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Browse MaizePLEX Experiment Data

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Expression data from Arabidopsis and Maize leaves(Maize only at PLEXdb)
Andreas Magusin, John Innes Centre, Department of Computational and Systems Biology, Norwich, United Kingdom (andreas.magusin@bbsrc.ac.uk)
Experiment design (6 hybridizations)
genotype
•Maize B73 •Maize B97

This experiment has been imported by PLEXdb from NCBI GEO (GSE19785)

Series_summary:
Many animal and plant species exhibit increased ...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Expression data from Arabidopsis and Maize leaves(Maize only at PLEXdb)
Accession No: ZM51
Microarray: maize18k
Visibility: public
Experiment Type:
Experiment Factor(s):
genotype
•Maize B73   •Maize B97
Quality Control: biological replicates
Treatment summary:
 genotype  # replicates
 Maize B73  3
 Maize B97  3
Total hybridizations: 6
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE19785)

Series_summary:
Many animal and plant species exhibit increased growth rates, reach larger sizes and, in the cases of crops and farm animals, produce higher yields when bred as hybrids between genetically differing strains, a phenomenon known as hybrid vigour or heterosis. Despite the importance of heterosis, and its extensive genetic analysis, there has been little understanding of its molecular basis. We aimed to determine whether characteristics of the leaf transcriptome, as an indicator of the innate functional genetic architecture of a plant line, could be used as markers to predict heterosis and the performance of hybrids, a methodology we term Association Transcriptomics. Relationships between transcript abundance of specific genes and the values of heterosis and heterosis-dependent traits were identified and mathematical models were constructed that relate gene expression characteristics in inbred lines of Arabidopsis thaliana and maize with vegetative biomass and for grain yield, respectively, in corresponding hybrids.

Series_overall_design:
Plants used for transcriptome analysis were grown from seeds for 2 weeks. Maize seeds were first imbibed in distilled water for 2 days in glasshouse conditions to break dormancy, before transfer to peat and sand P7 pots. They were grown in long day glass house conditions (16 hours photoperiod) at 22 degrees Celsius. Aerial parts above the coleoptiles were excised, weighed and frozen in liquid nitrogen. All plants were harvested as close as practicable to the middle of the photoperiod. Plants for yield trials were grown in the field at Clayton, NC, U.S.A. in 2005. Forty plants of each hybrid were grown in duplicate 0.0007 hectare plots.

Stokes D., Fraser F., Morgan C., O'Neill C. M., Dreos R., Magusin A., Szalma S., Bancroft I. (2010)
An association transcriptomics approach to the prediction of hybrid performance
Molecular Breeding 26 (1) 91-106
DOI:10.1007/s11032-009-9379-3
PLEXdb Curator’s Note:
PLEXdb has imported only the maize samples from this series into ZM51. The 6 samples from Arabidopsis have not been imported.
Publication: 'An association transcriptomics approach to the prediction of hybrid performance', Stokes D., Fraser F., Morgan C., O'Neill C. M., Dreos R., Magusin A., Szalma S., Bancroft I.
Molecular Breeding 26 (1) 91-106 DOI:10.1007/s11032-009-9379-3
Created: 2012-03-20 10:49:04
Last Update: 2012-03-20 11:40:39
Released: 2012-03-20
GEO Accession GSE19785
Submitter: PLEXdb Curator
Name: Andreas Magusin
Institution: John Innes Centre, Department of Computational and Systems Biology, Norwich, United Kingdom
Head of Laboratory: Ian Bancroft
email(s):
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