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Analysis of nrDNA polymorphism in closely related diploid sexual, tetraploid sexual and polyploid agamospermous species

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Abstract

Nuclear sequences of ITS1-5.8S-ITS2 region of rDNA may be an important source of phylogenetically informative data provided that nrDNA is cloned and the character of sequence variation of clones is properly analyzed. nrDNA of selected Taraxacum sections was studied to show sequence variation differences among diploid sexual, tetraploid sexual and polyploid agamospermous species. We examined nucleotide characteristics, substitution pattern, secondary structure, and the phylogenetic utility of ITS1-5.8S-ITS2 from 301 clones of 32 species representing 11 sections. The most divergent sequences of ITS1&2 differed by 17.1% and in 5.8S only by 3.7%. The ITS1-5.8S-ITS2 characteristics, integrity and also stability of secondary structures confirmed that pseudogenes are not responsible for the above variation. The within-individual polymorphism of clones implies that the concerted evolution of ITS cistron of agamospermous polyploid Taraxacum is remarkably suppressed. Sequences of ITS clones proved to be a useful tool for mapping pathways of complex reticulation (polyploid hybridity) in agamospermous Taraxacum.

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Acknowledgments

The study was performed in the DNA Laboratory, Institute of Botany ASCR and Laboratory of the Centre for Integrated Genomics and Institute (1M6837805002) of Molecular Genetics ASCR and was supported by grants GACR 206/02/0346 and 206/05/0970. The study was also supported by the institutional Research Plan AV0Z60050516. We thank Šárka Pinkasová for invaluable help during the work in the laboratory, and Věra Matějovičová for help with cultivation and sample preparation. We are particularly indebted to L. Klimeš for important samples collected in Ladakh, NW India. P. Trávníček was so kind as to screen selected herbarium samples for flow-cytometry estimates.

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Authors and Affiliations

  1. Institute of Botany, Academy of Sciences, Zámek 1, 252 43, Průhonice, Czech Republic

    Lenka Záveská Drábková, Jan Kirschner & Jan Štěpánek

  2. Center for Applied Genomics and Institute of Molecular Genetics, Academy of Sciences, Vídeňská 1084, 142 20, Prague 4, Czech Republic

    Lenka Záveská Drábková & Čestmír Vlček

  3. Department of Botany, Herbarium Universitatis Carolinae (PRC), Benátská 2, 12801, Praha 2, Czech Republic

    Jan Štěpánek

  4. Spofa a.s., Poděbradská 5, 180 47, Praha 9, Czech Republic

    Luděk Záveský

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  1. Lenka Záveská Drábková
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Correspondence to Jan Kirschner.

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Záveská Drábková, L., Kirschner, J., Štěpánek, J. et al. Analysis of nrDNA polymorphism in closely related diploid sexual, tetraploid sexual and polyploid agamospermous species. Plant Syst Evol 278, 67–85 (2009). https://doi.org/10.1007/s00606-008-0134-8

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