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Single Nucleotide Polymorphism (SNP) Markers for Allele Quantification in Lolium (Poaceae): Development and First Applications

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Molecular Breeding of Forage and Turf

Abstract

Lolium grasses are widely distributed and used, and their economic importance is significant. We report the development of Lolium single nucleotide polymorphism (SNP) markers that were derived from barley EST data and that were suitable for allele quantification (AQ) via pyrosequencing (PSQ). Polymorphism information content (PIC) values for 22 developed markers ranged between 0.23 and 0.93 (average PIC value 0.80). The markers were used to characterize a collection of 2829 Lolium accessions. Eleven SNP markers could be mapped in the Lolium perenne VrnA mapping population. This is the first report on fingerprinting a comprehensive genebank collection by quantification of SNP alleles. The markers clearly distinguish between L. perenne and L. multiflorum and will prove as very useful for the management of germplasm collections.

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Acknowledgments

The authors would like to thank Dr. Julia Mattner for the involvement in the establishing phase, Jacqueline Pohl and Ulrike Beier for technical support, Dr. Frank Blattner (IPK Gatersleben) for fruitful discussions, Dr. AnnaLotta Schiller and Dr. Michael Utting (Biotage AB/Qiagen) for help in assays development. This work was financed by the BMBF (Project reference number 0312830; project title: Aufbau einer bundeszentralen Ex-situ-Genbank für landwirtschaftliche und gartenbauliche Kulturpflanzen: Zusammenführung der Genbanken des IPK und der BAZ Braunschweig).

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Authors and Affiliations

  1. Leibniz Institute of Plant Genetics and Crop Plant Research, Corrensstrasse 3, 06466, Gatersleben, Germany

    Tatjana Sretenovic Rajicic, Uwe Scholz, Andreas Graner & Klaus J. Dehmer

  2. Agronomy Department, Iowa State University, 1204 Agronomy, 50011, Ames, IA, USA

    Thomas Lübberstedt

  3. Illumina Denmark ApS, Ørestads Boulevard 73, 2300, København, Denmark

    Louise Bach Jensen

  4. Institute of Agricultural and Nutritional Sciences, Plant Breeding, Martin-Luther-University Halle-Wittenberg, 06099, Halle, Germany

    W. Eberhard Weber

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  1. Tatjana Sretenovic Rajicic
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  2. Thomas Lübberstedt
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  5. W. Eberhard Weber
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Correspondence to Klaus J. Dehmer .

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Editors and Affiliations

  1. Faculty of Engineering and Natural Sciences, Sabanci University, Istanbul, Turkey

    Hikmet Budak

  2. and Primary Industries, La Trobe University Department of Environment, Bundoora, Victoria, Australia

    German Spangenberg

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Sretenovic Rajicic, T. et al. (2015). Single Nucleotide Polymorphism (SNP) Markers for Allele Quantification in Lolium (Poaceae): Development and First Applications. In: Budak, H., Spangenberg, G. (eds) Molecular Breeding of Forage and Turf. Springer, Cham. https://doi.org/10.1007/978-3-319-08714-6_13

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