Plant Molecular Biology

, Volume 63, Issue 5, pp 651–668

Transcriptional profiling of wheat caryopsis development using cDNA microarrays

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

DOI: 10.1007/s11103-006-9114-y

Cite this article as:
Laudencia-Chingcuanco, D.L., Stamova, B.S., You, F.M. et al. Plant Mol Biol (2007) 63: 651. doi:10.1007/s11103-006-9114-y

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.

Keywords

Wheat Endosperm Profiling Transcriptome Caryopsis Development Microarray cDNA ANOVA 

Supplementary material

11103_2006_9114_MOESM1_ESM.doc (61 kb)
ESM 1 DOC (61 kb)

Copyright information

© Springer Science+Business Media B.V. 2007

Authors and Affiliations

  • Debbie L. Laudencia-Chingcuanco
    • 1
  • Boryana S. Stamova
    • 2
  • Frank M. You
    • 3
  • Gerard R. Lazo
    • 1
  • Diane M. Beckles
    • 3
  • Olin D. Anderson
    • 1
  1. 1.Genomics and Gene DiscoveryUSDA-ARS-WRRCAlbanyUSA
  2. 2.Genetic Resources Conservation ProgramUniversity of California-DavisDavisUSA
  3. 3.Plant Sciences DepartmentUniversity of California-DavisDavisUSA

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