Submitted to: Plant Molecular Biology
Publication Type: Peer reviewed journal
Publication Acceptance Date: 11/6/2006
Publication Date: 1/9/2007
Citation: Chingcuanco, D., Stamova, B., You, F., Lazo, G., Beckles, D., Anderson, O. 2007. Transcriptional profiling of wheat caryopsis development using cDNA microarrays. Plant Molecular Biology. 63:651-668. Interpretive Summary: Understanding how wheat grain develops and functions will help generate better tools to manipulate its characteristics to improve yield and grain qualities important to end-users. We used global gene expression analyses to identify genes and pathways that control key events in wheat grain development. We examined the differential expression of genes in grains 3, 7, 14, 21, 28 and 35 days post anthesis. The cDNA microarrays used in this study represented 7,833 tentative unique genes, 5,818 of which are mapped. Our analysis identified 2,295 genes that are differentially expressed during grain development. Genes that show peak of expression at specific stages of development were also identified. Our results provide new information on the temporal expression of genes that are uncharacterized.
Technical Abstract: A wheat cDNA array was generated and used to examine the expression of 7,833 unique genes during caryopsis development. Analysis of the transcriptome at 6 different time-points covering the developmental stages from coenocytic endosperm to physiological maturity revealed dynamic transcript accumulation profiles. About 30% (2,295) of the genes on the array were identified to be differentially expressed using ANOVA. K-means clustering algorithm grouped the differentially expressed genes into 10 clusters, revealing co-expression of genes involved in the same pathway such as carbohydrate and protein synthesis or preparation for desiccation. Comparison of genes differentially expressed between two time-points revealed that major re-programming events occur at 3 to 7 DPA and 7 to 14 DPA. Functional annotation of genes that show peak expression at specific time-points correlates with the developmental events associated with the respective stages. Results provide information on the temporal expression during caryopsis development for 979 of the differentially expressed genes with unknown function.