Functional & Integrative Genomics

, Volume 6, Issue 3, pp 202–211

An atlas of gene expression from seed to seed through barley development

Authors

  • Arnis Druka
    • Scottish Crop Research Institute
  • Gary Muehlbauer
    • Department of Agronomy and Plant GeneticsUniversity of Minnesota
  • Ilze Druka
    • Scottish Crop Research Institute
  • Rico Caldo
    • Department of Plant PathologyIowa State University
    • Center for Plant Responses to Environmental StressesIowa State University
  • Ute Baumann
    • University of Adelaide, Plant Science
  • Nils Rostoks
    • Scottish Crop Research Institute
  • Andreas Schreiber
    • University of Adelaide, Plant Science
  • Roger Wise
    • Department of Plant PathologyIowa State University
    • Center for Plant Responses to Environmental StressesIowa State University
    • Corn Insects and Crop Genetics Research, USDA-ARSIowa State University
  • Timothy Close
    • Department of Botany and Plant SciencesUniversity of California
  • Andris Kleinhofs
    • Department of Crop and Soil SciencesWashington State University
    • Department of Genetics and Cell BiologyWashington State University
  • Andreas Graner
    • Institut für Pflanzengenetik und Kulturpflanzenforschung
  • Alan Schulman
    • MTT/BI Plant Genomics LaboratoryUniversity of Helsinki
    • MTT Agrifood Research Finland
  • Peter Langridge
    • University of Adelaide, Plant Science
  • Kazuhiro Sato
    • Research Institute for BioresourcesOkayama University
  • Patrick Hayes
    • Department of Crop and Soil ScienceOregon State University
  • Jim McNicol
    • BioSS Office, Scottish Crop Research Institute
  • David Marshall
    • Scottish Crop Research Institute
    • Scottish Crop Research Institute
Original Paper

DOI: 10.1007/s10142-006-0025-4

Cite this article as:
Druka, A., Muehlbauer, G., Druka, I. et al. Funct Integr Genomics (2006) 6: 202. doi:10.1007/s10142-006-0025-4

Abstract

Assaying relative and absolute levels of gene expression in a diverse series of tissues is a central step in the process of characterizing gene function and a necessary component of almost all publications describing individual genes or gene family members. However, throughout the literature, such studies lack consistency in genotype, tissues analyzed, and growth conditions applied, and, as a result, the body of information that is currently assembled is fragmented and difficult to compare between different studies. The development of a comprehensive platform for assaying gene expression that is available to the entire research community provides a major opportunity to assess whole biological systems in a single experiment. It also integrates detailed knowledge and information on individual genes into a unified framework that provides both context and resource to explore their contributions in a broader biological system. We have established a data set that describes the expression of 21,439 barley genes in 15 tissues sampled throughout the development of the barley cv. Morex grown under highly controlled conditions. Rather than attempting to address a specific biological question, our experiment was designed to provide a reference gene expression data set for barley researchers; a gene expression atlas and a comparative data set for those investigating genes or regulatory networks in other plant species. In this paper we describe the tissues sampled and their transcriptomes, and provide summary information on genes that are either specifically expressed in certain tissues or show correlated expression patterns across all 15 tissue samples. Using specific examples and an online tutorial, we describe how the data set can be interrogated for patterns and levels of barley gene expression and how the resulting information can be used to generate and/or test specific biological hypotheses.

Keywords

BarleyDevelopmentGene expression

Copyright information

© Springer-Verlag 2006