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Sample GSM139918 Query DataSets for GSM139918
Status Public on Oct 14, 2006
Title Anther leptotene-pachytene rep3
Sample type RNA
 
Source name whole wheat anther, leptotene-pachytene
Organism Triticum aestivum
Characteristics Cultivar: Chinese Spring
Tissue: Anther
Stage: Leptotene-Pachytene
Biomaterial provider Able Laboratory - University of Adelaide
Treatment protocol Nil
Growth protocol Wild-type wheat was grown in a temperature-controlled glass house at 23 degrees Celsius (day) and 15 degrees Celsius (night) with a 14 hour photoperiod.
Extracted molecule total RNA
Extraction protocol Crismani W, Baumann U, Sutton T, Shirley N, Webster T, Spangenberg G, Langridge P, Able JA (2006) 'Microarray expression analysis of meiosis and microsporogenesis in hexaploid bread wheat', BMC Genomics (in press)
Label Biotin
Label protocol Crismani W, Baumann U, Sutton T, Shirley N, Webster T, Spangenberg G, Langridge P, Able JA (2006) 'Microarray expression analysis of meiosis and microsporogenesis in hexaploid bread wheat', BMC Genomics (in press)
 
Hybridization protocol Crismani W, Baumann U, Sutton T, Shirley N, Webster T, Spangenberg G, Langridge P, Able JA (2006) 'Microarray expression analysis of meiosis and microsporogenesis in hexaploid bread wheat', BMC Genomics (in press)
Scan protocol Crismani W, Baumann U, Sutton T, Shirley N, Webster T, Spangenberg G, Langridge P, Able JA (2006) 'Microarray expression analysis of meiosis and microsporogenesis in hexaploid bread wheat', BMC Genomics (in press)
Description Our understanding of the mechanisms that govern the cellular process of
meiosis is limited in higher plants with polyploid genomes. Bread wheat is an allohexaploid that behaves as a diploid during meiosis. Chromosome pairing is restricted to homologous chromosomes despite the presence of homoeologues in the nucleus. The importance of wheat as a crop and the extensive use of wild wheat relatives in breeding programs has prompted many years of cytogenetic and genetic research to develop an understanding of the control of chromosome pairing and recombination. The rapid advance of biochemical and molecular information on meiosis in model organisms such as yeast provides new opportunities to investigate the molecular basis of chromosome pairing control in wheat. However, building the link between the model and wheat requires points of data contact. We report here a large-scale transcriptomics study using the Affymetrix wheat GeneChip® aimed at providing this link between wheat and model systems and at identifying early meiotic genes. Analysis of the microarray data identified 1,350
transcripts temporally-regulated during the early stages of meiosis. Expression profiles with annotated transcript functions including chromatin condensation, synaptonemal complex formation,recombination and fertility were identified. From the 1,350 transcripts, 30 displayed at least an eight-fold expression change between and including pre-meiosis and telophase II, with more than 50% of these having no similarities to
known sequences in NCBI and TIGR databases. This resource is now available to support research into the molecular basis of pairing and recombination control in the complex polyploid, wheat.
Data processing RMA normalized (not log scaled)
 
Submission date Oct 13, 2006
Last update date Oct 13, 2006
Contact name Jason Alan Able
E-mail(s) jason.able@adelaide.edu.au
Organization name The University of Adelaide
Department School of Agriculture, Food & Wine
Street address Waite Main Building
City Adelaide
State/province SA
ZIP/Postal code 5064
Country Australia
 
Platform ID GPL3802
Series (1)
GSE6027 Microarray expression analysis of meiosis and microsporogenesis in hexaploid bread wheat

Data table header descriptions
ID_REF
VALUE Leptotene-Pachytene3

Data table
ID_REF VALUE
AFFX-BioB-3_at 205.9059844
AFFX-BioB-5_at 234.9431974
AFFX-BioB-M_at 213.0237236
AFFX-BioC-3_at 620.8354487
AFFX-BioC-5_at 458.8610982
AFFX-BioDn-3_at 2558.199463
AFFX-BioDn-5_at 1285.138792
AFFX-CreX-3_at 9212.610057
AFFX-CreX-5_at 6761.65272
AFFX-DapX-3_at 1576.163885
AFFX-DapX-5_at 56.56610092
AFFX-DapX-M_at 552.9304798
AFFX-LysX-3_at 498.8259409
AFFX-LysX-5_at 27.93408376
AFFX-LysX-M_at 127.9183433
AFFX-PheX-3_at 316.8551694
AFFX-PheX-5_at 42.92937001
AFFX-PheX-M_at 111.0253844
AFFX-r2-Bs-dap-3_at 2059.752945
AFFX-r2-Bs-dap-5_at 53.19569742

Total number of rows: 61290

Table truncated, full table size 1861 Kbytes.




Supplementary file Size Download File type/resource
GSM139918.CEL.gz 8.2 Mb (ftp)(http) CEL
Raw data provided as supplementary file

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