 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Dec 23, 2011 |
| Title |
Expression data from Arabidopsis and Maize leaves |
| Organisms |
Arabidopsis thaliana; Zea mays |
| Experiment type |
Expression profiling by array
|
| 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.
|
| |
|
| Overall design |
Plants used for transcriptome analysis were grown from seeds for 2 weeks. 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 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.
|
| |
|
| Contributor(s) |
Magusin A |
| Citation |
Stokes et al. An association transcriptomics approach to the prediction of hybrid performance. Molecular Breeding. 2010
|
| |
| Submission date |
Jan 07, 2010 |
| Last update date |
Jun 12, 2017 |
| Contact name |
Andreas Magusin |
| E-mail(s) |
[email protected]
|
| Organization name |
John Innes Centre
|
| Department |
Crop Genetics
|
| Street address |
Norwich Research Park
|
| City |
Norwich |
| ZIP/Postal code |
NR47UH |
| Country |
United Kingdom |
| |
|
| Platforms (2) |
| GPL198 |
[ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array |
| GPL4032 |
[Maize] Affymetrix Maize Genome Array |
|
| Samples (12)
|
| GSM494278 |
Arabidopsis tissue from phenotype Ag, biological replicate 1 |
| GSM494279 |
Arabidopsis tissue from phenotype Ag, biological replicate 2 |
| GSM494280 |
Arabidopsis tissue from phenotype Ag, biological replicate 3 |
| GSM494281 |
Arabidopsis tissue from phenotype Br, biological replicate 1 |
| GSM494282 |
Arabidopsis tissue from phenotype Br, biological replicate 2 |
| GSM494283 |
Arabidopsis tissue from phenotype Br, biological replicate 3 |
| GSM494284 |
Maize tissue from phenotype B73, biological replicate 1 |
| GSM494285 |
Maize tissue from phenotype B73, biological replicate 2 |
| GSM494286 |
Maize tissue from phenotype B73, biological replicate 3 |
| GSM494287 |
Maize tissue from phenotype B97, biological replicate 1 |
| GSM494288 |
Maize tissue from phenotype B97, biological replicate 2 |
| GSM494289 |
Maize tissue from phenotype B97, biological replicate 3 |
|
| Relations |
| BioProject |
PRJNA122115 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE19785_RAW.tar |
32.8 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
|
|
|
|
 |
Less...
More...