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Browse WheatPLEX Experiment Data

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Transcriptome analysis of two Yr5 deletion mutants
Graham McGrann, John Innes Centre (graham.mcgrann@bbsrc.ac.uk,lesley.boyd@bbsrc.ac.uk)
Experiment design (9 hybridizations)
genotype
•Yr5_WT •Yr5_del55 •Yr5_del67

Transcriptional changes were assessed between the wheat near-isogenic line Lemhi*8/Yr5 and two mutants genotypes that contain deletions at the Yr5 ...[complete overview]

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Experiment Name: Transcriptome analysis of two Yr5 deletion mutants
Accession No: TA26
Microarray: Wheat
Visibility: public
Experiment Type:
Experiment Factor(s):
genotype
•Yr5_WT   •Yr5_del55   •Yr5_del67
Quality Control: biological replicates
Treatment summary:
 genotype  # replicates
 Yr5_WT  3
 Yr5_del55  3
 Yr5_del67  3
Total hybridizations: 9
Description: Transcriptional changes were assessed between the wheat near-isogenic line Lemhi*8/Yr5 and two mutants genotypes that contain deletions at the Yr5 region (Smith et al., Genome, 50:259-265,2007) using the Affymetrix wheat genome array GeneChip®. Seedlings of Lemhi*8/Yr5, Lemhi*8/Yr5/del67 and Lemhi*8/Yr5/del55 were grown to growth stage 12-13 (Zadoks et al., Weed Research 14: 415-421, 1974) under a 16/8 hour photoperiod cycle, supplemented with sodium lighting (240 μmol m-2 s-1) at day/night temperatures of 20°C/15°C and a relative humidity of 60%, in a spore-free greenhouse. Leaf samples from 6 seedlings were collected at growth stage 14 for RNA extraction and transcriptomics analysis from three independent replicates. Leaf tissue was ground under liquid nitrogen and total RNA extracted using the TRIzol reagent method, following the manufacturer’s instructions (Invitrogen, Carlsbad, CA). RNA samples were further purified using the Qiagen RNeasy mini-kit according to the manufacturer instructions (Qiagen) and RNA integrity was confirmed using the Agilent 2100 Bioanalyzer (Agilent). Affymetrix GeneChip processing, including RNA quality control, microarray hybridisation and data acquisition was performed through contract research services by the John Innes Genome Laboratory, John Innes Centre, Norwich, U.K. A total of nine hybridisations were performed.
Publication: none
Created: 2009-05-27 10:35:19
Last Update: 2009-05-29 00:30:11
Submitter: Graham Robert David McGrann
Name: Graham McGrann
Institution: John Innes Centre
Head of Laboratory: Dr Lesley Boyd
email(s):
Homepage:

 
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