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Series GSE10607 Query DataSets for GSE10607
Status Public on Feb 20, 2009
Title Genome-wide analysis of gene expression in the soybean shoot apical meristem
Organism Glycine max
Experiment type Expression profiling by array
Summary The shoot apical meristem (SAM) contains undifferentiated stem cells that are responsible for the initiation of above-ground organs, and eventually the general architecture of the plant. To gain insight into the nature of genetic programs and the regulatory networks underlying SAM function in soybean, we have used Affymetrix soybean GeneChip® to investigate the transcript profiles associated with micro-dissected SAMs or axillary meristems (AMs). While the microarray data disclosed the conservation of transcriptional signature between the two types of meristems, subsequent comparison of SAM transcript profile with that of non-meristem (NM) tissue revealed a total of 1090 and 1523 transcripts that are significantly up- or down-regulated in the SAM. Further in situ hybridization analysis on selected transcripts has implicated their roles in SAM maintenance and the establishment of organ polarity. We also identified a gene that could potentially serve as a novel marker that distinguishes the differentiating cells in the meristem from the pluripotent stem cells. Along with many unknowns, transcripts with putative annotation have also been identified that has allowed us to infer SAM regulatory roles for various families of transcription factors as well as products associated with auxin-mediated responses, cell division and proliferation, epigenetic regulation, miRNA regulation and protein turnover. Computational analysis on the promoter regions of Arabidopsis orthologs of genes with high expression in the soybean SAM revealed a conserved over-representation of three cis-acting regulatory motifs. Our microarray data thus represents a rich source of target genes for further study into the meristem function and maintenance.
Keywords: meristem transcript profile
Overall design A total of six microarray hybridization experiments were performed to obtain transcript profiles of the three tissues with the incorporation of two independent biological replicates.
Contributor(s) Haerizadeh F, Wong CE, Singh MB, Bhalla PL
Citation(s) 19115044
Submission date Feb 22, 2008
Last update date Nov 22, 2016
Contact name Chui E WONG
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 (6)
GSM236910 Soybean_nonapicalmeristem
GSM237068 Soy_shoot apical meristem
GSM237069 Soy_shoot apical meristem2
BioProject PRJNA107777

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Supplementary file Size Download File type/resource
GSE10607_RAW.tar 29.8 Mb (http)(custom) TAR (of CEL, CHP)
Raw data provided as supplementary file
Processed data included within Sample table

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