Identification of differentially expressed UniGenes in developing wheat seed using digital differential display

Eujayl, Imad A. and Morrison, C. (2009) Identification of differentially expressed UniGenes in developing wheat seed using digital differential display. Journal of Cereal Science. 49:316-318.

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Abstract

The wheat UniGene sets, derived from over one million Expressed Sequence Tags (ESTs) in the NCBI
GenBank, offer a platform for identifying differentially expressed genes in wheat seeds. This report
illustrates a means to efficiently utilize this public database for gene expression (transcriptome) profiling
of developing wheat seed. Using a data mining tool known as Digital Differential Display (DDD), thirteen
pair-wise comparisons were performed on seven seed cDNA libraries from five varieties at various seed
development stages. DDD identified 46 seed-specific UniGene sets, excluding the well characterized
‘‘housekeeping’’ and seed storage protein genes. Additionally, seed- and developmentally-specific
UniGenes were identified. Some of these genes encode for proteins such as purothionins, serpins,
a-amylase inhibitors, lipid transfer proteins, and other unknown but novel gene sequences. Specifically,
the wheat serpin and b-purothionin precursor were found to be expressed at higher levels in hard
varieties than soft varieties. This study supports the starting premise that by implementing in-silico
analysis of the wheat UniGene database, it is possible to rapidly create transcriptional profiles of known
and novel genes in developing seeds.

Item Type:	Article
NWISRL Publication Number:	1286
Subjects:	Research methodology
Depositing User:	Users 6 not found.
Date Deposited:	17 Apr 2009 15:04
Last Modified:	18 Oct 2016 15:14
Item ID:	1310
URI:	https://eprints.nwisrl.ars.usda.gov/id/eprint/1310