• Open Access

Comparative deep transcriptional profiling of four developing oilseeds

Authors

  • Manuel A. Troncoso-Ponce,

    1. Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA
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    • These authors contributed equally to this work.

    • Present address: Department of Plant Molecular Genetics, Centre for Research in Agricultural Genomics, Barcelona 08034, Spain.

  • Aruna Kilaru,

    1. Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, MI 48824, USA
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    • These authors contributed equally to this work.

    • Present address: Department of Biological sciences, East Tennessee State University, Johnson City, TN 37614, USA.

  • Xia Cao,

    1. Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA
    2. Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, MI 48824, USA
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  • Timothy P. Durrett,

    1. Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA
    2. Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, MI 48824, USA
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    • Present address: Department of Biochemistry, Kansas State University, Manhattan, KS.

  • Jilian Fan,

    1. Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA
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    • Present address: Biology Department, Brookhaven National Laboratory, Upton, NY 11973, USA.

  • Jacob K. Jensen,

    1. Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA
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  • Nick A. Thrower,

    1. Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, MI 48824, USA
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  • Markus Pauly,

    1. Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, MI 48824, USA
    2. MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824, USA
    3. Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI 48824, USA
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    • Present address: Energy Biosciences Institute, 130 Calvin Hall, MC 5230, Berkeley, CA 94720, USA.

  • Curtis Wilkerson,

    1. Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA
    2. Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, MI 48824, USA
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  • John B. Ohlrogge

    Corresponding author
    1. Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA
    2. Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, MI 48824, USA
      (fax +1 517 353 1926; e-mail ohlrogge@msu.edu).
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(fax +1 517 353 1926; e-mail ohlrogge@msu.edu).

Summary

Transcriptome analysis based on deep expressed sequence tag (EST) sequencing allows quantitative comparisons of gene expression across multiple species. Using pyrosequencing, we generated over 7 million ESTs from four stages of developing seeds of Ricinus communis, Brassica napus, Euonymus alatus and Tropaeolum majus, which differ in their storage tissue for oil, their ability to photosynthesize and in the structure and content of their triacylglycerols (TAG). The larger number of ESTs in these 16 datasets provided reliable estimates of the expression of acyltransferases and other enzymes expressed at low levels. Analysis of EST levels from these oilseeds revealed both conserved and distinct species-specific expression patterns for genes involved in the synthesis of glycerolipids and their precursors. Independent of the species and tissue type, ESTs for core fatty acid synthesis enzymes maintained a conserved stoichiometry and a strong correlation in temporal profiles throughout seed development. However, ESTs associated with non-plastid enzymes of oil biosynthesis displayed dissimilar temporal patterns indicative of different regulation. The EST levels for several genes potentially involved in accumulation of unusual TAG structures were distinct. Comparison of expression of members from multi-gene families allowed the identification of specific isoforms with conserved function in oil biosynthesis. In all four oilseeds, ESTs for Rubisco were present, suggesting its possible role in carbon metabolism, irrespective of light availability. Together, these data provide a resource for use in comparative and functional genomics of diverse oilseeds. Expression data for more than 350 genes encoding enzymes and proteins involved in lipid metabolism are available at the ‘ARALIP’ website (http://aralip.plantbiology.msu.edu/).

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