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Gene regulation in parthenocarpic tomato fruit
Abhaya M Dandekar, University of California, Department of Plant Sciences (amdandekar@ucdavis.edu)
Experiment design (17 hybridizations)
genetic line
•wildtype with seeds •wildtype seeds removed •INO-laaM •DefH9-laaM •INO-RolB •DefH9-RolB

This experiment has been imported by PLEXdb from NCBI GEO (GSE14358) Series_summary: To evaluate the role of seeds in fruit quality, we induced...[complete overview]

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Experiment Name: Gene regulation in parthenocarpic tomato fruit
Accession No: LE5
Microarray: tomato10k
Visibility: public
Experiment Type:
Experiment Factor(s):
genetic line
•wildtype with seeds   •wildtype seeds removed   •INO-laaM   •DefH9-laaM   •INO-RolB   •DefH9-RolB
Quality Control: biological replicates
Treatment summary:
 genetic line  # replicates
 wildtype with seeds  3
 wildtype seeds removed  3
 INO-laaM  3
 DefH9-laaM  3
 INO-RolB  3
 DefH9-RolB  2
Total hybridizations: 17
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE14358)

Series_summary:
To evaluate the role of seeds in fruit quality, we induced parthenocarpy in tomato by regulating ovule-specific auxin synthesis or responsiveness using the INO promoter from A. thaliana, which is expressed in the outer layer of the integuments during early stages of ovule development. We compared these to fruit where the same coding regions were expressed from the DeFH9 promoter which is expressed in carpel tissues during early stages of ovule development. Expression of auxin synthesis or responsiveness genes by both of these promoters produced seedless parthenocarpic tomato fruit. We compared fruit samples using the Affymetrix tomato GeneChip (GPL4741) to determine how gene regulation and expression differed between wild-type and transgenic fruit.
Keywords: genetic modification

Series_overall_design:
Wild-type fruit with seeds was compared with transgenic lines INO-IaaM, DefH9-IaaM, INO-RolB, and DefH9-RolB. To find genes with seed-specific expression, we also compared the control with wild-type fruit from which seeds had been manually removed. We had three biological replicates for each treatment and control except DefH9-RolB, for which only two replicates were available. Each CEL file from the microarray represents one plant from each line.
Publication: 'Gene regulation in parthenocarpic tomato fruit.', Martinelli F, Uratsu SL, Reagan RL, Chen Y, Tricoli D, Fiehn O, Rocke DM, Gasser CS, Dandekar AM.
J Exp Bot 2009;60(13):3873-90.
pubmed: 19700496
Created: 2010-10-20 13:14:32
Last Update: 2010-10-20 13:39:13
Released: 2010-10-27
GEO Accession GSE14358
Submitter: PLEXdb Curator
Name: Abhaya M Dandekar
Institution: University of California, Department of Plant Sciences
Head of Laboratory: Abhaya M Dandekar
email(s):
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