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Microarray expression analysis of meiosis and microsporogenesis in hexaploid bread wheat
Wayne ,Matthew,Crismani, The University of Adelaide, Adelaide, Australia (wayne.crismani@adelaide.edu.au)
Experiment design (21 hybridizations)
developmental stage name
•pre-meiosis •leptotene-pachytene •diplotene-anaphaseI •telophaseI-telophaseII •tetrads •immature pollen •mature anthers

This experiment has been imported by PLEXdb from NCBI GEO (GSE6027)

Series_summary: Our understanding of the mechanisms that govern the...[complete overview]

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Experiment Name: Microarray expression analysis of meiosis and microsporogenesis in hexaploid bread wheat
Accession No: TA27
Microarray: Wheat
Visibility: public
Experiment Type:
Experiment Factor(s):
developmental stage name
•pre-meiosis   •leptotene-pachytene   •diplotene-anaphaseI   •telophaseI-telophaseII   •tetrads   •immature pollen   •mature anthers
Quality Control: technical replicates
Treatment summary:
 developmental stage name  # replicates
 pre-meiosis  3
 leptotene-pachytene  3
 diplotene-anaphaseI  3
 telophaseI-telophaseII  3
 tetrads  3
 immature pollen  3
 mature anthers  3
Total hybridizations: 21
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE6027)

Series_summary:
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.

Keywords: Time course

Series_overall_design:
The seven stages collected were pre-meiosis (PM), leptotene to pachytene (LP), diplotene to anaphase I (DA), telophase I to telophase II (TT), tetrads (T), immature pollen (IP) and mature anthers (MAN). Immediately after determining the stage, the remaining two anthers from the floret were placed into liquid nitrogen. After collecting at least 25 staged anthers for each time point from several biological samples, anthers from the respective stages were pooled. Leaf material used in this study was collected from glasshouse-grown plants (six weeks) and total RNA isolated using Trizol® (Gibco BRL, Australia) according to the manufacturer’s protocol.
Twenty micrograms of aRNA of from each of the seven samples were fragmented for hybridization to each microarray. In total three technical replicates were conducted for each of the seven stages examined. Affymetrix GeneChip® Wheat Genome Arrays were used for all samples. The arrays were hybridized and processed according to the manufacturer’s specifications.
Normalization of the microarray data was conducted using RMA. The software package Acuity 4 (Molecular Devices, CA, USA) was then used to analyze the microarray data.
Publication: 'Microarray expression analysis of meiosis and microsporogenesis in hexaploid bread wheat', Crismani W, Baumann U, Sutton T, Shirley N et al
BMC Genomics 2006 Oct 19;7:267
pubmed: 17052357
Created: 2009-07-06 11:36:42
Last Update: 2009-07-06 11:58:11
GEO Accession GSE6027
Submitter: PLEXdb Curator
Name: Wayne ,Matthew,Crismani
Institution: The University of Adelaide, Adelaide, Australia
Head of Laboratory: --
email(s):
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