Discovery and characterization of two new stem rust resistance genes in Aegilops sharonensis

Guotai Yu; Nicolas Champouret; Burkhard Steuernagel; Pablo D. Olivera; Jamie Simmons; Cole Williams; Ryan Johnson; Matthew J. Moscou; Inmaculada Hernández-Pinzón; Phon Green; Hanan Sela; Eitan Millet; Jonathan D.G. Jones; Eric R. Ward; Brian J. Steffenson; Brande B.H. Wulff

doi:10.1007/s00122-017-2882-8

Discovery and characterization of two new stem rust resistance genes in Aegilops sharonensis

Guotai Yu, Nicolas Champouret, Burkhard Steuernagel, Pablo D. Olivera, Jamie Simmons, Cole Williams, Ryan Johnson, Matthew J. Moscou, Inmaculada Hernández-Pinzón, Phon Green, Hanan Sela, Eitan Millet, Jonathan D.G. Jones, Eric R. Ward, Brian J. Steffenson, Brande B.H. Wulff

Plant Pathology

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Abstract

Key message: We identified two novel wheat stem rust resistance genes, Sr-1644-1Sh and Sr-1644-5Sh in Aegilops sharonensis that are effective against widely virulent African races of the wheat stem rust pathogen. Abstract: Stem rust is one of the most important diseases of wheat in the world. When single stem rust resistance (Sr) genes are deployed in wheat, they are often rapidly overcome by the pathogen. To this end, we initiated a search for novel sources of resistance in diverse wheat relatives and identified the wild goatgrass species Aegilops sharonesis (Sharon goatgrass) as a rich reservoir of resistance to wheat stem rust. The objectives of this study were to discover and map novel Sr genes in Ae. sharonensis and to explore the possibility of identifying new Sr genes by genome-wide association study (GWAS). We developed two biparental populations between resistant and susceptible accessions of Ae. sharonensis and performed QTL and linkage analysis. In an F₆ recombinant inbred line and an F₂ population, two genes were identified that mapped to the short arm of chromosome 1S^sh, designated as Sr-1644-1Sh, and the long arm of chromosome 5S^sh, designated as Sr-1644-5Sh. The gene Sr-1644-1Sh confers a high level of resistance to race TTKSK (a member of the Ug99 race group), while the gene Sr-1644-5Sh conditions strong resistance to TRTTF, another widely virulent race found in Yemen. Additionally, GWAS was conducted on 125 diverse Ae. sharonensis accessions for stem rust resistance. The gene Sr-1644-1Sh was detected by GWAS, while Sr-1644-5Sh was not detected, indicating that the effectiveness of GWAS might be affected by marker density, population structure, low allele frequency and other factors.

Original language	English (US)
Pages (from-to)	1207-1222
Number of pages	16
Journal	Theoretical and Applied Genetics
Volume	130
Issue number	6
DOIs	https://doi.org/10.1007/s00122-017-2882-8
State	Published - Jun 1 2017

Bibliographical note

Funding Information:
We thank the University of California, Los Angeles, Neuroscience Genomics Core for the OPA genotyping of Ae. sharonensis. This research was supported by the BBSRC, 2Blades Foundation, Gatsby Foundation, Bill & Melinda Gates Foundation and the UK Department for International Development to Cornell University for the Borlaug Global Rust Initiative Durable Rust Resistance in Wheat Project, and the Lieberman-Okinow Endowment at the University of Minnesota.

Publisher Copyright:
© 2017, The Author(s).

