Abstract
Rhinanthus major and R. minor are two annual plant species that are known to hybridize in nature and in which unilateral introgression is likely to occur. Here we used double-digest restriction site-associated DNA sequencing technology (ddRAD-seq) to detect 16,932 genome-wide SNPs in R. major and R. minor individuals from 9 populations. After screening these SNP markers across both species, we selected 1106 putative loci that contain diagnostic, species-specific SNPs, which can be used for assessing and monitoring hybridization and introgression between R. major and R. minor.
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Data availability
All raw and processed data are kept at UCLouvain and can be shared upon request, information on the diagnostic loci and their SNPs is provided as online supplementary material.
Plant reproducibility
Samples were taken in the wild (not from pure lineages) and the species in question are annuals, so the plants themselves cannot be reproduced. But the leaf samples are kept at −80 °C at UCLouvain and could be reused for further analysis.
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Acknowledgements
This is publication no. BRC362 of the Biodiversity Research Centre of UCLouvain. We thank Bertrand Bearzatto, Vinciane Mossion and Marie Eve Renard for their help during the development of the ddRADseq protocol for Rhinanthus, Vanessa Brys and Wim Meert at the Genomics Core KULeuven for technical assistance with the Blue Pippin and the Fund for Scientific Research-FNRS (Research Credit J000614F) and the Fonds Spéciaux de Recherche of UCLouvain (FSR project 2016) for financial support. Computational resources have been provided by the supercomputing facilities of UCLouvain (CISM/UCL) and the Consortium des Équipements de Calcul Intensif en Fédération Wallonie Bruxelles (CÉCI) funded by the Fond de la Recherche Scientifique de Belgique (F.R.S.-FNRS) under convention 2.5020.11 and by the Walloon Region.
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KM did all the practical work and data analyses and wrote the first version of the manuscript, RAW assisted in discussions and revisions of the manuscript.
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Mirzaei, K., Wesselingh, R.A. Development of a large set of diagnostic SNP markers using ddRAD-seq to study hybridization in Rhinanthus major and R. minor (Orobanchaceae). Conservation Genet Resour 13, 31–33 (2021). https://doi.org/10.1007/s12686-020-01181-5
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DOI: https://doi.org/10.1007/s12686-020-01181-5