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Series GSE19828 Query DataSets for GSE19828
Status Public on Jan 12, 2011
Title A transcriptomic approach to elucidate apricot fruit development using an oligonucleotide peach microarray
Platform organism Prunus persica
Sample organisms Prunus persica; Prunus armeniaca
Experiment type Expression profiling by array
Summary The aim of this study was to elucidate the potential use of microarray technology, developed in model species, in related, yet phenotypically distinct, species where few or no information are available. Considering the high degree of sequence conservation within the Rosaceae family and, in particular, among the Prunus species we employed the first available peach oligonucleotide microarray (µPEACH 1.0) for studying the transcrptomic profile during apricot fruit development (Prunus armeniaca L., cv. 'Goldrich'). Fruit material was harvested at three distinct stages, corresponding to immature-green stage (6 weeks before fully-ripe stage), mature-firm-ripe stage (change of peel color, 1 week before fully-ripe stage) and at fully-ripe stage and designated as S1, S2 and S3 stages, respectively. Apricot targets cDNA, when applied the µPEACH1.0, were showing significant hybridization with an average of 43% of spotted targets validating the use of μPEACH1.0 to profile the transcriptome of apricot fruit during development and ripening. Microarray analysis carried out on immature and ripe peach and apricot fruit separately pointed out that 70% of genes differentially expressed was detectable the same pattern of expression in both species. This result indicates that the transcriptome of immature and ripe fruit are quite similar in apricot and peach, but also highlighted the presence of transcript changes specie-specific. When μPEACH1.0 was used to profile apricot developing fruit were identified 400 and 74 genes differetially expressed during the transition from S1 to S2 stage and from S2 to S3 stage, respectively. Intriguingly, a considerable number of auxin action regulators (AUX/IAA) and of genes coding heat shock proteins (hsp) were highly up-regulated at the onset and late of ripening phase, respectively.The comparison between the expression profiles of these apricot genes and their peach hortologues showed a similar pattern for AUX/IAA and quite different for hsps. This result suggests a similar role for AUX/IAA in both species and a more important involvement for hsps in the apricot fruit ripening.
Overall design A direct comparison approach has been used to investigate changes at the transcriptional level in immature (S1, 45 days after full bloom), mature-firm ripe (S2, 80 DAFB) and fully ripe (S3, 87 DAFB) fruit of apricot (Prunus armeniaca, cv Goldrich). The comparison was carried out also for immature (S1) and ripe (S4) fruit of peach (Prunus persica cv Fantasia). RNA has been extracted from fruit harvest at above mentionated stages of development. At least four hybridization have been conducted for a total of four technical replicates (with dye-swap).
Contributor(s) Bonghi C, Manganaris GA, Rasori A, Bassi D, Tonutti P, Ramina A
Citation George A. Manganaris, Angela Rasori, Daniele Bassi, Filippo Geuna, Angelo Ramina, Pietro Tonutti and Claudio Bonghi. Comparative transcript profiling of apricot (Prunus armeniaca L.) fruit development and on-tree ripening. Tree Genetics & Genomes. 2011; 1-8.
Submission date Jan 11, 2010
Last update date Mar 21, 2012
Contact name claudio Bonghi
Phone +390498272844
Fax +390498272850
Organization name University of Padova
Street address Viale dell'UNiversità, 16
City Legnaro
State/province Padova
ZIP/Postal code IT-35020
Country Italy
Platforms (1)
GPL8584 Prunus persica 5.7K microPEACH1.0
Samples (4)
GSM495132 fully ripe (S3) vs immature (S1) fruit of apricot
GSM495133 fully ripe (S4) vs immature (S1) fruit of peach
GSM495134 mature-firm ripe (S2) vs immature (S1) fruit of apricot
BioProject PRJNA122161

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE19828_RAW.tar 4.1 Mb (http)(custom) TAR (of MEV)
GSE19828_readme.txt 736 b (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file

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