Comparative proteomics of the recently and recurrently formed natural allopolyploid Tragopogon mirus (Asteraceae) and its parents

Authors

  • Jin Koh,

    1. Department of Biology, University of Florida, Gainesville, FL 32611, USA
    2. Interdisciplinary Center for Biotechnology Research, University of Florida, PO Box 103622, Gainesville, FL 32610, USA
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  • Sixue Chen,

    1. Department of Biology, University of Florida, Gainesville, FL 32611, USA
    2. Interdisciplinary Center for Biotechnology Research, University of Florida, PO Box 103622, Gainesville, FL 32610, USA
    3. Genetics Institute, University of Florida, Gainesville, FL 32610, USA
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  • Ning Zhu,

    1. Department of Biology, University of Florida, Gainesville, FL 32611, USA
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  • Fahong Yu,

    1. Interdisciplinary Center for Biotechnology Research, University of Florida, PO Box 103622, Gainesville, FL 32610, USA
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  • Pamela S. Soltis,

    1. Genetics Institute, University of Florida, Gainesville, FL 32610, USA
    2. Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
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  • Douglas E. Soltis

    1. Department of Biology, University of Florida, Gainesville, FL 32611, USA
    2. Genetics Institute, University of Florida, Gainesville, FL 32610, USA
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Author for correspondence:
Douglas E. Soltis
Tel: +1 352 273 1963
Email: dsoltis@ufl.edu

Summary

  • We examined the proteomes of the recently formed natural allopolyploid Tragopogon mirus and its diploid parents (T. dubius, T. porrifolius), as well as a diploid F1 hybrid and synthetic T. mirus.
  • Analyses using iTRAQ LC-MS/MS technology identified 476 proteins produced by all three species. Of these, 408 proteins showed quantitative additivity of the two parental profiles in T. mirus (both natural and synthetic); 68 proteins were quantitatively differentially expressed.
  • Comparison of F1 hybrid, and synthetic and natural polyploid T. mirus with the parental diploid species revealed 32 protein expression changes associated with hybridization, 22 with genome doubling and 14 that had occurred since the origin of T. mirus c. 80 yr ago. We found six proteins with novel expression; this phenomenon appears to start in the F1 hybrid and results from post-translational modifications.
  • Our results indicate that the impact of hybridization on the proteome is more important than is polyploidization. Furthermore, two cases of homeolog-specific expression in T. mirus suggest that silencing in T. mirus was not associated with hybridization itself, but occurred subsequent to both hybridization and polyploidization. This study has shown the utility of proteomics in the analysis of the evolutionary consequences of polyploidy.

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