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Discovery and genetic mapping of single nucleotide polymorphisms in candidate genes for pathogen defence response in perennial ryegrass (Lolium perenne L.)

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Abstract

Susceptibility to foliar pathogens commonly causes significant reductions in productivity of the important temperate forage perennial ryegrass. Breeding for durable disease resistance involves not only the deployment of major genes but also the additive effects of minor genes. An approach based on in vitro single nucleotide polymorphism (SNP) discovery in candidate defence response (DR) genes has been used to develop potential diagnostic genetic markers. SNPs were predicted, validated and mapped for representatives of the pathogenesis-related (PR) protein-encoding and reactive oxygen species (ROS)-generating gene classes. The F1(NA6 × AU6) two-way pseudo-test cross population was used for SNP genetic mapping and detection of quantitative trait loci (QTLs) in response to a crown rust field infection. Novel resistance QTLs were coincident with mapped DR gene SNPs. QTLs on LG3 and LG7 also coincided with both herbage quality QTLs and candidate genes for lignin biosynthesis. Multiple DR gene SNP loci additionally co-located with QTLs for grey leaf spot, bacterial wilt and crown rust resistance from other published studies. Further functional validation of DR gene SNP loci using methods such as fine-mapping and association genetics will improve the efficiency of parental selection based on superior allele content.

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Acknowledgments

This work was supported by funding from the Victorian Department of Primary Industries, Dairy Australia Ltd., the Geoffrey Gardiner Dairy Foundation, Meat and Livestock Australia Ltd. and the Molecular Plant Breeding Cooperative Research Centre (MPB CRC). The authors thank Dr. Charles Brummer (University of Georgia, USA) and Prof. Michael Hayward (Rhydgoch Genetics, Aberystwyth, UK) for careful critical reading of the manuscript and Dr Guoyou Ye for assistance with statistical and QTL analyses.

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  1. Department of Primary Industries, Biosciences Research Division, Victorian AgriBiosciences Centre, 1 Park Drive, La Trobe Research and Development Park, Bundoora, VIC, 3083, Australia

    P. M. Dracatos, N. O. I. Cogan, T. I. Sawbridge, G. C. Spangenberg & J. W. Forster

  2. Molecular Plant Breeding Cooperative Research Centre, Bundoora, VIC, 3083, Australia

    P. M. Dracatos, N. O. I. Cogan, M. P. Dobrowolski, T. I. Sawbridge, G. C. Spangenberg, K. F. Smith & J. W. Forster

  3. Department of Primary Industries, Biosciences Research Division, Hamilton Centre, Mount Napier Road, Hamilton, VIC, 3330, Australia

    M. P. Dobrowolski & K. F. Smith

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  1. P. M. Dracatos
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  2. N. O. I. Cogan
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  3. M. P. Dobrowolski
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Correspondence to J. W. Forster.

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Communicated by T. Lübberstedt.

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122_2008_766_MOESM1_ESM.doc

ESM 1 Summary details for bioinformatic analysis of perennial ryegrass candidate DR EST sequences against both mapped and unmapped T. aestivum ESTs in wEST SQL, including functional information pertaining to wheat genes

ESM 2 Comparative sequence alignment (based on BLASTN) between putatively orthologous wheat and perennial ryegrass DR gene ESTs corresponding to the (a) catalase (b) oxalate oxidase and (c) peroxidase gene classes (DOC 106 kb)

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Dracatos, P.M., Cogan, N.O.I., Dobrowolski, M.P. et al. Discovery and genetic mapping of single nucleotide polymorphisms in candidate genes for pathogen defence response in perennial ryegrass (Lolium perenne L.). Theor Appl Genet 117, 203–219 (2008). https://doi.org/10.1007/s00122-008-0766-7

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