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Sample GSM139916 Query DataSets for GSM139916
Status Public on Oct 14, 2006
Title Anther leptotene-pachytene rep1
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-Pachytene1

Data table
ID_REF VALUE
AFFX-BioB-3_at 275.7309888
AFFX-BioB-5_at 280.8217257
AFFX-BioB-M_at 272.7632713
AFFX-BioC-3_at 772.6193712
AFFX-BioC-5_at 575.7307617
AFFX-BioDn-3_at 2765.445989
AFFX-BioDn-5_at 1269.354088
AFFX-CreX-3_at 9567.552397
AFFX-CreX-5_at 7199.385509
AFFX-DapX-3_at 1119.207761
AFFX-DapX-5_at 68.88791254
AFFX-DapX-M_at 407.0875591
AFFX-LysX-3_at 339.4295881
AFFX-LysX-5_at 25.07293319
AFFX-LysX-M_at 90.45024688
AFFX-PheX-3_at 269.4417512
AFFX-PheX-5_at 34.27262354
AFFX-PheX-M_at 87.77429108
AFFX-r2-Bs-dap-3_at 1370.324566
AFFX-r2-Bs-dap-5_at 47.17547051

Total number of rows: 61290

Table truncated, full table size 1861 Kbytes.




Supplementary file Size Download File type/resource
GSM139916.CEL.gz 8.4 Mb (ftp)(http) CEL
Raw data provided as supplementary file

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