PREMISE: Microsatellite markers were developed for the perennial herb Salvia pratensis (Lamiaceae), a species representative of European dry grasslands. The development of microsatellite markers is needed for genetic and phylogeographical studies of species from the genus Salvia. METHODS AND RESULTS: We used low-coverage Illumina sequencing to identify microsatellite loci. Based on these data, we have developed 18 polymorphic microsatellite markers with the number of alleles per locus ranging from two to 15. The levels of observed and expected heterozygosity ranged from 0.05 to 0.95 and from 0.05 to 0.89, respectively. The majority of the markers successfully cross-amplified in other Salvia species. CONCLUSIONS: The markers were shown to be suitable for population genetic and phylogeographic studies in S. pratensis as well as in related species (S. aethiopis, S. austriaca, S. glutinosa, S. nemorosa, S. nutans, and S. verticillata) and will be used in the broader context to trace the origins of European dry grasslands.

Faculty of Environmental Sciences Czech University of Life Sciences Prague Kamýcká 129 CZ 16521 Czech Republic

Institute of Botany of the Czech Academy of Sciences Zámek 1 CZ 252 43 Průhonice Czech Republic

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Belyayev, A. , Josefiová J., Jandová M., Kalendar R., Krak K., and Mandák B.. 2019. Natural history of a satellite DNA family: From the ancestral genome component to species‐specific sequences, concerted and non‐concerted evolution. International Journal of Molecular Sciences 20: 1201. PubMed PMC

Bolger, A. M. , Lohse M., and Usadel B.. 2014. Trimmomatic: A flexible trimmer for Illumina sequence data. Bioinformatics 30: 2114–2120. PubMed PMC

Faircloth, B. C. 2008. MSATCOMMANDER: Detection of microsatellite repeat arrays and automated, locus‐specific primer design. Molecular Ecology Resources 8: 92–94. PubMed

Habel, J. C. , Dengler J., Janišová M., Török P., Wellstein C., and Wiezik M.. 2013. European grassland ecosystems: Threatened hotspots of biodiversity. Biodiversity and Conservation 22: 2131–2138.

Kaplan, Z. , Koutecký P., Danihelka J., Šumberová K., Ducháček M., Štěpánková J., Ekrt L., et al. 2018. Distributions of vascular plants in the Czech Republic. Part 6. Preslia 90: 235–346.

Keenan, K. , McGinnity P., Cross T. F., Crozier W. W., and Prodöhl P. A.. 2013. diveRsity: An R package for the estimation and exploration of population genetics parameters and their associated errors. Methods in Ecology and Evolution 4: 782–788.

Langmead, B. , and Salzberg S. L.. 2012. Fast gapped‐read alignment with Bowtie 2. Nature Methods 9: 357–359. PubMed PMC

Miller, M. P. , Knaus B. J., Mullins T. D., and Haig S. M.. 2013. SSR_pipeline: A bioinformatic infrastructure for identifying microsatellites from paired‐end Illumina high‐throughput DNA sequencing data. Journal of Heredity 104: 881–885. PubMed

Molecular Ecology Resources Primer Development Consortium , An J., Bechet Å., Berggren Å., Brown S. K., Bruford M. W., Cai Q., Cassel‐Lundhagen A., et al. 2010. Permanent genetic resources added to molecular ecology resources database 1 October 2009 – 30 November 2009. Molecular Ecology Resources 10: 404–408. PubMed

Qian, J. , Song J., Gao H., Zhu Y., Xu J., Pang X., Yao H., et al. 2013. The complete chloroplast genome sequence of the medicinal plant Salvia miltiorrhiza . PLoS ONE 8: e57607. PubMed PMC

Radosavljević, I. , Jakse J., Javornik B., Satovic Z., and Liber Z.. 2011. New microsatellite markers for Salvia officinalis (Lamiaceae) and cross‐amplification in closely related species. American Journal of Botany e316–e318. PubMed

Radosavljević, I. , Satovic Z., Jakse J., Javornik B., Greguraš D., Jug‐Dujaković M., and Liber Z.. 2012. Development of new microsatellite markers for Salvia officinalis L. and its potential use in conservation‐genetic studies of narrow endemic Salvia brachyodon Vandas. International Journal of Molecular Sciences 13: 12082–12093. PubMed PMC

Schuelke, M. 2000. An economic method for the fluorescent labelling of PCR fragments. Nature Biotechnology 18: 233–234. PubMed

Van Loon, J. C. 1980. Reports In Löve A. [ed.], IOPB Chromosome number reports LXIX. Taxon 29: 718–720.

Will, M. , and Claßen‐Bockhoff R.. 2017. Time to split Salvia s.l. (Lamiaceae): New insights from Old World Salvia phylogeny. Molecular Phylogenetics and Evolution 109: 33–58. PubMed