Effector-driven marker development and cloning of resistance genes against Phytophthora infestans in potato breeding clone SW93-1015

Marit Lenman*, Ashfaq Ali, Per Mühlenbock, Ulrika Carlson-Nilsson, Erland Liljeroth, Nicolas Champouret, V.G.A.A. Vleeshouwers, Erik Andreasson

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

14 Citations (Scopus)

Abstract

Key message: We show the usefulness of integrating effector screening in a breeding program and in resistance gene cloning, withPhytophthoraresistance in the Swedish potato breeding clone SW93-1015 as an example. Abstract: Phytophthora infestans is one of the most devastating plant pathogens worldwide. We have earlier found that the SW93-1015 potato breeding clone has an efficient resistance against P. infestans under field conditions in Sweden, which has an unusually high local diversity of the pathogen. This potato clone has characteristics that are different from classical R-gene-mediated resistance such as elevated levels of hydrogen peroxide (H2O2) under controlled conditions. Analysis of 76 F1 potato progenies from two individual crosses resulted in nearly 50 % resistant clones, from both crosses. This result suggests that the SW93-1015 clone has a simplex genotype for this trait. Screening with over 50 different P. infestans effectors, containing the conserved motif RXLR (for Arg, any amino acid, Leu, Arg), revealed a specific response to Avr2, which suggests that SW93-1015 might contain a functional homolog of the R2 resistance gene. We cloned eight R2 gene homologs from SW93-1015, whereof seven have not been described before and one gene encoded a protein identical to Rpi-ABPT. Expression of this gene in potato cultivar Désirée provided R2-specific resistance, whereas other homologues did not. Using RNAseq analyses we designed a new DNA marker for the R2 resistance in SW93-1015. In summary, we have demonstrated the use of effector screening in practical breeding material and revealed the key resistance mechanism for SW93-1015.

Original languageEnglish
Pages (from-to)105-115
JournalTheoretical and Applied Genetics
Volume129
Issue number1
DOIs
Publication statusPublished - 2016

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Phytophthora infestans
Solanum tuberosum
Breeding
Organism Cloning
molecular cloning
Clone Cells
potatoes
clones
breeding
Genes
screening
genes
vpr Genes
resistance mechanisms
Genetic Markers
Sweden
plant pathogens
Hydrogen Peroxide
hydrogen peroxide
Genotype

Cite this

Lenman, M., Ali, A., Mühlenbock, P., Carlson-Nilsson, U., Liljeroth, E., Champouret, N., ... Andreasson, E. (2016). Effector-driven marker development and cloning of resistance genes against Phytophthora infestans in potato breeding clone SW93-1015. Theoretical and Applied Genetics, 129(1), 105-115. https://doi.org/10.1007/s00122-015-2613-y
Lenman, Marit ; Ali, Ashfaq ; Mühlenbock, Per ; Carlson-Nilsson, Ulrika ; Liljeroth, Erland ; Champouret, Nicolas ; Vleeshouwers, V.G.A.A. ; Andreasson, Erik. / Effector-driven marker development and cloning of resistance genes against Phytophthora infestans in potato breeding clone SW93-1015. In: Theoretical and Applied Genetics. 2016 ; Vol. 129, No. 1. pp. 105-115.
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abstract = "Key message: We show the usefulness of integrating effector screening in a breeding program and in resistance gene cloning, withPhytophthoraresistance in the Swedish potato breeding clone SW93-1015 as an example. Abstract: Phytophthora infestans is one of the most devastating plant pathogens worldwide. We have earlier found that the SW93-1015 potato breeding clone has an efficient resistance against P. infestans under field conditions in Sweden, which has an unusually high local diversity of the pathogen. This potato clone has characteristics that are different from classical R-gene-mediated resistance such as elevated levels of hydrogen peroxide (H2O2) under controlled conditions. Analysis of 76 F1 potato progenies from two individual crosses resulted in nearly 50 {\%} resistant clones, from both crosses. This result suggests that the SW93-1015 clone has a simplex genotype for this trait. Screening with over 50 different P. infestans effectors, containing the conserved motif RXLR (for Arg, any amino acid, Leu, Arg), revealed a specific response to Avr2, which suggests that SW93-1015 might contain a functional homolog of the R2 resistance gene. We cloned eight R2 gene homologs from SW93-1015, whereof seven have not been described before and one gene encoded a protein identical to Rpi-ABPT. Expression of this gene in potato cultivar D{\'e}sir{\'e}e provided R2-specific resistance, whereas other homologues did not. Using RNAseq analyses we designed a new DNA marker for the R2 resistance in SW93-1015. In summary, we have demonstrated the use of effector screening in practical breeding material and revealed the key resistance mechanism for SW93-1015.",
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Effector-driven marker development and cloning of resistance genes against Phytophthora infestans in potato breeding clone SW93-1015. / Lenman, Marit; Ali, Ashfaq; Mühlenbock, Per; Carlson-Nilsson, Ulrika; Liljeroth, Erland; Champouret, Nicolas; Vleeshouwers, V.G.A.A.; Andreasson, Erik.

