1749-016 |
| Country |
Portugal |
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| Platforms (1) |
| GPL11004 |
Affymetrix GrapeGen Vitis vinifera Microarray [CDF: GrapeGena520510F] |
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| Samples (21)
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| GSM712552 |
2007 green grapes, EL32, biological replicate 1 |
| GSM712553 |
2007 green grapes, EL32, biological replicate 2 |
| GSM712554 |
2007 green grapes, EL32, biological replicate 3 |
| GSM712555 |
2007 medium green grapes, EL34, biological replicate 1 |
| GSM712556 |
2007 medium green grapes, EL34, biological replicate 2 |
| GSM712557 |
2007 medium green grapes, EL34, biological replicate 3 |
| GSM712558 |
2007 veraison grapes, EL35, biological replicate 1 |
| GSM712559 |
2007 veraison grapes, EL35, biological replicate 2 |
| GSM712560 |
2007 veraison grapes, EL35, biological replicate 3 |
| GSM712561 |
2007 ripe grapes, EL36, biological replicate 1 |
| GSM712562 |
2007 ripe grapes, EL36, biological replicate 2 |
| GSM712563 |
2007 ripe grapes, EL36, biological replicate 3 |
| GSM712564 |
2008 green grapes, EL32, biological replicate 1 |
| GSM712565 |
2008 green grapes, EL32, biological replicate 2 |
| GSM712566 |
2008 green grapes, EL32, biological replicate 3 |
| GSM712567 |
2008 veraison grapes, EL35, biological replicate 1 |
| GSM712568 |
2008 veraison grapes, EL35, biological replicate 2 |
| GSM712569 |
2008 veraison grapes, EL35, biological replicate 3 |
| GSM712570 |
2008 ripe grapes, EL36, biological replicate 1 |
| GSM712571 |
2008 ripe grapes, EL36, biological replicate 2 |
| GSM712572 |
2008 ripe grapes, EL36, biological replicate 3 |
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| Relations |
| BioProject |
PRJNA138677 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE28779_RAW.tar |
46.6 Mb |
(http)(custom) |
TAR (of CEL) |
| GSE28779_RMA2007Greenmediumvsgreen.txt.gz |
811.9 Kb |
(ftp)(http) |
TXT |
| GSE28779_RMA2007ripevsgreen.txt.gz |
803.6 Kb |
(ftp)(http) |
TXT |
| GSE28779_RMA2007veraisonvsgreen.txt.gz |
804.1 Kb |
(ftp)(http) |
TXT |
| GSE28779_RMA2008ripevsgreen.txt.gz |
802.6 Kb |
(ftp)(http) |
TXT |
| GSE28779_RMA2008veraisonvsgreen.txt.gz |
807.6 Kb |
(ftp)(http) |
TXT |
| Processed data included within Sample table |
| Processed data are available on Series record |
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