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Development of microsatellite markers using next-generation sequencing for the columnar cactus Echinopsis chiloensis (Cactaceae)

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Abstract

The aim of this study was to develop microsatellite markers as a tool to study population structure, genetic diversity and effective population size of Echinopsis chiloensis, an endemic cactus from arid and semiarid regions of Central Chile. We developed 12 polymorphic microsatellite markers for E. chiloensis using next-generation sequencing and tested them in 60 individuals from six sites, covering all the latitudinal range of this species. The number of alleles per locus ranged from 3 to 8, while the observed (Ho) and expected (He) heterozygosity ranged from 0.0 to 0.80 and from 0.10 to 0.76, respectively. We also detected significant differences between sites, with FST values ranging from 0.05 to 0.29. Microsatellite markers will enable us to estimate genetic diversity and population structure of E. chiloensis in future ecological and phylogeographic studies.

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Acknowledgments

We thank Daniela Aros for assisting in fieldwork, Loreto Carrasco for her help in extraction and amplification of DNA, Paz Montenegro for the map and Lafayette Eaton for the English corrections. This work was supported by Fondecyt 3140354 to CGO, Fondecyt 1141047 to FP and Fondation Franklinia (Ghent University project number E/01394/01).

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Authors and Affiliations

  1. Departamento de Ecología, Pontificia Universidad Católica de Chile, Alameda 340, Santiago, Chile

    Carmen G. Ossa, Gioconda Peralta & Fernanda Pérez

  2. Institute of Ecology and Biodiversity (IEB), Casilla 653, Santiago, Chile

    Carmen G. Ossa & Fernanda Pérez

  3. Research Group Spermatophytes, Department of Biology, Ghent University, K.L. Ledeganckstraat 35, 9000, Ghent, Belgium

    Isabel Larridon & Pieter Asselman

  4. Royal Botanic Gardens, Kew, Richmond, Surrey, TW9 3AE, UK

    Isabel Larridon

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  1. Carmen G. Ossa
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  2. Isabel Larridon
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  3. Gioconda Peralta
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  4. Pieter Asselman
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  5. Fernanda Pérez
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Correspondence to Carmen G. Ossa.

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Ossa, C.G., Larridon, I., Peralta, G. et al. Development of microsatellite markers using next-generation sequencing for the columnar cactus Echinopsis chiloensis (Cactaceae). Mol Biol Rep 43, 1315–1320 (2016). https://doi.org/10.1007/s11033-016-4069-9

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  • DOI: https://doi.org/10.1007/s11033-016-4069-9

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