GrainGenes Reference Report: GGS-79-227
Reference
GGS-79-227
Title
Construction of a full-length cDNA library from young spikelets of hexaploid wheat and its characterization by large-scale sequencing of expressed sequence tags.
Journal
Genes & Genetic Systems
Year
2004
Volume
79
Pages
227-232
Author
Ogihara Y
[ Show all 12 ]
Abstract
The polyploid nature of wheat is a key characteristic of the plant. Full-length complementary DNAs (cDNAs) provide essential information that can be used to annotate the genes and provide a functional analysis of these genes and their products. We constructed a full-length cDNA library derived from young spikelets of common wheat, and obtained 24056 expressed sequence tags (ESTs) from both ends of the cDNA clones. These ESTs were grouped into 3605 contigs using the phrap method, representing expressed loci from each of the 3 genomes. Using BLAST, 3605 contigs were grouped into 1902 gene clusters, showing that the loci of the 3 genomes are not always expressed. A homology search of these gene clusters against a wheat EST database (15964 gene clusters) and a rice full-length cDNA database (21447 gene clusters) revealed that a quarter of the wheat full-length cDNAs were novel. A protein database of Arabidopsis thaliana was used to examine the functional classification of these gene clusters. The GC content in the 5prime-UTR region of wheat cDNAs was compared to that of rice. Forty-three genes (3.5% of wheat cDNAs homologous to those of rice) possessed distinct GC content in the 5prime-UTR region, suggesting different breeding behaviours of wheat and rice
External Databases
Pubmed: 15514442
Keyword
arabidopsis thaliana
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GrainGenes is a product of the Agricultural Research Service of the US Department of Agriculture.
GrainGenes Reference Report: GGS-79-227
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GrainGenes is a product of the Agricultural Research Service of the US Department of Agriculture. | |||