Transcriptional profiling of wheat caryopsis development using cDNA microarrays

Debbie L. Laudencia-Chingcuanco, Boryana Stamova, Frank M. You, Gerard R. Lazo, Diane M. Beckles, Olin D. Anderson

Research output: Contribution to journalArticlepeer-review

65 Scopus citations

Abstract

The expression of 7,835 genes in developing wheat caryopses was analyzed using cDNA arrays. Using a mixed model analysis of variance (ANOVA) method, 29% (2,237) of the genes on the array were identified to be differentially expressed at the 6 different time-points examined, which covers the developmental stages from coenocytic endosperm to physiological maturity. Comparison of genes differentially expressed between two time-points revealed a dynamic transcript accumulation profile with major re-programming events that occur at 3-7, 7-14 and 21-28 DPA. A 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. Functional annotation of genes that show peak expression at specific time-points correlated with the developmental events associated with the respective stages. Results provide information on the temporal expression during caryopsis development for a significant number of differentially expressed genes with unknown function.

Original languageEnglish (US)
Pages (from-to)651-668
Number of pages18
JournalPlant Molecular Biology
Volume63
Issue number5
DOIs
StatePublished - Mar 1 2007

Keywords

  • ANOVA
  • Caryopsis
  • cDNA
  • Development
  • Endosperm
  • Microarray
  • Profiling
  • Transcriptome
  • Wheat

ASJC Scopus subject areas

  • Agronomy and Crop Science
  • Genetics
  • Plant Science

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