Diversity studies in genetic resources of Solanum spp. (section Petota) by comparative application of ISAP markers
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The Genebank at the Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) harbours three different potato collections comprising 2846 wild potato accessions, 2757 accessions of cultivars, landraces and breeding material of Solanum tuberosum L. and 579 Solanum clones originating mainly from South and Central America (as of July 2016). The three collections are maintained via seeds, in vitro culture, cryopreservation or in the field. All four processes are labour and cost intensive. Therefore, methods facilitating the efficient management and maintenance of the collections are needed. We describe the experimental application of the retrotransposon-based Inter-SINE amplified polymorphism (ISAP) marker system for supporting the management of potato collections. Three ISAP primer combinations were evaluated on a set of 259 cultivated and 89 wild potato accessions focussing on three different aspects: diversity analysis, duplicate identification and phylogenetic studies. Compared to up to 29 microsatellites, ISAPs were similarly efficient in monitoring genetic diversity and detecting duplicated accessions. In addition, the three ISAP primer combinations could be applied to wild potato species, although their use in phylogenetic studies is limited due to their highly polymorphic nature. Generally, ISAPs are a very valuable tool in the maintenance of clonally maintained potato collections and for the verification of the identity of accessions.
KeywordsISAP markers Plant genetic resources Potato Retrotransposon SINE Solanum tuberosum
We gratefully acknowledge the German Federal Ministry of Education and Research for funding this project (KMU-Innovativ, Grants Nos. 0315425 and 0315864).
KD carried out the ISAP and SSR marker analyses at IPK and drafted the manuscript. KMS optimized and adjusted the ISAP marker system. KM carried out the ISAP marker analyses at NORIKA. TW developed the ISAP marker system. HJ conceived the project and coordinated it. TS conceived the project and coordinated the ISAP marker development at TUD. KJD conceived and coordinated the study at IPK. All authors read and approved the final manuscript.
Compliance with ethical standards
Conflict of interest
The authors declare that they have no conflict of interests.
- Cooper HD, Spillane C, Hodgkin T (2001) Broadening the genetic base of crops: an overview. In: Cooper HD, Spillane C, Hodgkin T (eds) Broadening the genetic base of crop production, CABI, Wallingford, pp 1–24Google Scholar
- Doyle JJ, Doyle JL (1990) Isolation of plant DNA from fresh tissue. Focus 12:13–15Google Scholar
- FAO (2014) Genebank standards for plant genetic resources for food and agriculture, Rev. edn. FAO, RomeGoogle Scholar
- Hawkes JG (1990) The potato. Evolution, biodiversity and genetic resources. Belhaven Press, OxfordGoogle Scholar
- Keller ERJ, Senula A, Grübe M, Diekmann K, Dehmer KJ (2014) Fifteen years of cryopreservation in the IPK Genebank—experience, conclusions and outlook. In: Reed BM (ed) Proceedings of the 2nd international symposium on plant cryopreservation: Fort Collins, Colorado, USA, August 11–14, 2013 (Series: Acta Horticulturae, vol 1039). ISHS, Leuven, pp 249–263Google Scholar
- Van Eck HJ, Jacobs JME, van den Berg PMMM, Stiekema WJ, Jacobsen E (1994) The inheritance of anthocyanin pigmentation in potato (Solanum tuberosum) and mapping of tuber skin colour loci using RFLPs. Heredity 76:410–421Google Scholar
- Wenke T, Seibt KM, Döbel T, Muders K, Schmidt T (2015) Inter-SINE amplified polymorphism (ISAP) for rapid and robust plant genotyping. In: Batley J (ed) Plant genotyping methods and protocols. Methods in molecular biology, vol 1245. Springer, New York, pp 183–192Google Scholar