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Mapping and validation of QTL which confer partial resistance to broadly virulent post-2000 North American races of stripe rust in hexaploid wheat

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Abstract

A mapping population of 186 recombinant inbred lines developed from a cross between UC1110, an adapted California spring wheat, and PI610750, a synthetic derivative from CIMMYT’s Wide Cross Program, was evaluated for its response to current California races of stripe rust (Puccinia striiformis f. sp. tritici) in replicated field trials over four seasons (2007–2010) in the northern Sacramento Valley. A genetic map was constructed consisting of 1,494 polymorphic probes (SSRs, DArTs, and ESTs) mapped to 558 unique loci, and QTL analysis revealed the presence of four stripe rust resistance QTL segregating in this population, two from UC1110 (on chromosomes 3BS and 2BS) and two from PI610750 (5AL and 2AS). The two QTL of largest effects (on 3BS and 5AL) were validated in independent populations and their intervals narrowed to 2.5 and 5.3 cM, respectively. The 3BS QTL was shown, by allelism test and genotype, to carry a gene different from the Yr30/Sr2 complex. Mapped position also suggests that the 3BS QTL is associated with a gene different from either Yrns-B1 or YrRub, two stripe rust resistance genes mapped to this region in other studies. The 5AL QTL carries a previously unreported partial stripe rust resistance gene, designated here as Yr48. This paper discusses the individual contributions to resistance of these four QTL, their epistatic interactions, and their potential in durable resistance breeding strategies based on combinations of partial resistance genes.

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Notes

  1. The reported fragment length in Carter et al. (2009) of 154 bp includes a 19-bp M13 tail, which was subtracted here for the sake of comparison.

Abbreviations

AFLP:

Amplified fragment length polymorphism

ANOVA:

Analysis of variance

cM:

centiMorgan (in this population, Kosambi)

DArT:

Diversity array technology

EST:

Expressed sequence tag

HTAP:

High-temperature adult plant

LOD:

Log of the odds

NIL:

Near-isogenic line

PST:

Puccinia striiformis Westend. f. sp. tritici Eriks

QTL:

Quantitative trait locus or quantitative trait loci, depending on context

RIL:

Recombinant inbred line

SSR:

Simple sequence repeat (microsatellite)

3BS:

The short arm of chromosome 3B

5AL:

The long arm of chromosome 5A

2BS:

The short arm of chromosome 2B

2AS:

The short arm of chromosome 2A

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Acknowledgments

This project was supported by the National Research Initiative Competitive Grants 2009-65300-05640 and 2011-68002-30029 (Triticeae-CAP) from the USDA National Institute of Food and Agriculture. I. Lowe received valuable support through the Graduate Student Research Fellowship program of the UC Davis Department of Plant Sciences. L. Jankuloski received fellowship support from the International Atomic Energy Agency. The authors thank O. Chicaiza, Z. Abate, A. Distelfeld, D. Fu, F. Paraiso, C. Uauy, A. Wan, D. Feltus, M. Osenga, V. Talbott, and especially X. Zhang for excellent technical assistance.

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Correspondence to Jorge Dubcovsky.

Additional information

Communicated by P. Langridge.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Online Resource 1.

Detailed description, with images, of the parental phenotypes and the 11-point reaction type disease evaluation scale used in this study (PDF 1922 kb)

Online Resource 2.

Complete genetic map for the UC1110/PI610750 mapping population, including detailed notes and summary QTL information (PDF 222 kb)

Online Resource 3.

Searchable spreadsheet of the complete UC1110/PI610750 genetic map, including all genotypic and phenotypic data used in this study; also GSTR assignments of deposited lines (XLS 1.54 mb)

Online Resource 4.

Supplementary figures (S1-S6): Correlation scatterplots among replications within each year, correlation scatterplots between years, LOD plots of the sub-threshold 3D and 7AL QTL regions, QTL interaction plots (11-point reaction type), bar charts of effects of isolated QTL regions (reaction type), and bar chart of effects of 3BS and 5AL QTL regions by year (PDF 526 kb)

Online Resource 5.

Supplementary tables (S1-S3) summarizing validation and dissection data for the 3BS, 5AL, and 2BS QTL regions (PDF 740 kb)

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Lowe, I., Jankuloski, L., Chao, S. et al. Mapping and validation of QTL which confer partial resistance to broadly virulent post-2000 North American races of stripe rust in hexaploid wheat. Theor Appl Genet 123, 143–157 (2011). https://doi.org/10.1007/s00122-011-1573-0

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