Search   for 
Find Your Gene ·  Publications ·  Tools ·  Gene List Suite ·  Expression Atlases ·  About PLEXdb ·  Feedback
Login ID:
Password:
Plants
Arabidopsis
Barley
Brachypodium
Citrus
Cotton
Grape
Maize
Medicago
Poplar
Rice
Soybean
Sugarcane
Tomato
Wheat
Pathogens & Symbionts
Search Experiments
Download Data
Gene List Suite
Tools
Your Account
Documentation
News
Personnel
Links
 Data Release Policy 
PLEXdb is committed to making expression data publicly available to researchers world-wide...
complete policy
 

Browse GrapePLEX Experiment Data

Choose an experiment:
Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening
Ana Margarida Fortes, ICAT, Department of Plant Biology, Lisboa, Portugal (margafortes@yahoo.com)
Experiment design (21 hybridizations)
developmental stage name
•EL32 •EL34 •EL35 •EL36
year
•2007 •2008

This experiment has been imported by PLEXdb from NCBI GEO (GSE28779)

Series_summary:
Background Grapes (Vitis vinifera L.) are econom...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

Show
Experiment Name: Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening
Accession No: VV45
Microarray: GrapeGen
Visibility: public
Experiment Type:
Experiment Factor(s):
developmental stage name
•EL32   •EL34   •EL35   •EL36
year
•2007   •2008
Quality Control: biological replicates
Treatment summary:
 developmental stage name  year  # replicates
 EL32  2007  3
 EL32  2008  3
 EL34  2007  3
 EL34  2008  0
 EL35  2007  3
 EL35  2008  3
 EL36  2007  3
 EL36  2008  3
Total hybridizations: 21
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE28779)

Series_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.

Series_overall_design:
4 time points in 2007 season. 3 time points in 2008 season. 3 biological replicates.

PLEXdb Curator Notes:
KEY:
EL32= green grapes
EL34= medium green grapes
EL35= veraison grapes
EL36= ripe grapes
Publication: 'Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening.', Fortes AM, Agudelo-Romero P, Silva MS, Ali K, Sousa L, Maltese F, Choi YH, Grimplet J, Martinez-Zapater JM, Verpoorte R, Pais MS.
BMC Plant Biol 2011 Nov 2;11:149.
pubmed: 22047180
Created: 2012-11-15 12:51:07
Last Update: 2012-11-29 12:28:38
Released: 2012-12-05
GEO Accession GSE28779
Submitter: PLEXdb Curator
Name: Ana Margarida Fortes
Institution: ICAT, Department of Plant Biology, Lisboa, Portugal
Head of Laboratory: Ana Margarida Fortes
email(s):
Homepage:

 
Copyright@2001-2013 The PLEXdb Group
All rights reserved.

For problems with the webpages contact PLEXdb webmasters