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Yu, G., Champouret, N., Steuernagel, B., Olivera, P. D., Simmons, J., Williams, C., Johnson, R., Moscou, M. J., Hernández-Pinzón, I., Green, P., Sela, H., Millet, E., Jones, J. D. G., Ward, E. R., Steffenson, B. J., & Wulff, B. B. H. (2017). Discovery and characterization of two new stem rust resistance genes in Aegilops sharonensis. Theoretical and Applied Genetics, 130(6), 1207-1222. https://doi.org/10.1007/s00122-017-2882-8

Yu, G, Champouret, N, Steuernagel, B, Olivera, PD, Simmons, J, Williams, C, Johnson, R, Moscou, MJ, Hernández-Pinzón, I, Green, P, Sela, H, Millet, E, Jones, JDG, Ward, ER, Steffenson, BJ & Wulff, BBH 2017, 'Discovery and characterization of two new stem rust resistance genes in Aegilops sharonensis', Theoretical and Applied Genetics, vol. 130, no. 6, pp. 1207-1222. https://doi.org/10.1007/s00122-017-2882-8

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abstract = "Key message: We identified two novel wheat stem rust resistance genes, Sr-1644-1Sh and Sr-1644-5Sh in Aegilops sharonensis that are effective against widely virulent African races of the wheat stem rust pathogen. Abstract: Stem rust is one of the most important diseases of wheat in the world. When single stem rust resistance (Sr) genes are deployed in wheat, they are often rapidly overcome by the pathogen. To this end, we initiated a search for novel sources of resistance in diverse wheat relatives and identified the wild goatgrass species Aegilops sharonesis (Sharon goatgrass) as a rich reservoir of resistance to wheat stem rust. The objectives of this study were to discover and map novel Sr genes in Ae. sharonensis and to explore the possibility of identifying new Sr genes by genome-wide association study (GWAS). We developed two biparental populations between resistant and susceptible accessions of Ae. sharonensis and performed QTL and linkage analysis. In an F6 recombinant inbred line and an F2 population, two genes were identified that mapped to the short arm of chromosome 1Ssh, designated as Sr-1644-1Sh, and the long arm of chromosome 5Ssh, designated as Sr-1644-5Sh. The gene Sr-1644-1Sh confers a high level of resistance to race TTKSK (a member of the Ug99 race group), while the gene Sr-1644-5Sh conditions strong resistance to TRTTF, another widely virulent race found in Yemen. Additionally, GWAS was conducted on 125 diverse Ae. sharonensis accessions for stem rust resistance. The gene Sr-1644-1Sh was detected by GWAS, while Sr-1644-5Sh was not detected, indicating that the effectiveness of GWAS might be affected by marker density, population structure, low allele frequency and other factors.",

author = "Guotai Yu and Nicolas Champouret and Burkhard Steuernagel and Olivera, {Pablo D.} and Jamie Simmons and Cole Williams and Ryan Johnson and Moscou, {Matthew J.} and Inmaculada Hern{\'a}ndez-Pinz{\'o}n and Phon Green and Hanan Sela and Eitan Millet and Jones, {Jonathan D.G.} and Ward, {Eric R.} and Steffenson, {Brian J.} and Wulff, {Brande B.H.}",

note = "Funding Information: We thank the University of California, Los Angeles, Neuroscience Genomics Core for the OPA genotyping of Ae. sharonensis. This research was supported by the BBSRC, 2Blades Foundation, Gatsby Foundation, Bill & Melinda Gates Foundation and the UK Department for International Development to Cornell University for the Borlaug Global Rust Initiative Durable Rust Resistance in Wheat Project, and the Lieberman-Okinow Endowment at the University of Minnesota. Publisher Copyright: {\textcopyright} 2017, The Author(s).",

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AU - Yu, Guotai

AU - Champouret, Nicolas

AU - Steuernagel, Burkhard

AU - Olivera, Pablo D.

AU - Simmons, Jamie

AU - Williams, Cole

AU - Johnson, Ryan

AU - Moscou, Matthew J.

AU - Hernández-Pinzón, Inmaculada

AU - Green, Phon

AU - Sela, Hanan

AU - Millet, Eitan

AU - Jones, Jonathan D.G.

AU - Ward, Eric R.

AU - Steffenson, Brian J.

AU - Wulff, Brande B.H.

