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Genetic diversity of SSR and ISSR markers in wild populations of Brachypodium distachyon and its close relatives B. stacei and B. hybridum (Poaceae)

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Abstract

The genetic diversity of seven wild populations of the grass Brachypodium distachyon (2n = 10), 4 of B. stacei (2n = 20) and 13 of B. hybridum (2n = 30) from the Mediterranean and southern areas of the Iberian Peninsula was studied via the analysis of microsatellite (SSR) and inter-microsatellite (ISSR) markers. The 11 SSR markers analysed provided a total of 156 polymorphic fragments. The B. hybridum populations returned more fragments (98) than the B. stacei populations (87), and more than twice the number recorded for the B. distachyon populations (44). Some fragments were specific to the B. distachyon (3.85 %), B. stacei (27.56 %) or B. hybridum populations (18.58 %). The analysis of 16 ISSR markers returned similar results: the B. hybridum populations returned more polymorphic fragments than the B. distachyon or B. stacei populations. The analysis of molecular variance, with distances between individuals, populations and species estimated on the basis of the presence/absence of the SSR and ISSR fragments, showed most of the variation (67 %) to occur among populations. This was followed by differences among individuals within populations (24 %), and finally among species (9 %). Grouping based on UPGMA and principal coordinate analysis showed a clear separation of three groups corresponding to the populations of the same species. Principal component analysis, involving chromosome number, low-molecular weight-glutenin subunits and the most influential climatic and geographic factors, was also performed. This revealed an obvious separation among the populations of B. distachyon and B. hybridum. The index of Mediterraneity and altitude explained 70.56 % of the total variation associated with the first axis. A trend was seen towards a greater presence of B. distachyon forms in areas of the Peninsular interior and higher altitude, with the B. hybridum forms more common in regions of greater summer rainfall and a lower index of Mediterraneity.

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Acknowledgments

This study was funded by Grants from the Spanish Ministry of Science and Innovation (AGL 2009-10373 and AGL2012-34052). The authors thank Adrian Burton for linguistic assistance.

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  1. Departmento de Biomedicina y Biotecnología, Campus Universitario, University of Alcalá, 28871, Alcalá de Henares (Madrid), Spain

    Rifka Hammami, Nicolás Jouve, Eva Frieiro & Juan Manuel González

  2. Departmento de Medio Ambiente, I.N.I.A., Finca La Canaleja, Alcalá de Henares (Madrid), Spain

    Consuelo Soler

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  1. Rifka Hammami
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  2. Nicolás Jouve
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Correspondence to Nicolás Jouve.

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Hammami, R., Jouve, N., Soler, C. et al. Genetic diversity of SSR and ISSR markers in wild populations of Brachypodium distachyon and its close relatives B. stacei and B. hybridum (Poaceae). Plant Syst Evol 300, 2029–2040 (2014). https://doi.org/10.1007/s00606-014-1021-0

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