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Browse SoyPLEX Experiment Data

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Genomic Expression Profiling of Mature Soybean (Glycine max) Pollen
Chui,E,WONG, University of Melbourne, Parkville, Australia (acewong@unimelb.edu.au)
Experiment design (5 hybridizations)
tissue type name
•mature pollen •sporophytic tissue

This experiment has been imported by PLEXdb from NCBI GEO (GSE12286)

Series_summary:
Background: Pollen, the male partner in the rep...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Genomic Expression Profiling of Mature Soybean (Glycine max) Pollen
Accession No: GM21
Microarray: Soybean
Visibility: public
Experiment Type:
Experiment Factor(s):
tissue type name
•mature pollen   •sporophytic tissue
Quality Control: biological replicates
Treatment summary:
 tissue type name  # replicates
 mature pollen  3
 sporophytic tissue  2
Total hybridizations: 5
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE12286)

Series_summary:
Background: Pollen, the male partner in the reproduction of flowering plants, comprises either two or three cells at maturity. The current knowledge of the pollen transcriptome is limited to the model plant Arabidopsis thaliana, which has tri-cellular pollen grains at maturity.
Comparative studies on pollen of other genera, particularly crop plants, are needed to understand the pollen gene networks that are subject to functional and evolutionary conservation. In this study, we used the Affymetrix Soybean GeneChip® to perform transcriptional profiling on mature bi-cellular soybean pollen. Results: Compared to the sporophyte transcriptome, the soybean pollen transcriptome revealed a restricted and unique repertoire of genes, with a significantly greater proportion of specifically expressed genes than is found in the sporophyte tissue. Comparative analysis shows that, among the 37,500 soybean unique transcripts addressed in this study, 10,299 genes (27.46%) are expressed in pollen. Of the pollen-expressed genes, about 9,489 (92.13%) are also expressed in sporophytic tissues, and 810 (7.87%) are selectively expressed in pollen. Overall, the soybean pollen transcriptome shows an enrichment of transcription factors (mostly zinc finger family proteins), cell cycle-related transcripts, signal recognition receptors, ethylene responsive factors, chromatin remodeling factors, and members of the ubiquitin proteasome proteolytic pathway. Moreover, we identify several new pollen-specific candidate genes that might play a significant role in pollen biology.
Conclusion: This is the first report of a soybean pollen transcriptional profile. These data extend our current knowledge regarding regulatory pathways that govern the gene regulation and development of pollen. We also demonstrate that pollen is a rich store of regulatory proteins that are essential and sufficient for de novo gene expression. A comparison between transcription factors up-regulated in soybean and those upregulated in Arabidopsis revealed some divergence in the numbers and kinds of regulatory proteins expressed in both species.

Series_overall_design:
GeneChip Soybean Genome array (Affymetrix, Inc.) containing 37,500 unique transcript (probe) was used in this study. Three biological replicates for pollen and two biological replicates for sporophytic tissues (GSM236910 and GSM237070) were used

PLEXdb Curator's Note:
Sporophytic tissues consisted of primary stem, primary roots and mature leaves.
Publication: none
Created: 2009-06-08 12:09:38
Last Update: 2009-06-08 12:24:51
GEO Accession GSE12286
Submitter: PLEXdb Curator
Name: Chui,E,WONG
Institution: University of Melbourne, Parkville, Australia
Head of Laboratory: --
email(s):
Homepage:

 
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