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Repetitive genomic elements in Campomanesia xanthocarpa: prospection, characterization and cross amplification of molecular markers

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Abstract

Repetitive genomic elements were prospected in Campomanesia xanthocarpa, aiming to characterize these elements in a non-model plant species and to develop species-specific microsatellite markers. Approximately 4.12% of the partial genome of C. xanthocarpa is composed of repetitive elements, being retrotransposons the most widely represented. A total of nine polymorphic microsatellite markers were obtained: four nuclear-neutral, two nuclear EST, two plastidial and one mitochondrial. Levels of population genetic diversity of four natural populations of C. xanthocarpa were characterized using these markers. In addition, the cross-species amplification of the microsatellite markers was tested in seven species of tribe Myrteae (Myrtaceae). The characterized microsatellite markers revealed low to moderate levels of genetic diversity (expected heterozygosity range: 0.33–0.57; observed heterozygosity: 0.26–0.74 and number of alleles: 2.25–4.25). Cross-species amplification was successful for all loci, except Cxant76. These nine markers will contribute for studies on genetic diversity, gene flow, plant selection and breeding of this species, towards the conservation of natural populations, as well as its commercial use.

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Acknowledgements

The authors would like to thank Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) for the financial support (Proc. 307144/2013-5) and scholarships and grants awarded to V.M.S. (Process 113617/2018-6), V.S.P. and R.O.N. The authors would also like to thank CAPES for scholarships awarded to G.H.F.K. and L.O.M., and to the Nucleus of Nitrogen Fixation/UFPR for sequencing. We thank Ms. Yohan Fritsche (LFDGV, UFSC) for the help with the flow cytometry analysis.

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Authors and Affiliations

  1. Graduate Program in Plant Genetic Resources, Universidade Federal de Santa Catarina, Florianópolis, Santa Catarina, Brazil

    Vanessa S. Petry, Valdir Marcos Stefenon, Lilian O. Machado & Rubens O. Nodari

  2. Nucleus of Molecular Ecology and Plant Micropropagation, Universidade Federal do Pampa, São Gabriel, Rio Grande do Sul, Brazil

    Valdir Marcos Stefenon

  3. Empresa de Pesquisa Agropecuária e Extensão Rural de Santa Catarina (EPAGRI), Itajaí, Santa Catarina, Brazil

    Gustavo H. F. Klabunde

  4. Department of Biochemistry and Molecular Biology, Nucleus of Nitrogen Fixation, Universidade Federal do Paraná, Curitiba, Paraná, Brazil

    Fábio O. Pedrosa

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  1. Vanessa S. Petry
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  2. Valdir Marcos Stefenon
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  3. Lilian O. Machado
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Correspondence to Rubens O. Nodari.

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Petry, V.S., Stefenon, V.M., Machado, L.O. et al. Repetitive genomic elements in Campomanesia xanthocarpa: prospection, characterization and cross amplification of molecular markers. 3 Biotech 9, 423 (2019). https://doi.org/10.1007/s13205-019-1953-8

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