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Series GSE12286 Query DataSets for GSE12286
Status Public on Mar 26, 2009
Title Genomic Expression Profiling of Mature Soybean (Glycine max) Pollen
Organism Glycine max
Experiment type Expression profiling by array
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.
 
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
 
Contributor(s) Haerizadeh F, Bhalla PL, Gresshoff PM, Singh MB
Citation(s) 19265555
Submission date Jul 30, 2008
Last update date Nov 22, 2016
Contact name Chui E WONG
E-mail(s) acewong@unimelb.edu.au
Organization name University of Melbourne
Department Land and Food
Lab Plant Molecular Biology and Biotechnology Group
Street address University of Melbourne
City Parkville
State/province Victoria
ZIP/Postal code 3010
Country Australia
 
Platforms (1)
GPL4592 [Soybean] Affymetrix Soybean Genome Array
Samples (5)
GSM308556 Mature Soybean (Glycine max) pollen grains replicate 1
GSM308559 Mature Soybean (Glycine max) pollen grains Replicate 2
GSM308560 Mature Soybean (Glycine max) pollen grains Replicate 3
Relations
BioProject PRJNA113571

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE12286_RAW.tar 22.1 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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