In: Theoretical and Applied Genetics, Vol. 129, No. 1, 2016, p. 105-115.

Research output: Contribution to journalArticleAcademicpeer-review

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AU - Lenman, Marit

AU - Ali, Ashfaq

AU - Mühlenbock, Per

AU - Carlson-Nilsson, Ulrika

AU - Liljeroth, Erland

AU - Champouret, Nicolas

AU - Vleeshouwers, V.G.A.A.

AU - Andreasson, Erik

PY - 2016

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N2 - Key message: We show the usefulness of integrating effector screening in a breeding program and in resistance gene cloning, withPhytophthoraresistance in the Swedish potato breeding clone SW93-1015 as an example. Abstract: Phytophthora infestans is one of the most devastating plant pathogens worldwide. We have earlier found that the SW93-1015 potato breeding clone has an efficient resistance against P. infestans under field conditions in Sweden, which has an unusually high local diversity of the pathogen. This potato clone has characteristics that are different from classical R-gene-mediated resistance such as elevated levels of hydrogen peroxide (H2O2) under controlled conditions. Analysis of 76 F1 potato progenies from two individual crosses resulted in nearly 50 % resistant clones, from both crosses. This result suggests that the SW93-1015 clone has a simplex genotype for this trait. Screening with over 50 different P. infestans effectors, containing the conserved motif RXLR (for Arg, any amino acid, Leu, Arg), revealed a specific response to Avr2, which suggests that SW93-1015 might contain a functional homolog of the R2 resistance gene. We cloned eight R2 gene homologs from SW93-1015, whereof seven have not been described before and one gene encoded a protein identical to Rpi-ABPT. Expression of this gene in potato cultivar Désirée provided R2-specific resistance, whereas other homologues did not. Using RNAseq analyses we designed a new DNA marker for the R2 resistance in SW93-1015. In summary, we have demonstrated the use of effector screening in practical breeding material and revealed the key resistance mechanism for SW93-1015.

AB - Key message: We show the usefulness of integrating effector screening in a breeding program and in resistance gene cloning, withPhytophthoraresistance in the Swedish potato breeding clone SW93-1015 as an example. Abstract: Phytophthora infestans is one of the most devastating plant pathogens worldwide. We have earlier found that the SW93-1015 potato breeding clone has an efficient resistance against P. infestans under field conditions in Sweden, which has an unusually high local diversity of the pathogen. This potato clone has characteristics that are different from classical R-gene-mediated resistance such as elevated levels of hydrogen peroxide (H2O2) under controlled conditions. Analysis of 76 F1 potato progenies from two individual crosses resulted in nearly 50 % resistant clones, from both crosses. This result suggests that the SW93-1015 clone has a simplex genotype for this trait. Screening with over 50 different P. infestans effectors, containing the conserved motif RXLR (for Arg, any amino acid, Leu, Arg), revealed a specific response to Avr2, which suggests that SW93-1015 might contain a functional homolog of the R2 resistance gene. We cloned eight R2 gene homologs from SW93-1015, whereof seven have not been described before and one gene encoded a protein identical to Rpi-ABPT. Expression of this gene in potato cultivar Désirée provided R2-specific resistance, whereas other homologues did not. Using RNAseq analyses we designed a new DNA marker for the R2 resistance in SW93-1015. In summary, we have demonstrated the use of effector screening in practical breeding material and revealed the key resistance mechanism for SW93-1015.

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M3 - Article

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JF - Theoretical and Applied Genetics

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