N1 - Funding Information: We thank the University of California, Los Angeles, Neuroscience Genomics Core for the OPA genotyping of Ae. sharonensis. This research was supported by the BBSRC, 2Blades Foundation, Gatsby Foundation, Bill & Melinda Gates Foundation and the UK Department for International Development to Cornell University for the Borlaug Global Rust Initiative Durable Rust Resistance in Wheat Project, and the Lieberman-Okinow Endowment at the University of Minnesota. Publisher Copyright: © 2017, The Author(s).

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N2 - Key message: We identified two novel wheat stem rust resistance genes, Sr-1644-1Sh and Sr-1644-5Sh in Aegilops sharonensis that are effective against widely virulent African races of the wheat stem rust pathogen. Abstract: Stem rust is one of the most important diseases of wheat in the world. When single stem rust resistance (Sr) genes are deployed in wheat, they are often rapidly overcome by the pathogen. To this end, we initiated a search for novel sources of resistance in diverse wheat relatives and identified the wild goatgrass species Aegilops sharonesis (Sharon goatgrass) as a rich reservoir of resistance to wheat stem rust. The objectives of this study were to discover and map novel Sr genes in Ae. sharonensis and to explore the possibility of identifying new Sr genes by genome-wide association study (GWAS). We developed two biparental populations between resistant and susceptible accessions of Ae. sharonensis and performed QTL and linkage analysis. In an F6 recombinant inbred line and an F2 population, two genes were identified that mapped to the short arm of chromosome 1Ssh, designated as Sr-1644-1Sh, and the long arm of chromosome 5Ssh, designated as Sr-1644-5Sh. The gene Sr-1644-1Sh confers a high level of resistance to race TTKSK (a member of the Ug99 race group), while the gene Sr-1644-5Sh conditions strong resistance to TRTTF, another widely virulent race found in Yemen. Additionally, GWAS was conducted on 125 diverse Ae. sharonensis accessions for stem rust resistance. The gene Sr-1644-1Sh was detected by GWAS, while Sr-1644-5Sh was not detected, indicating that the effectiveness of GWAS might be affected by marker density, population structure, low allele frequency and other factors.

AB - Key message: We identified two novel wheat stem rust resistance genes, Sr-1644-1Sh and Sr-1644-5Sh in Aegilops sharonensis that are effective against widely virulent African races of the wheat stem rust pathogen. Abstract: Stem rust is one of the most important diseases of wheat in the world. When single stem rust resistance (Sr) genes are deployed in wheat, they are often rapidly overcome by the pathogen. To this end, we initiated a search for novel sources of resistance in diverse wheat relatives and identified the wild goatgrass species Aegilops sharonesis (Sharon goatgrass) as a rich reservoir of resistance to wheat stem rust. The objectives of this study were to discover and map novel Sr genes in Ae. sharonensis and to explore the possibility of identifying new Sr genes by genome-wide association study (GWAS). We developed two biparental populations between resistant and susceptible accessions of Ae. sharonensis and performed QTL and linkage analysis. In an F6 recombinant inbred line and an F2 population, two genes were identified that mapped to the short arm of chromosome 1Ssh, designated as Sr-1644-1Sh, and the long arm of chromosome 5Ssh, designated as Sr-1644-5Sh. The gene Sr-1644-1Sh confers a high level of resistance to race TTKSK (a member of the Ug99 race group), while the gene Sr-1644-5Sh conditions strong resistance to TRTTF, another widely virulent race found in Yemen. Additionally, GWAS was conducted on 125 diverse Ae. sharonensis accessions for stem rust resistance. The gene Sr-1644-1Sh was detected by GWAS, while Sr-1644-5Sh was not detected, indicating that the effectiveness of GWAS might be affected by marker density, population structure, low allele frequency and other factors.

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Discovery and characterization of two new stem rust resistance genes in Aegilops sharonensis

Abstract

Bibliographical note

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