Theoretical and Applied Genetics

, Volume 129, Issue 10, pp 1915–1932 | Cite as

Massive analysis of cDNA ends (MACE) reveals a co-segregating candidate gene for LpPg1 stem rust resistance in perennial ryegrass (Lolium perenne)

  • Jens Bojahr
  • Ottilia Nhengiwa
  • Nicolas Krezdorn
  • Björn Rotter
  • Bernhard Saal
  • Brigitte Ruge-Wehling
  • Christine Struck
  • Peter Winter
Original Article

Abstract

Key message

Molecular markers including a potential resistance gene co-segregating with the LpPg1 stem rust resistance locus in perennial ryegrass were identified by massive analysis of cDNA ends (MACE) transcriptome profiling.

Abstract

Stem rust caused by Puccinia graminis subsp. graminicola is a severe fungal disease in the forage crop perennial ryegrass and other grasses. The previously identified LpPg1 locus confers efficient resistance against the pathogen. The aim of this study was to identify candidate genes involved in rust resistance and to use them as a resource for the development of molecular markers for LpPg1. To identify such candidates, bulked segregant analysis was combined with NGS-based massive analysis of cDNA ends (MACE) transcriptome profiling. Total RNA was isolated from bulks of infected and non-infected leaf segments from susceptible and resistant genotypes of a full-sibling mapping population and their respective parental lines and MACE was performed. Bioinformatic analysis detected 330 resistance-specific SNPs in 178 transcripts and 341 transcripts that were exclusively expressed in the resistant bulk. The sequences of many of these transcripts were homologous to genes in distinct regions of chromosomes one and four of the model grass Brachypodium distachyon. Of these, 30 were genetically mapped to a 50.8 cM spanning region surrounding the LpPg1 locus. One candidate NBS-LRR gene co-segregated with the resistance locus. Quantitative analysis of gene expression suggests that LpPg1 mediates an efficient resistance mechanism characterized by early recognition of the pathogen, fast defense signaling and rapid induction of antifungal proteins. We demonstrate here that MACE is a cost-efficient, fast and reliable tool that detects polymorphisms for genetic mapping of candidate resistance genes and simultaneously reveals deep insight into the molecular and genetic base of resistance.

Notes

Acknowledgments

The project was supported by funds of the Federal Ministry of Food and Agriculture (BMEL) based on a decision of the Parliament of the Federal Republic of Germany via the Federal Office for Agriculture and Food (BLE) under the innovation support program (FKZ 511-06.01-28-1-45.010-10).

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Ethical standards

This article does not contain any studies with human participants or animal performed by any of the authors.

Supplementary material

122_2016_2749_MOESM1_ESM.docx (15 kb)
Supplementary material 1 (DOCX 14 kb)
122_2016_2749_MOESM2_ESM.docx (16 kb)
Supplementary material 2 (DOCX 15 kb)

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Copyright information

© Springer-Verlag Berlin Heidelberg 2016

Authors and Affiliations

  • Jens Bojahr
    • 1
  • Ottilia Nhengiwa
    • 3
  • Nicolas Krezdorn
    • 2
  • Björn Rotter
    • 2
  • Bernhard Saal
    • 3
  • Brigitte Ruge-Wehling
    • 4
  • Christine Struck
    • 1
  • Peter Winter
    • 2
  1. 1.Group Crop Health, Faculty of Agricultural and Environmental SciencesUniversity of RostockRostockGermany
  2. 2.GenXPro GmbHFrankfurt am MainGermany
  3. 3.Saatzucht Steinach GmbH & Co KGSteinachGermany
  4. 4.Federal Research Centre for Cultivated PlantsInstitute for Breeding Research on Agricultural CropsSanitzGermany

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