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

Ossa, Carmen G., Larridon, Isabel, Peralta, Gioconda, Asselman, Pieter, Pérez, Fernanda
Molecular biology reports 2016 v.43 no.12 pp. 1315-1320
Echinopsis, alleles, cacti and succulents, effective population size, genetic markers, genetic variation, heterozygosity, high-throughput nucleotide sequencing, loci, phylogeography, population structure, semiarid zones, Chile
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.