Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening

<p>Abstract</p> <p>Background</p> <p>Grapes (<it>Vitis vinifera </it>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...

Full description

Bibliographic Details
Main Authors: Martinez- Zapater José M, Grimplet Jerome, Choi Young H, Maltese Federica, Sousa Lisete, Ali Kashif, Silva Marta S, Agudelo-Romero Patricia, Fortes Ana M, Verpoorte Robert, Pais Maria S
Format: Article
Language:English
Published: BMC 2011-11-01
Series:BMC Plant Biology
Online Access:http://www.biomedcentral.com/1471-2229/11/149
_version_ 1811282101240070144
author Martinez- Zapater José M
Grimplet Jerome
Choi Young H
Maltese Federica
Sousa Lisete
Ali Kashif
Silva Marta S
Agudelo-Romero Patricia
Fortes Ana M
Verpoorte Robert
Pais Maria S
author_facet Martinez- Zapater José M
Grimplet Jerome
Choi Young H
Maltese Federica
Sousa Lisete
Ali Kashif
Silva Marta S
Agudelo-Romero Patricia
Fortes Ana M
Verpoorte Robert
Pais Maria S
author_sort Martinez- Zapater José M
collection DOAJ
description <p>Abstract</p> <p>Background</p> <p>Grapes (<it>Vitis vinifera </it>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 variation. 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.</p> <p>Results</p> <p>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 <it>véraison </it>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<sup>® </sup>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 5877 unigenes indicates the activation of common pathways between years despite the irregular development of Trincadeira grapes. These unigenes were assigned to the functional categories of "metabolism", "development", "cellular process", "diverse/miscellanenous functions", "regulation overview", "response to stimulus, stress", "signaling", "transport overview", "xenoprotein, transposable element" and "unknown". Quantitative RT-PCR validated microarrays results being carried out for eight selected genes and five developmental stages (EL 32, EL 34, EL 35, EL 36 and EL 38). Metabolic profiling using <sup>1</sup>H 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. These results were integrated with transcriptional profiling obtained using genome array to provide new information regarding the network of events leading to grape ripening.</p> <p>Conclusions</p> <p>Altogether the data obtained provides the most extensive survey obtained so far for gene expression and metabolites accumulated during grape ripening. Moreover, it highlighted information obtained in a poorly known variety exhibiting particular characteristics that may be cultivar specific or dependent upon climatic conditions. Several genes were identified that had not been previously reported in the context of grape ripening namely genes involved in carbohydrate and amino acid metabolisms as well as in growth regulators; metabolism, epigenetic factors and signaling pathways. Some of these genes were annotated as receptors, transcription factors, and kinases and constitute good candidates for functional analysis in order to establish a model for ripening control of a non-climacteric fruit.</p>
first_indexed 2024-04-13T01:45:37Z
format Article
id doaj.art-bc2eea452e0c43e29a822ca8628de16f
institution Directory Open Access Journal
issn 1471-2229
language English
last_indexed 2024-04-13T01:45:37Z
publishDate 2011-11-01
publisher BMC
record_format Article
series BMC Plant Biology
spelling doaj.art-bc2eea452e0c43e29a822ca8628de16f2022-12-22T03:08:03ZengBMCBMC Plant Biology1471-22292011-11-0111114910.1186/1471-2229-11-149Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripeningMartinez- Zapater José MGrimplet JeromeChoi Young HMaltese FedericaSousa LiseteAli KashifSilva Marta SAgudelo-Romero PatriciaFortes Ana MVerpoorte RobertPais Maria S<p>Abstract</p> <p>Background</p> <p>Grapes (<it>Vitis vinifera </it>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 variation. 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.</p> <p>Results</p> <p>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 <it>véraison </it>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<sup>® </sup>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 5877 unigenes indicates the activation of common pathways between years despite the irregular development of Trincadeira grapes. These unigenes were assigned to the functional categories of "metabolism", "development", "cellular process", "diverse/miscellanenous functions", "regulation overview", "response to stimulus, stress", "signaling", "transport overview", "xenoprotein, transposable element" and "unknown". Quantitative RT-PCR validated microarrays results being carried out for eight selected genes and five developmental stages (EL 32, EL 34, EL 35, EL 36 and EL 38). Metabolic profiling using <sup>1</sup>H 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. These results were integrated with transcriptional profiling obtained using genome array to provide new information regarding the network of events leading to grape ripening.</p> <p>Conclusions</p> <p>Altogether the data obtained provides the most extensive survey obtained so far for gene expression and metabolites accumulated during grape ripening. Moreover, it highlighted information obtained in a poorly known variety exhibiting particular characteristics that may be cultivar specific or dependent upon climatic conditions. Several genes were identified that had not been previously reported in the context of grape ripening namely genes involved in carbohydrate and amino acid metabolisms as well as in growth regulators; metabolism, epigenetic factors and signaling pathways. Some of these genes were annotated as receptors, transcription factors, and kinases and constitute good candidates for functional analysis in order to establish a model for ripening control of a non-climacteric fruit.</p>http://www.biomedcentral.com/1471-2229/11/149
spellingShingle Martinez- Zapater José M
Grimplet Jerome
Choi Young H
Maltese Federica
Sousa Lisete
Ali Kashif
Silva Marta S
Agudelo-Romero Patricia
Fortes Ana M
Verpoorte Robert
Pais Maria S
Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening
BMC Plant Biology
title Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening
title_full Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening
title_fullStr Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening
title_full_unstemmed Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening
title_short Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening
title_sort transcript and metabolite analysis in trincadeira cultivar reveals novel information regarding the dynamics of grape ripening
url http://www.biomedcentral.com/1471-2229/11/149
work_keys_str_mv AT martinezzapaterjosem transcriptandmetaboliteanalysisintrincadeiracultivarrevealsnovelinformationregardingthedynamicsofgraperipening
AT grimpletjerome transcriptandmetaboliteanalysisintrincadeiracultivarrevealsnovelinformationregardingthedynamicsofgraperipening
AT choiyoungh transcriptandmetaboliteanalysisintrincadeiracultivarrevealsnovelinformationregardingthedynamicsofgraperipening
AT maltesefederica transcriptandmetaboliteanalysisintrincadeiracultivarrevealsnovelinformationregardingthedynamicsofgraperipening
AT sousalisete transcriptandmetaboliteanalysisintrincadeiracultivarrevealsnovelinformationregardingthedynamicsofgraperipening
AT alikashif transcriptandmetaboliteanalysisintrincadeiracultivarrevealsnovelinformationregardingthedynamicsofgraperipening
AT silvamartas transcriptandmetaboliteanalysisintrincadeiracultivarrevealsnovelinformationregardingthedynamicsofgraperipening
AT agudeloromeropatricia transcriptandmetaboliteanalysisintrincadeiracultivarrevealsnovelinformationregardingthedynamicsofgraperipening
AT fortesanam transcriptandmetaboliteanalysisintrincadeiracultivarrevealsnovelinformationregardingthedynamicsofgraperipening
AT verpoorterobert transcriptandmetaboliteanalysisintrincadeiracultivarrevealsnovelinformationregardingthedynamicsofgraperipening
AT paismarias transcriptandmetaboliteanalysisintrincadeiracultivarrevealsnovelinformationregardingthedynamicsofgraperipening