We de-novo genotyped 14 individuals of Homogyne alpina (L.) Cass., six individuals of H. discolor Cass., four individuals of H. sylvestris (Scop.) Cass., and one individual of Tussilago farfara L. using genotyping-by-sequencing (GBS Elshire et al. 2011). The original lab protocoll of Elshire et al. 2011 was slightly changed for the use of restriction enzyme BamHI (Gerschwitz-Eidt & Kadereit in prep.). The library was sequenced on an Illumina HiSeq 2500 with 100bp paired-end reads.